This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to check the type of identifier from ensembl?

When creating a homology adaptor, the homology members that are returned can either be protein ids or transcript ids. Is there a way of determining what type of ID is returned?

In more general terms, if I have an ensembl ID, is there a way to check whether this ID is for a transcript, gene, protein, genetree etc...

ensembl transcript protein perl api
• 3,485 views • link
updated by Emily Emily • written by Joseph Hughes Joseph Hughes

3 answers

http://www.ensembl.org/info/genome/index.html

http://www.ensembl.org/info/genome/genebuild/genome_annotation.html

ENSG - geneid ENST - transcriptid ENSP - proteinid

• 1 views • link
written by EagleEye EagleEye

EagleEye is right, but if you're wanting to code it, you could use the lookup endpoint on the REST API. If you're using the Perl API, the registry has a get_species_and_object_type method.

• 1 views • link
written by Emily Emily

Here is the direct link to our documentation page which lists the different feature prefixes: http://www.ensembl.org/info/genome/stable_ids/index.html

• 1 views • link
written by Ensembl Helen • Ensembl Helen

Log in to answer this question.

More posts like this