[ensembl-dev] retrieving PFAM domain information

[mailsvl at fastmail.fm]

Right, sorry for this last email :P Half my text has not come through...

What I wanted to say is, I can probably use the methods:
-get_all_DomainFeatures
-get_all_ProteinFeatures

Guess that'll work ;)

-Stef


----- Original message -----
From: mailsvl at fastmail.fm
To: "Ensembl DevList" <dev at ensembl.org>
Date: Tue, 14 Sep 2010 16:01:31 +0200
Subject: Re: [ensembl-dev] retrieving PFAM domain information

Ok, it seems the method:


----- Original message -----
From: mailsvl at fastmail.fm
To: "Ensembl DevList" <dev at ensembl.org>
Date: Tue, 14 Sep 2010 14:01:23 +0200
Subject: [ensembl-dev] retrieving PFAM domain information

Does anybody know how one could get for a list of genomic positions
(within exons) whether a PFAM domain (or any other protein domain
database for that matter) has been assigned to the corresponding
sequence? And is this retrievable via ensembl (API)? PFAM doesn't store
genomic information but uses UniProt for protein info...so I suppose it
should be possible to get this kind of information somewhere, right?

Thanks,
Stef
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