[ensembl-dev] Lost information in new biomart release

[Rhoda Kinsella]

Hi Beat
Thank you for reporting these issues. You are correct, we are missing the information you mentioned. We will try to rectify this as quickly as possible but it may take a day or two to generate and add to the live BioMart database. In the mean time, I will report the issue with the archive BioMart to our web team and hopefully you should be able to get the data from there until we reinstate the data. Apologies for any inconvenience caused and thanks again for reporting the bugs.
Regards
Rhoda


On 18 Jun 2013, at 19:13, Beat Wolf <wolf at fryx.ch> wrote:

> I also couldn't get the 71 archive to work. The url should be http://apr2013.archive.ensembl.org/biomart/
> right?
>  
> The changelog doesn't seem to indicate that the functionality i need was removed. Also, in the changelog of Ensembl Genes 72there is this entry:
> -Reinstated PolyPhen prediction and score filters and attributes
>  
> That should go into  Ensembl Variation 72 i guess. Thank you for fixing that by the way, i reported that when 71 got online.
>  
> I hope the functionality lost this time can be recovered before the 73 release in a few months... quite some code depends on it. If at least the archive would work that would be perfect.
>  
> Thank you for your help
>  
> Greetings
>  
> Beat Wolf
>  
> On Tuesday 18 June 2013 19.38:37 Beat Wolf wrote:
> > Hello,
> > 
> > i have a problem. In the new biomart update that just got out, i can't find
> > a way to get the following information on an exon:
> > 
> > 5_utr_start
> > 5_utr_end
> > 3_utr_start
> > 3_utr_end
> > genomic_coding_end
> > cdna_coding_start
> > cds_start
> > cds_end
> > 
> > Did it move to some place else? Where can i find this information? Thank you
> > for your help!
> > 
> > Best regards
> > 
> > Beat Wolf
> > 
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Rhoda Kinsella Ph.D.
Ensembl Production Project Leader,
European Bioinformatics Institute (EMBL-EBI),
Wellcome Trust Genome Campus,
Hinxton,
Cambridge,
CB10 1SD



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