Question: How to check the type of identifier from ensembl?
1
gravatar for Joseph Hughes
20 months ago by
Joseph Hughes2.4k
Scotland, UK
Joseph Hughes2.4k wrote:

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...

ADD COMMENTlink modified 20 months ago by Emily_Ensembl14k • written 20 months ago by Joseph Hughes2.4k
5
gravatar for EagleEye
20 months ago by
EagleEye4.9k
Sweden
EagleEye4.9k wrote:

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

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

ENSG - geneid ENST - transcriptid ENSP - proteinid

ADD COMMENTlink modified 20 months ago • written 20 months ago by EagleEye4.9k
3
gravatar for Emily_Ensembl
20 months ago by
Emily_Ensembl14k
EMBL-EBI
Emily_Ensembl14k wrote:

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.

ADD COMMENTlink written 20 months ago by Emily_Ensembl14k
0
gravatar for Ensembl Helen
20 months ago by
EMBL-EBI
Ensembl Helen60 wrote:

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

ADD COMMENTlink written 20 months ago by Ensembl Helen60
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 849 users visited in the last hour