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Sequence types and features ontology (SO)

A structured controlled vocabulary for sequence annotation, for the exchange of annotation data and for the description of sequence objects in databases.

Open in the Ontology Lookup Service (OLS)

1 - <new term> [SO_0002117]

[]

Open in VFB

Term Information

  • ID: SO_0002117
  • Name:
  • Definition:
  • Synonyms:
  • Type:
  • Comment: []

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002117",
            "symbol": "",
            "types": [
                "Entity",
                "Class",
                "Deprecated"
            ],
            "short_form": "SO_0002117",
            "unique_facets": [
                "Deprecated"
            ],
            "label": "<new term>"
        },
        "description": [],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "c58c844",
    "parents": [],
    "relationships": [],
    "related_individuals": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": []
}

2 - 2KB_downstream_variant [SO_0002083]

A sequence variant located within 2KB 3’ of a gene.

Open 2KB_downstream_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002083",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002083",
            "label": "2KB_downstream_variant"
        },
        "description": [
            "A sequence variant located within 2KB 3' of a gene."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001632",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001632",
            "label": "downstream_gene_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Seattleseq:near-gene-3",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

3 - 2KB_upstream_variant [SO_0001636]

A sequence variant located within 2KB 5’ of a gene.

Open 2KB_upstream_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001636",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001636",
            "label": "2KB_upstream_variant"
        },
        "description": [
            "A sequence variant located within 2KB 5' of a gene."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001631",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001631",
            "label": "upstream_gene_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "2KB upstream variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

4 - 3_prime_UTR_elongation [SO_0002016]

A sequence variant that causes the extension of 3’ UTR, with regard to the reference sequence.

Open 3_prime_UTR_elongation in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002016",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002016",
            "label": "3_prime_UTR_elongation"
        },
        "description": [
            "A sequence variant that causes the extension of 3' UTR, with regard to the reference sequence."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001624",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001624",
            "label": "3_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "3 prime UTR elongation",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

5 - 3_prime_UTR_exon_variant [SO_0002089]

A UTR variant of exonic sequence of the 3’ UTR. Requested by visze github tracker ID 346.

Open 3_prime_UTR_exon_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002089",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002089",
            "label": "3_prime_UTR_exon_variant"
        },
        "description": [
            "A UTR variant of exonic sequence of the 3' UTR."
        ],
        "comment": [
            "Requested by visze github tracker ID 346."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001624",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001624",
            "label": "3_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "3 prime UTR exon variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

6 - 3_prime_UTR_intron_variant [SO_0002090]

A UTR variant of intronic sequence of the 3’ UTR. Requested by visze github tracker ID 346.

Open 3_prime_UTR_intron_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002090",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002090",
            "label": "3_prime_UTR_intron_variant"
        },
        "description": [
            "A UTR variant of intronic sequence of the 3' UTR."
        ],
        "comment": [
            "Requested by visze github tracker ID 346."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001624",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001624",
            "label": "3_prime_UTR_variant"
        },
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001969",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001969",
            "label": "coding_transcript_intron_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "3 prime UTR intron variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

7 - 3_prime_UTR_truncation [SO_0002015]

A sequence variant that causes the reduction of a the 3’ UTR with regard to the reference sequence.

Open 3_prime_UTR_truncation in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002015",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002015",
            "label": "3_prime_UTR_truncation"
        },
        "description": [
            "A sequence variant that causes the reduction of a the 3' UTR with regard to the reference sequence."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001624",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001624",
            "label": "3_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "snpEff:UTR_3_DELETED",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "3 prime UTR truncation",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

8 - 3_prime_UTR_variant [SO_0001624]

A UTR variant of the 3’ UTR. EBI term 3prime UTR variations - In 3prime UTR.

Open 3_prime_UTR_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001624",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001624",
            "label": "3_prime_UTR_variant"
        },
        "description": [
            "A UTR variant of the 3' UTR."
        ],
        "comment": [
            "EBI term 3prime UTR variations - In 3prime UTR."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001622",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001622",
            "label": "UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Seattleseq:3-prime-UTR",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VAAST:three_prime_UTR_variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VAAST:3_prime_UTR_variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "snpEff:UTR_3_PRIME",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "3'UTR variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "three prime UTR variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VEP:3_prime_UTR_variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_related_synonym",
                "label": "ANNOVAR:UTR3",
                "type": "http://purl.obolibrary.org/obo/so#VAR"
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

9 - 3D_polypeptide_structure_variant [SO_0001599]

A sequence variant that changes the resulting polypeptide structure.

Open 3D_polypeptide_structure_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001599",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001599",
            "label": "3D_polypeptide_structure_variant"
        },
        "description": [
            "A sequence variant that changes the resulting polypeptide structure."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001539",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001539",
            "label": "translational_product_function_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "3D polypeptide structure variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

10 - 4_methylcytosine [SO_0001919]

A cytosine methylated at the 4 nitrogen.

Open 4_methylcytosine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001919",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001919",
            "label": "4_methylcytosine"
        },
        "description": [
            "A cytosine methylated at the 4 nitrogen."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000114",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000114",
            "label": "methylated_cytosine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "m-4C",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "N4 methylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "N4-methylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "N4_methylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "m4c",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "4-mC",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "4-methylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

11 - 5_carboxylcytosine [SO_0001966]

A modified DNA cytosine base feature, modified by a carboxy group at the 5 carbon.

Open 5_carboxylcytosine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001966",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001966",
            "label": "5_carboxylcytosine"
        },
        "description": [
            "A modified DNA cytosine base feature, modified by a carboxy group at the 5 carbon."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001963",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001963",
            "label": "modified_cytosine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-carboxycytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-caC",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

12 - 5_formylcytosine [SO_0001961]

A modified DNA cytosine base feature, modified by a formyl group at the 5 carbon.

Open 5_formylcytosine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001961",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001961",
            "label": "5_formylcytosine"
        },
        "description": [
            "A modified DNA cytosine base feature, modified by a formyl group at the 5 carbon."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001963",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001963",
            "label": "modified_cytosine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-formylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-fC",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

13 - 5_hydroxymethylcytosine [SO_0001960]

A modified DNA cytosine base feature, modified by a hydroxymethyl group at the 5 carbon.

Open 5_hydroxymethylcytosine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001960",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001960",
            "label": "5_hydroxymethylcytosine"
        },
        "description": [
            "A modified DNA cytosine base feature, modified by a hydroxymethyl group at the 5 carbon."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000114",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000114",
            "label": "methylated_cytosine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-hydroxymethylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-hmC",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

14 - 5_methylcytosine [SO_0001918]

A cytosine methylated at the 5 carbon.

Open 5_methylcytosine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001918",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001918",
            "label": "5_methylcytosine"
        },
        "description": [
            "A cytosine methylated at the 5 carbon."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000114",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000114",
            "label": "methylated_cytosine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "m-5C",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5-mC",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5 methylcytosine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "m5c",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

15 - 5_prime_UTR_elongation [SO_0002014]

A sequence variant that causes the extension of 5’ UTR, with regard to the reference sequence.

Open 5_prime_UTR_elongation in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002014",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002014",
            "label": "5_prime_UTR_elongation"
        },
        "description": [
            "A sequence variant that causes the extension of 5' UTR, with regard to the reference sequence."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001623",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001623",
            "label": "5_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5 prime UTR elongation",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

16 - 5_prime_UTR_exon_variant [SO_0002092]

A UTR variant of exonic sequence of the 5’ UTR. Requested by visze github tracker ID 346.

Open 5_prime_UTR_exon_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002092",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002092",
            "label": "5_prime_UTR_exon_variant"
        },
        "description": [
            "A UTR variant of exonic sequence of the 5' UTR."
        ],
        "comment": [
            "Requested by visze github tracker ID 346."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001623",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001623",
            "label": "5_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5 prime UTR exon variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

17 - 5_prime_UTR_intron_variant [SO_0002091]

A UTR variant of intronic sequence of the 5’ UTR. Requested by visze github tracker ID 346.

Open 5_prime_UTR_intron_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002091",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002091",
            "label": "5_prime_UTR_intron_variant"
        },
        "description": [
            "A UTR variant of intronic sequence of the 5' UTR."
        ],
        "comment": [
            "Requested by visze github tracker ID 346."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001969",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001969",
            "label": "coding_transcript_intron_variant"
        },
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001623",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001623",
            "label": "5_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5 prime UTR intron variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

18 - 5_prime_UTR_premature_start_codon_gain_variant [SO_0001988]

A 5’ UTR variant where a premature start codon is gained.

Open 5_prime_UTR_premature_start_codon_gain_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001988",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001988",
            "label": "5_prime_UTR_premature_start_codon_gain_variant"
        },
        "description": [
            "A 5' UTR variant where a premature start codon is gained."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001983",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001983",
            "label": "5_prime_UTR_premature_start_codon_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "snpEff:START_GAINED",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5 prime UTR premature start codon gain variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

19 - 5_prime_UTR_premature_start_codon_loss_variant [SO_0001989]

A 5’ UTR variant where a premature start codon is lost.

Open 5_prime_UTR_premature_start_codon_loss_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001989",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001989",
            "label": "5_prime_UTR_premature_start_codon_loss_variant"
        },
        "description": [
            "A 5' UTR variant where a premature start codon is lost."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001983",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001983",
            "label": "5_prime_UTR_premature_start_codon_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

20 - 5_prime_UTR_premature_start_codon_variant [SO_0001983]

A 5’ UTR variant where a premature start codon is introduced, moved or lost. Requested by Andy Menzies at the Sanger. This isn’t necessarily a protein coding change. A premature start codon can effect the production of a mature protein product by providing a competing translation start point. Some genes balance their expression this way, eg THPO requires the presence of a premature start to limit expression, its loss leads to Familial thrombocythemia.

Open 5_prime_UTR_premature_start_codon_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001983",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001983",
            "label": "5_prime_UTR_premature_start_codon_variant"
        },
        "description": [
            "A 5' UTR variant where a premature start codon is introduced, moved or lost."
        ],
        "comment": [
            "Requested by Andy Menzies at the Sanger. This isn't necessarily a protein coding change. A premature start codon can effect the production of a mature protein product by providing a competing translation start point. Some genes balance their expression this way, eg THPO requires the presence of a premature start to limit expression, its loss leads to Familial thrombocythemia."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001623",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001623",
            "label": "5_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5' UTR premature start codon variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

21 - 5_prime_UTR_truncation [SO_0002013]

A sequence variant that causes the reduction of a the 5’UTR with regard to the reference sequence.

Open 5_prime_UTR_truncation in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002013",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002013",
            "label": "5_prime_UTR_truncation"
        },
        "description": [
            "A sequence variant that causes the reduction of a the 5'UTR with regard to the reference sequence."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001623",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001623",
            "label": "5_prime_UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5 prime UTR truncation",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "snpEff:UTR_5_DELETED",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

22 - 5_prime_UTR_variant [SO_0001623]

A UTR variant of the 5’ UTR. EBI term: 5prime UTR variations - In 5prime UTR (untranslated region).

Open 5_prime_UTR_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001623",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001623",
            "label": "5_prime_UTR_variant"
        },
        "description": [
            "A UTR variant of the 5' UTR."
        ],
        "comment": [
            "EBI term: 5prime UTR variations - In 5prime UTR (untranslated region)."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001622",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001622",
            "label": "UTR_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5'UTR variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VEP:5_prime_UTR_variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "snpEff:UTR_5_PRIME",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Seattleseq:5-prime-UTR",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "five prime UTR variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VAAST:five_prime_UTR_variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VAAST:5_prime_UTR_variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_related_synonym",
                "label": "ANNOVAR:UTR5",
                "type": "http://purl.obolibrary.org/obo/so#VAR"
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

23 - 500B_downstream_variant [SO_0001634]

A sequence variant located within a half KB of the end of a gene.

Open 500B_downstream_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001634",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001634",
            "label": "500B_downstream_variant"
        },
        "description": [
            "A sequence variant located within a half KB of the end of a gene."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001632",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001632",
            "label": "downstream_gene_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "500B downstream variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

24 - 5KB_downstream_variant [SO_0001633]

A sequence variant located within 5 KB of the end of a gene. EBI term Downstream variations - Within 5 kb downstream of the 3prime end of a transcript.

Open 5KB_downstream_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001633",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001633",
            "label": "5KB_downstream_variant"
        },
        "description": [
            "A sequence variant located within 5 KB of the end of a gene."
        ],
        "comment": [
            "EBI term Downstream variations - Within 5 kb downstream of the 3prime end of a transcript."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001632",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001632",
            "label": "downstream_gene_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5KB downstream variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Seattleseq:downstream-gene",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_related_synonym",
                "label": "within 5KB downstream",
                "type": "http://purl.obolibrary.org/obo/so#VAR"
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

25 - 5KB_upstream_variant [SO_0001635]

A sequence variant located within 5KB 5’ of a gene. EBI term Upstream variations - Within 5 kb upstream of the 5prime end of a transcript.

Open 5KB_upstream_variant in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001635",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001635",
            "label": "5KB_upstream_variant"
        },
        "description": [
            "A sequence variant located within 5KB 5' of a gene."
        ],
        "comment": [
            "EBI term Upstream variations - Within 5 kb upstream of the 5prime end of a transcript."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001631",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001631",
            "label": "upstream_gene_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "5kb upstream variant",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Seattleseq:upstream-gene",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

26 - 8_oxoadenine [SO_0001967]

A modified DNA adenine base,at the 8 carbon, often the product of DNA damage.

Open 8_oxoadenine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001967",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001967",
            "label": "8_oxoadenine"
        },
        "description": [
            "A modified DNA adenine base,at the 8 carbon, often the product of DNA damage."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001962",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001962",
            "label": "modified_adenine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "8-oxoA",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "8-oxoadenine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

27 - 8_oxoguanine [SO_0001965]

A modified DNA guanine base,at the 8 carbon, often the product of DNA damage.

Open 8_oxoguanine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001965",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001965",
            "label": "8_oxoguanine"
        },
        "description": [
            "A modified DNA guanine base,at the 8 carbon, often the product of DNA damage."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001964",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001964",
            "label": "modified_guanine"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "8-oxoguanine",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "8-oxoG",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

28 - A_box_type_1 [SO_0001675]

An A box within an RNA polymerase III type 1 promoter. The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true.

Open A_box_type_1 in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001675",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001675",
            "label": "A_box_type_1"
        },
        "description": [
            "An A box within an RNA polymerase III type 1 promoter."
        ],
        "comment": [
            "The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000619",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000619",
            "label": "wiki"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/BFO_0000050",
                "label": "is part of",
                "type": "part_of"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0000617",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0000617",
                "label": "RNApol_III_promoter_type_1"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_related_synonym",
                "label": "A box type 1",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

29 - A_box_type_2 [SO_0001676]

An A box within an RNA polymerase III type 2 promoter. The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true.

Open A_box_type_2 in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001676",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001676",
            "label": "A_box_type_2"
        },
        "description": [
            "An A box within an RNA polymerase III type 2 promoter."
        ],
        "comment": [
            "The A box can be found in the promoters of type 1 and type 2 (pol III) so sub-typing here allows the part of relationship of the subtypes to remain true."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000619",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000619",
            "label": "wiki"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/BFO_0000050",
                "label": "is part of",
                "type": "part_of"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0000618",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0000618",
                "label": "RNApol_III_promoter_type_2"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_related_synonym",
                "label": "A box type 2",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

30 - A_minor_RNA_motif [SO_0000022]

A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix.

Open A_minor_RNA_motif in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000022",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000022",
            "label": "A_minor_RNA_motif"
        },
        "description": [
            "A region forming a motif, composed of adenines, where the minor groove edges are inserted into the minor groove of another helix."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000715",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000715",
            "label": "RNA_motif"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "A minor RNA motif",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

31 - A_to_C_transversion [SO_1000024]

A transversion from adenine to cytidine.

Open A_to_C_transversion in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_1000024",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1000024",
            "label": "A_to_C_transversion"
        },
        "description": [
            "A transversion from adenine to cytidine."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_1000023",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1000023",
            "label": "purine_to_pyrimidine_transversion"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "A to C transversion",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

32 - A_to_G_transition [SO_1000015]

A transition of an adenine to a guanine.

Open A_to_G_transition in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_1000015",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1000015",
            "label": "A_to_G_transition"
        },
        "description": [
            "A transition of an adenine to a guanine."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_1000014",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1000014",
            "label": "purine_transition"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "A to G transition",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

33 - A_to_T_transversion [SO_1000025]

A transversion from adenine to thymine.

Open A_to_T_transversion in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_1000025",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1000025",
            "label": "A_to_T_transversion"
        },
        "description": [
            "A transversion from adenine to thymine."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_1000023",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1000023",
            "label": "purine_to_pyrimidine_transversion"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "A to T transversion",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

34 - AACCCT_box [SO_0001901]

A conserved 17-bp sequence (5’-ATCA(C/A)AACCCTAACCCT-3’) commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site.

Open AACCCT_box in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001901",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001901",
            "label": "AACCCT_box"
        },
        "description": [
            "A conserved 17-bp sequence (5'-ATCA(C/A)AACCCTAACCCT-3') commonly present upstream of the start site of histone transcription units functioning as a transcription factor binding site."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001660",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001660",
            "label": "core_eukaryotic_promoter_element"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "AACCCT box",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

35 - aberrant_processed_transcript [SO_0000681]

A transcript that has been processed “incorrectly”, for example by the failure of splicing of one or more exons.

Open aberrant_processed_transcript in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000681",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000681",
            "label": "aberrant_processed_transcript"
        },
        "description": [
            "A transcript that has been processed \"incorrectly\", for example by the failure of splicing of one or more exons."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000673",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000673",
            "label": "transcript"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "aberrant processed transcript",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

36 - accessible_DNA_region [SO_0002331]

A region of DNA that is depleted of nucleosomes and accessible to DNA-binding proteins including transcription factors and nucleases. Added as part of GREEKC terms. See GitHub Issues #531 & #534.

Open accessible_DNA_region in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002331",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002331",
            "label": "accessible_DNA_region"
        },
        "description": [
            "A region of DNA that is depleted of nucleosomes and accessible to DNA-binding proteins including transcription factors and nucleases."
        ],
        "comment": [
            "Added as part of GREEKC terms. See GitHub Issues #531 & #534."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001411",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001411",
            "label": "biological_region"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/RO_0002131",
                "label": "overlaps",
                "type": "overlaps"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0001720",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0001720",
                "label": "epigenetically_modified_region"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "accessible DNA region",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

37 - Ace2_UAS [SO_0001857]

A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2.

Open Ace2_UAS in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001857",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001857",
            "label": "Ace2_UAS"
        },
        "description": [
            "A promoter element with consensus sequence CCAGCC, bound by the fungal transcription factor Ace2."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001659",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001659",
            "label": "promoter_element"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Ace2 upstream activating sequence",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

38 - active_peptide [SO_0001064]

Active peptides are proteins which are biologically active, released from a precursor molecule. Hormones, neuropeptides, antimicrobial peptides, are active peptides. They are typically short (<40 amino acids) in length.

Open active_peptide in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001064",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001064",
            "label": "active_peptide"
        },
        "description": [
            "Active peptides are proteins which are biologically active, released from a precursor molecule."
        ],
        "comment": [
            "Hormones, neuropeptides, antimicrobial peptides, are active peptides. They are typically short (<40 amino acids) in length."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000419",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000419",
            "label": "mature_protein_region"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "active peptide",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

39 - adaptive_island [SO_0000775]

An adaptive island is a genomic island that provides an adaptive advantage to the host. The iron-uptake ability of many pathogens are conveyed by adaptive islands. Nature Reviews Microbiology 2, 414-424 (2004); doi:10.1038 micro 884 GENOMIC ISLANDS IN PATHOGENIC AND ENVIRONMENTAL MICROORGANISMS Ulrich Dobrindt, Bianca Hochhut, Ute Hentschel & Jorg Hacker.

Open adaptive_island in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000775",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000775",
            "label": "adaptive_island"
        },
        "description": [
            "An adaptive island is a genomic island that provides an adaptive advantage to the host."
        ],
        "comment": [
            "The iron-uptake ability of many pathogens are conveyed by adaptive islands. Nature Reviews Microbiology 2, 414-424 (2004); doi:10.1038 micro 884 GENOMIC ISLANDS IN PATHOGENIC AND ENVIRONMENTAL MICROORGANISMS Ulrich Dobrindt, Bianca Hochhut, Ute Hentschel & Jorg Hacker."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000772",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000772",
            "label": "wiki"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "adaptive island",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

40 - alanine [SO_0001435]

A non-polar, hydorophobic amino acid encoded by the codons GCN (GCT, GCC, GCA and GCG). A place holder for a cross product with chebi.

Open alanine in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001435",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001435",
            "label": "alanine"
        },
        "description": [
            "A non-polar, hydorophobic amino acid encoded by the codons GCN (GCT, GCC, GCA and GCG)."
        ],
        "comment": [
            "A place holder for a cross product with chebi."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001237",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001237",
            "label": "wiki"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "A",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Ala",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

41 - alanine_tRNA_primary_transcript [SO_0000211]

A primary transcript encoding alanyl tRNA.

Open alanine_tRNA_primary_transcript in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000211",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000211",
            "label": "alanine_tRNA_primary_transcript"
        },
        "description": [
            "A primary transcript encoding alanyl tRNA."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000210",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000210",
            "label": "tRNA_primary_transcript"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alanine tRNA primary transcript",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

42 - alanyl_tRNA [SO_0000254]

A tRNA sequence that has an alanine anticodon, and a 3’ alanine binding region.

Open alanyl_tRNA in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000254",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000254",
            "label": "alanyl_tRNA"
        },
        "description": [
            "A tRNA sequence that has an alanine anticodon, and a 3' alanine binding region."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000253",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000253",
            "label": "tRNA"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/so#derives_from",
                "label": "derives_from",
                "type": "derives_from"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0000211",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0000211",
                "label": "alanine_tRNA_primary_transcript"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alanyl-transfer RNA",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alanyl tRNA",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alanyl-transfer ribonucleic acid",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

43 - allele [SO_0001023]

An allele is one of a set of coexisting sequence variants of a gene.

Open allele in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001023",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001023",
            "label": "allele"
        },
        "description": [
            "An allele is one of a set of coexisting sequence variants of a gene."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001507",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001507",
            "label": "variant_collection"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/so#variant_of",
                "label": "variant_of",
                "type": "variant_of"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0000704",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0000704",
                "label": "gene"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "allelomorph",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

44 - allelic_frequency [SO_0002119]

A physical quality which inheres to the allele by virtue of the number instances of the allele within a population. This is the relative frequency of the allele at a given locus in a population. Requested by HL7 clinical genomics group.

Open allelic_frequency in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002119",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002119",
            "label": "allelic_frequency"
        },
        "description": [
            "A physical quality which inheres to the allele by virtue of the number instances of the allele within a population. This is the relative frequency of the allele at a given locus in a population."
        ],
        "comment": [
            "Requested by HL7 clinical genomics group."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001763",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001763",
            "label": "variant_frequency"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

45 - allelically_excluded [SO_0000137]

Allelic exclusion is a process occurring in diploid organisms, where a gene is inactivated and not expressed in that cell. Examples are x-inactivation and immunoglobulin formation.

Open allelically_excluded in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000137",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000137",
            "label": "allelically_excluded"
        },
        "description": [
            "Allelic exclusion is a process occurring in diploid organisms, where a gene is inactivated and not expressed in that cell."
        ],
        "comment": [
            "Examples are x-inactivation and immunoglobulin formation."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000133",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000133",
            "label": "epigenetically_modified"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "allelically excluded",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

46 - allelically_excluded_gene [SO_0000897]

A gene that is allelically_excluded.

Open allelically_excluded_gene in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000897",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000897",
            "label": "allelically_excluded_gene"
        },
        "description": [
            "A gene that is allelically_excluded."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000898",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000898",
            "label": "epigenetically_modified_gene"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/so#has_quality",
                "label": "has_quality",
                "type": "has_quality"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0000137",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0000137",
                "label": "allelically_excluded"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "allelically excluded gene",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

47 - allopolyploid [SO_0001256]

A polyploid where the multiple chromosome set was derived from a different organism.

Open allopolyploid in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001256",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001256",
            "label": "allopolyploid"
        },
        "description": [
            "A polyploid where the multiple chromosome set was derived from a different organism."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001254",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001254",
            "label": "wiki"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

48 - alpha_beta_motif [SO_0100008]

A motif of five consecutive residues and two H-bonds in which: H-bond between CO of residue(i) and NH of residue(i+4), H-bond between CO of residue(i) and NH of residue(i+3),Phi angles of residues(i+1), (i+2) and (i+3) are negative.

Open alpha_beta_motif in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0100008",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0100008",
            "label": "alpha_beta_motif"
        },
        "description": [
            "A motif of five consecutive residues and two H-bonds in which: H-bond between CO of residue(i) and NH of residue(i+4), H-bond between CO of residue(i) and NH of residue(i+3),Phi angles of residues(i+1), (i+2) and (i+3) are negative."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001078",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001078",
            "label": "polypeptide_secondary_structure"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alpha beta motif",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

49 - alteration_attribute [SO_0001508]

An attribute of alteration of one or more chromosomes.

Open alteration_attribute in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001508",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001508",
            "label": "alteration_attribute"
        },
        "description": [
            "An attribute of alteration of one or more chromosomes."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000733",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000733",
            "label": "feature_attribute"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alteration attribute",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

50 - alternate_sequence_site [SO_0001149]

Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting. Discrete.

Open alternate_sequence_site in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001149",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001149",
            "label": "alternate_sequence_site"
        },
        "description": [
            "Description of sequence variants produced by alternative splicing, alternative promoter usage, alternative initiation and ribosomal frameshifting."
        ],
        "comment": [
            "Discrete."
        ]
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001146",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001146",
            "label": "polypeptide_variation_site"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alternative_sequence",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_narrow_synonym",
                "label": "isoform",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_narrow_synonym",
                "label": "varsplic",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_narrow_synonym",
                "label": "sequence variation",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

51 - alternately_spliced_gene_encodeing_one_transcript [SO_0000503]

[alternately_spliced_gene_encodeing_one_transcript]

Open alternately_spliced_gene_encodeing_one_transcript in VFB

Term Information

  • ID: SO_0000503
  • Name: alternately_spliced_gene_encodeing_one_transcript
  • Definition:
  • Synonyms:
  • Type:
  • Comment: [alternately_spliced_gene_encodeing_one_transcript]

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000503",
            "symbol": "",
            "types": [
                "Entity",
                "Class",
                "Deprecated"
            ],
            "short_form": "SO_0000503",
            "unique_facets": [
                "Deprecated"
            ],
            "label": "alternately_spliced_gene_encodeing_one_transcript"
        },
        "description": [],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "c58c844",
    "parents": [],
    "relationships": [],
    "related_individuals": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": []
}

52 - alternately_spliced_gene_encoding_greater_than_one_transcript [SO_0000543]

[alternately_spliced_gene_encoding_greater_than_one_transcript]

Open alternately_spliced_gene_encoding_greater_than_one_transcript in VFB

Term Information

  • ID: SO_0000543
  • Name: alternately_spliced_gene_encoding_greater_than_one_transcript
  • Definition:
  • Synonyms:
  • Type:
  • Comment: [alternately_spliced_gene_encoding_greater_than_one_transcript]

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000543",
            "symbol": "",
            "types": [
                "Entity",
                "Class",
                "Deprecated"
            ],
            "short_form": "SO_0000543",
            "unique_facets": [
                "Deprecated"
            ],
            "label": "alternately_spliced_gene_encoding_greater_than_one_transcript"
        },
        "description": [],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "c58c844",
    "parents": [],
    "relationships": [],
    "related_individuals": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": []
}

53 - alternatively_spliced [SO_0000877]

An attribute describing a situation where a gene may encode for more than 1 transcript.

Open alternatively_spliced in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0000877",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000877",
            "label": "alternatively_spliced"
        },
        "description": [
            "An attribute describing a situation where a gene may encode for more than 1 transcript."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000237",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000237",
            "label": "transcript_attribute"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alternatively spliced",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

54 - alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping [SO_1001194]

[alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping]

Open alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping in VFB

Term Information

  • ID: SO_1001194
  • Name: alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping
  • Definition:
  • Synonyms:
  • Type:
  • Comment: [alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping]

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_1001194",
            "symbol": "",
            "types": [
                "Entity",
                "Class",
                "Deprecated"
            ],
            "short_form": "SO_1001194",
            "unique_facets": [
                "Deprecated"
            ],
            "label": "alternatively_spliced_gene_encoding_greater_than_1_polypeptide_coding_regions_overlapping"
        },
        "description": [],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "c58c844",
    "parents": [],
    "relationships": [],
    "related_individuals": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": []
}

55 - alternatively_spliced_transcript [SO_1001187]

A transcript that is alternatively spliced.

Open alternatively_spliced_transcript in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_1001187",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_1001187",
            "label": "alternatively_spliced_transcript"
        },
        "description": [
            "A transcript that is alternatively spliced."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0000673",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0000673",
            "label": "transcript"
        }
    ],
    "relationships": [
        {
            "relation": {
                "iri": "http://purl.obolibrary.org/obo/so#has_quality",
                "label": "has_quality",
                "type": "has_quality"
            },
            "object": {
                "symbol": "",
                "iri": "http://purl.obolibrary.org/obo/SO_0000877",
                "types": [
                    "Entity",
                    "Class"
                ],
                "short_form": "SO_0000877",
                "label": "alternatively_spliced"
            }
        }
    ],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "alternatively spliced transcript",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

56 - alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping [SO_1001244]

[alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping; alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non-overlapping]

Open alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping in VFB

Term Information

  • ID: SO_1001244
  • Name: alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping
  • Definition:
  • Synonyms:
  • Type:
  • Comment: [alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping; alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non-overlapping]

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_1001244",
            "symbol": "",
            "types": [
                "Entity",
                "Class",
                "Deprecated"
            ],
            "short_form": "SO_1001244",
            "unique_facets": [
                "Deprecated"
            ],
            "label": "alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non_overlapping"
        },
        "description": [],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "c58c844",
    "parents": [],
    "relationships": [],
    "related_individuals": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_related_synonym",
                "label": "alternatively_spliced_transcript_encoding_greater_than_1_polypeptide_different_start_codon_different_stop_codon_coding_regions_non-overlapping",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "unique_facets": [
                        "pub"
                    ],
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": []
}

57 - Alu_deletion [SO_0002070]

A deletion of an Alu mobile element with respect to a reference.

Open Alu_deletion in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002070",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002070",
            "label": "Alu_deletion"
        },
        "description": [
            "A deletion of an Alu mobile element with respect to a reference."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0002066",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002066",
            "label": "mobile_element_deletion"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

58 - Alu_insertion [SO_0002063]

An insertion of sequence from the Alu family of mobile elements.

Open Alu_insertion in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0002063",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0002063",
            "label": "Alu_insertion"
        },
        "description": [
            "An insertion of sequence from the Alu family of mobile elements."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001837",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001837",
            "label": "mobile_element_insertion"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "Alu insertion",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

59 - ambisense_ssRNA_viral_sequence [SO_0001202]

A ambisense_RNA_virus is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus with both messenger and anti messenger polarity.

Open ambisense_ssRNA_viral_sequence in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001202",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001202",
            "label": "ambisense_ssRNA_viral_sequence"
        },
        "description": [
            "A ambisense_RNA_virus is a ss_RNA_viral_sequence that is the sequence of a single stranded RNA virus with both messenger and anti messenger polarity."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001199",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001199",
            "label": "ss_RNA_viral_sequence"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "ambisense single stranded RNA virus",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "ambisense ssRNA viral sequence",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

60 - amino_acid_deletion [SO_0001604]

A sequence variant within a CDS resulting in the loss of an amino acid from the resulting polypeptide.

Open amino_acid_deletion in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001604",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001604",
            "label": "amino_acid_deletion"
        },
        "description": [
            "A sequence variant within a CDS resulting in the loss of an amino acid from the resulting polypeptide."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001603",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001603",
            "label": "polypeptide_sequence_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "amino acid deletion",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

61 - amino_acid_insertion [SO_0001605]

A sequence variant within a CDS resulting in the gain of an amino acid to the resulting polypeptide.

Open amino_acid_insertion in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001605",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001605",
            "label": "amino_acid_insertion"
        },
        "description": [
            "A sequence variant within a CDS resulting in the gain of an amino acid to the resulting polypeptide."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001603",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001603",
            "label": "polypeptide_sequence_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "amino acid insertion",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",
            "PubMed": "",
            "DOI": ""
        }
    ]
}

62 - amino_acid_substitution [SO_0001606]

A sequence variant of a codon resulting in the substitution of one amino acid for another in the resulting polypeptide.

Open amino_acid_substitution in VFB

VFB Term Json

{
    "term": {
        "core": {
            "iri": "http://purl.obolibrary.org/obo/SO_0001606",
            "symbol": "",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001606",
            "label": "amino_acid_substitution"
        },
        "description": [
            "A sequence variant of a codon resulting in the substitution of one amino acid for another in the resulting polypeptide."
        ],
        "comment": []
    },
    "query": "Get JSON for Class",
    "version": "44725ae",
    "parents": [
        {
            "symbol": "",
            "iri": "http://purl.obolibrary.org/obo/SO_0001603",
            "types": [
                "Entity",
                "Class"
            ],
            "short_form": "SO_0001603",
            "label": "polypeptide_sequence_variant"
        }
    ],
    "relationships": [],
    "xrefs": [],
    "anatomy_channel_image": [],
    "pub_syn": [
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "VAAST:amino_acid_substitution",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        },
        {
            "synonym": {
                "scope": "has_exact_synonym",
                "label": "amino acid substitution",
                "type": ""
            },
            "pub": {
                "core": {
                    "symbol": "",
                    "iri": "http://flybase.org/reports/Unattributed",
                    "types": [
                        "Entity",
                        "Individual",
                        "pub"
                    ],
                    "short_form": "Unattributed",
                    "label": ""
                },
                "FlyBase": "",
                "PubMed": "",
                "DOI": ""
            }
        }
    ],
    "def_pubs": [
        {
            "core": {
                "symbol": "",
                "iri": "http://flybase.org/reports/Unattributed",
                "types": [
                    "Entity",
                    "Individual",
                    "pub"
                ],
                "short_form": "Unattributed",
                "label": ""
            },
            "FlyBase": "",