Question: How to check the type of identifier from ensembl?
1
gravatar for Joseph Hughes
2.1 years ago by
Joseph Hughes2.6k
Scotland, UK
Joseph Hughes2.6k 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 2.1 years ago by Emily_Ensembl15k • written 2.1 years ago by Joseph Hughes2.6k
5
gravatar for EagleEye
2.1 years ago by
EagleEye5.3k
Sweden
EagleEye5.3k 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 2.1 years ago • written 2.1 years ago by EagleEye5.3k
3
gravatar for Emily_Ensembl
2.1 years ago by
Emily_Ensembl15k
EMBL-EBI
Emily_Ensembl15k 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 2.1 years ago by Emily_Ensembl15k
0
gravatar for Ensembl Helen
2.1 years 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 2.1 years ago by Ensembl Helen60
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