[ensembl-dev] Protein Sequence

[Stuart Meacham]

That's really helpful Javier, thank you.

Stuart

On 22/06/12 10:00, Javier Herrero wrote:
>
> Hi Stuart
>
> Bert is right, the protein sequences are not stored in the core 
> database. However you can find a copy of all proteins in Ensembl in 
> the compara database. We need them in the compara database in order to 
> speed up the retrieval of protein sequences from all species at once.
>
> Have a look at the member and sequence tables.
>
> I hope this helps
>
> Javier
>
> Sent from my Kindle Fire
>
>
>
> ------------------------------------------------------------------------
> *From:* Bert Overduin <bert at ebi.ac.uk>
> *Sent:* Fri Jun 22 10:20:30 GMT+02:00 2012
> *To:* Ensembl developers list <dev at ensembl.org>
> *Subject:* Re: [ensembl-dev] Protein Sequence
>
> Hi Stuart,
>
> No, protein sequences are generated on the fly.
>
> Cheers,
> Bert
>
> On Fri, Jun 22, 2012 at 8:54 AM, Stuart Meacham<sm12 at sanger.ac.uk>  wrote:
> >  Hello,
> >
> >  Is the Protein Sequence retreived by, for example,
> >  $transcript->translate()->seq() held in a particular table in the DB? I had
> >  a root around Core and couldn't find anything obvious.
> >
> >  Thanks
> >
> >  Stuart
> >
> >
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>
>
> -- 
> Bert Overduin, Ph.D.
> Vertebrate Genomics Team
>
> EMBL - European Bioinformatics Institute
> Wellcome Trust Genome Campus
> Hinxton, Cambridge CB10 1SD
> United Kingdom
>
> http://www.ebi.ac.uk/~bert  <http://www.ebi.ac.uk/%7Ebert>
>
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