Sequence Ontology

A shared vocabulary for biological sequence features and annotations

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sequence_alteration

SO:0001059

Definition: A sequence_alteration is a sequence_feature whose extent is the deviation from another sequence.

Comments and references

Merged with partially characterized change in nucleotide sequence.

Definition references: SO:ke

Synonyms

ScopeValue
exactINSDC_feature:variation
exactINSDC_note:sequence_alteration
exactsequence alteration
relatedsequence variation
broadINSDC_feature:misc_feature
narrowpartially characterised change in DNA sequence
narrowpartially_characterised_change_in_DNA_sequence
narrowuncharacterised_change_in_nucleotide_sequence

Identifiers and subsets

Accession: SO:0001059

Persistent URL: http://purl.obolibrary.org/obo/SO_0001059

Alternate IDs: SO:1000004, SO:1000007

Subsets: SOFA

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: 2018-01-26 in commit 5fe48bd

Number of changes: 4

Ontology neighborhood diagram

Ontology neighborhood for SO:0001059 Ontology neighborhood graph for SO:0001059 sequence_alteration. Parent, child, and related nodes can be activated to open their term pages. SO:0002072 sequence_comparison SO:0002072 sequence_comparison SO:0001059 sequence_alteration SO:0001059 sequence_alteration SO:0002217 unspecified_indel SO:0002217 unspecified_indel SO:0000667 insertion SO:0000667 insertion SO:0001744 UPD SO:0001744 UPD SO:1000036 inversion SO:1000036 inversion SO:0000159 deletion SO:0000159 deletion SO:1000002 substitution SO:1000002 substitution SO:0001507 variant_collection SO:0001507 variant_collection
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#has_part (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
2018-01-26synonym addedSynonym added: INSDC_note:sequence_alteration
Scope: exact
5fe48bd
2018-01-26synonym addedSynonym added: INSDC_feature:variation
Scope: exact
5fe48bd
2018-01-26synonym addedSynonym added: INSDC_feature:misc_feature
Scope: broad
5fe48bd
2016-12-05createdTerm introduced into the editable ontology history
Initial label: sequence_alteration
Initial definition captured.
Initial parent: SO:0002072
92e3cae