Sequence Ontology

A shared vocabulary for biological sequence features and annotations

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intron_gain_variant

SO:0001573

Definition: A sequence variant whereby an intron is gained by the processed transcript; usually a result of an alteration of the donor or acceptor.

Comments and references

Added "included intron" and "retained intron" as synonyms of intron_gain_variant at the request of Melissa Landrum of the NCBI on 31 July 2025 (see GitHub issue #657).

Definition references: EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html

Synonyms

ScopeValue
exactincluded intron
exactintron gain
exactintron gain variant
exactretained intron

Identifiers and subsets

Accession: SO:0001573

Persistent URL: http://purl.obolibrary.org/obo/SO_0001573

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: 2025-07-31 in commit 95d9a58

Number of changes: 4

Ontology neighborhood diagram

Ontology neighborhood for SO:0001573 Ontology neighborhood graph for SO:0001573 intron_gain_variant. Parent, child, and related nodes can be activated to open their term pages. SO:0001568 splicing_variant SO:0001568 splicing_variant SO:0001573 intron_gain_variant SO:0001573 intron_gain_variant
The local DAG shows nearby parent, child, and related terms. Each node links to its own term page.

Relationships

Parents

Children

None recorded in the current release neighborhood.

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
2025-07-31synonym addedSynonym added: retained intron
Scope: exact
95d9a58
2025-07-31synonym addedSynonym added: included intron
Scope: exact
95d9a58
2022-04-25xref removedCross reference removed: EBI:www.ebi.ac.uk/mutations/recommendations/mutevent.html476626e
2016-12-05createdTerm introduced into the editable ontology history
Initial label: intron_gain_variant
Initial definition captured.
Initial parent: SO:0001568
92e3cae