[ensembl-dev] pseudogenes in ensembl bacteria

Dan Staines dstaines at ebi.ac.uk
Tue Aug 20 12:22:02 BST 2013

On 08/20/2013 11:03 AM, Adam Witney wrote:
> Hi,
> Are details about pseudogenes stored anywhere? For example, HI_0006 from
> haemophilus_influenzae_rd_kw20 seems to be missing from any of the
> downloaded files (fasta, gff3, gtf) and is not searchable on the
> browser. Can it be accessed (i.e coordinates and DNA sequence) from any
> of the database tables?

For some reason, the pseudogenes from that record do not appear to have 
been loaded into the core database (though they have been for other 
genomes in the same database). I'll investigate and let you know when I 
have a more detailed answer.

Thanks for your patience...


Dan Staines, PhD
Technical Coordinator, Ensembl Genomes
European Bioinformatics Institute (EMBL-EBI)

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