Sequence Ontology

A shared vocabulary for biological sequence features and annotations

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pseudogene

SO:0000336

Definition: A sequence that closely resembles a known functional gene, at another locus within a genome, that is non-functional as a consequence of (usually several) mutations that prevent either its transcription or translation (or both). In general, pseudogenes result from either reverse transcription of a transcript of their "normal" paralog (SO:0000043) (in which case the pseudogene typically lacks introns and includes a poly(A) tail) or from recombination (SO:0000044) (in which case the pseudogene is typically a tandem duplication of its "normal" paralog).

Comments and references

Definition references: http://www.ucl.ac.uk/~ucbhjow/b241/glossary.html

Synonyms

ScopeValue
exactINSDC_qualifier:pseudo
exactINSDC_qualifier:unknown
broadINSDC_feature:gene

Identifiers and subsets

Accession: SO:0000336

Persistent URL: http://purl.obolibrary.org/obo/SO_0000336

Alternate IDs: None

Subsets: Alliance_of_Genome_Resources, SOFA

Cross references: http://en.wikipedia.org/wiki/Pseudogene

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: 2020-03-27 in commit cb6662b

Number of changes: 5

Ontology neighborhood diagram

Ontology neighborhood for SO:0000336 Ontology neighborhood graph for SO:0000336 pseudogene. Parent, child, and related nodes can be activated to open their term pages. SO:0001411 biological_region SO:0001411 biological_region SO:0000336 pseudogene SO:0000336 pseudogene SO:0001760 non_processed_pseudogene SO:0001760 non_processed_pseudogene SO:0001841 polymorphic_pseudogene SO:0001841 polymorphic_pseudogene SO:0001897 transposable_element_pseudogene SO:0001897 transposable_element_pseudogene SO:0002097 vertebrate_immune_system_pseudogene SO:0002097 vertebrate_immune_system_pseudogene SO:0000043 processed_pseudogene SO:0000043 processed_pseudogene SO:0000704 gene SO:0000704 gene SO:0000516 pseudogenic_transcript SO:0000516 pseudogenic_transcript
The local DAG shows nearby parent, child, and related terms. Each node links to its own term page.

Relationships

Parents

Children

http://purl.obolibrary.org/obo/so#non_functional_homolog_of (outgoing)

http://purl.obolibrary.org/obo/so#part_of (incoming)

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
2020-03-27subset addedSubset added: Alliance_of_Genome_Resourcescb6662b
2018-01-26synonym addedSynonym added: INSDC_qualifier:unknown
Scope: exact
5fe48bd
2018-01-26synonym addedSynonym added: INSDC_qualifier:pseudo
Scope: exact
5fe48bd
2018-01-26synonym addedSynonym added: INSDC_feature:gene
Scope: broad
5fe48bd
2016-12-05createdTerm introduced into the editable ontology history
Initial label: pseudogene
Initial definition captured.
Initial parent: SO:0001411
92e3cae