[ensembl-dev] Sequence differences between UCSC and Ensembl HG19 for Mitochondria

[Bert Overduin]

Hello Duarte,

Ensembl uses the new version of the mitochondrion sequence, i.e. the
rCRS/Mitomap sequence / NC_012920.1 (**
http://www.ncbi.nlm.nih.gov/nuccore/251831106), while UCSC has not updated
to this version yet.

Please see also the note on http://genome.ucsc.edu/cgi-bin/hgGateway under
the header 'Assembly Details - Note on chrM'.

Hope this explains.

Cheers,
Bert

On Fri, Feb 17, 2012 at 2:47 PM, Duarte Molha <Duarte.Molha at ogt.co.uk>wrote:

> Dear Developers****
>
> ** **
>
> I am noticed that the HG19 mitochondria sequence ENSEMBL retrieves for
> coordinates 1-1000 is different from UCSC genome browser.****
>
> ** **
>
> Could you tell me why is this the case?****
>
> ** **
>
> Best regards****
>
> ** **
>
> Duarte Molha****
>
> _______________________________________________
> Dev mailing list    Dev at ensembl.org
> List admin (including subscribe/unsubscribe):
> http://lists.ensembl.org/mailman/listinfo/dev
> Ensembl Blog: http://www.ensembl.info/
>
>


-- 
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

Ensembl browser: http://www.ensembl.org

Mailing lists: http://www.ensembl.org/info/about/contact/mailing.html

Blog: http://www.ensembl.info

YouTube: http://www.youtube.com/user/EnsemblHelpdesk
Facebook: http://www.facebook.com/Ensembl.org
Twitter: http://twitter.com/Ensembl
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mail.ensembl.org/pipermail/dev_ensembl.org/attachments/20120217/51aea811/attachment.html>