[ensembl-dev] Source of refseq data in otherfeatures

[Rishi Nag]

On Tue, 04 Jun 2013 02:22:29 +0100, Reece Hart <reece at harts.net> wrote:

> What's the source of the refseq data in otherfeatures?  
> How current is the otherfeatures data?

The date of the last release is stored in the otherfeatures meta table with meta_key genebuild.last_otherfeatures_update

Typically the db_version in the analysis table should record the refseq version being used for the data. However, this may not have been captured for older releases. Data are downloaded from the NCBI website.

> What reconciliation is done when there are substitutions (e.g., VHL, TNFRSF10C, SERPINE2) or indels (NEFL, ABO, ZAN) >in the transcript relative to GRCh37?
>
> Thanks,
> Reece
>



-- 
Rishi Nag
Ensembl Genebuilder
Wellcome Trust Sanger Institute
http://ensembl.org

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