Ensembl Compara annotation projection

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Method

Since December 2006, the UniProtKB-GOA and Ensembl Compara teams have used the gene orthology data obtained from Ensembl Compara to project GO terms from a source species onto one or more target species.

Only one to one and apparent one to one orthologies are used, and only manually annotated GO terms with an experimental evidence code of either IDA, IEP, IGI, IMP or IPI are projected. GO annotations created using this technique will receive the evidence code 'IEA' (Inferred from Electronic Annotation). All projections and the resulting annotations are updated monthly. More information about the Compara homology method can be found here.

GO Reference

This method has the GO reference GO_REF:0000019. Abstracts for all GO references can be seen here.

Annotations

In the UniProtKB-GOA gene association files (Fig. 1), the Ensembl protein identifier of the annotation source will be indicated in column 8 ('With') and column 15 (Source DB) will contain the value 'Ensembl'. Column 6 (DB:Reference) indicates that this method has the GO reference: GO_REF:0000019. The Ensembl compara projections can also be viewed in QuickGO.

Figure 1. Representation of an Ensembl compara annotation in the gene association file. The annotation has been projected from mouse to human.

Compara Fig.png

Species covered

Projections are made as follows;

  • human and mouse to all vertebrates
  • rat to human and mouse
  • zebrafish to other fish and frogs
  • Drosophila to Aedes

A total of almost 50 species receives annotations from the Compara projection method.