Sequence Ontology

A shared vocabulary for biological sequence features and annotations

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functional_effect_variant

SO:0001536

Definition: A variant whereby the effect is evaluated with respect to a reference.

Comments and references

Updated after request from Lea Starita, lea.starita@gmail.com from the NCBI.

Definition references: SO:ke

Synonyms

ScopeValue
exactfunctional effect variant
exactfunctional variant

Identifiers and subsets

Accession: SO:0001536

Persistent URL: http://purl.obolibrary.org/obo/SO_0001536

Alternate IDs: None

Subsets: None

Cross references: None

History summary

Term history is reconstructed from the Git-era ontology files by comparing ontology classes across revisions. Earlier SVN-era changes will be added at a future date.

First seen in Git-era editable history: 2016-12-05 in commit 92e3cae

Most recent Git-era change: 2019-03-01 in commit c44eb50

Number of changes: 4

Ontology neighborhood diagram

Ontology neighborhood for SO:0001536 Ontology neighborhood graph for SO:0001536 functional_effect_variant. Parent, child, and related nodes can be activated to open their term pages. SO:0001060 sequence_variant SO:0001060 sequence_variant SO:0001536 functional_effect_variant SO:0001536 functional_effect_variant SO:0002397 cellular_mislocalization_variant SO:0002397 cellular_mislocalization_variant SO:0002218 functionally_abnormal SO:0002218 functionally_abnormal SO:0002219 functionally_normal SO:0002219 functionally_normal SO:0002318 altered_gene_product_sequence SO:0002318 altered_gene_product_sequence SO:0002314 altered_gene_product_level SO:0002314 altered_gene_product_level SO:0002220 function_uncertain_variant SO:0002220 function_uncertain_variant
The local DAG shows nearby parent, child, and related terms. Each node links to its own term page.

Relationships

Parents

Children

Change history

This timeline summarizes changes identified in SO’s GitHub commit history, including updates to labels, definitions, parent terms, synonyms, subsets, and obsoletion status. It is a best-effort reconstruction and may not include every change to a term. Since only history from GitHub is included at the moment, any term added before the migration from SVN to Git will show as being created in 2016. This will be addressed once SVN history is incorporated.

DateChangeSummaryEvidence
2019-03-01synonym addedSynonym added: functional effect variant
Scope: exact
c44eb50
2019-03-01definition changedDefinition updated
Before: A sequence variant in which the function of a gene product is altered with respect to a reference.
After: A variant whereby the effect is evaluated with respect to a reference.
c44eb50
2019-03-01label changedLabel changed from functional_variant to functional_effect_variant
Before: functional_variant
After: functional_effect_variant
c44eb50
2016-12-05createdTerm introduced into the editable ontology history
Initial label: functional_variant
Initial definition captured.
Initial parent: SO:0001060
92e3cae