[ensembl-dev] Wrong gene description

[Sébastien Moretti]

Hi Magali,


> Hi Sebastien,
>
> Xenbase uses two types of information to describe their gene models.
>
> The first one is the gene symbol, which corresponds to what we in
> Ensembl would call a display name.
> The second one is the gene name, which we import as a gene description.
>
> For the entry you are referring to, the gene symbol is 'unnamed', as
> Xenbase have not manually annotated that gene.
> This is what the 'Source:UniProt/SWISSPROT' part of the description
> refers to.
> As this entry as not yet been fully annotated, the description has been
> imported from Uniprot.
>
> We import our xenopus annotations directly from Xenbase, so rely on
> their knowledge in the matter.

According to Xenbase, the "1 of 1" in [Source:UniProt/SWISSPROT;Acc:, 1 
of 1 [Source:Jamboree;Acc:XB-GENE-961613] should be part of the ensembl 
description core, not in the source part, at the end.
And ". [Source:UniProt/SWISSPROT;Acc:" is useless.

> As for the space, I believe there is none between 'beta' and '1,3', but
> the rendering makes it look like it does.
> Looking the ID up on our rest service will show you the exact
> description, without additional rendering.
> http://beta.rest.ensembl.org/xrefs/id/ENSXETG00000008325?content-type=application/json
>
>
> Hope that helps,
> Magali
>
> On 14/10/13 14:54, Sébastien Moretti wrote:
>> Hi
>>
>> it looks there is a problem with gene description of
>> ENSXETG00000008325, at least since release 68.
>>
>> The source at the end of the description is
>>   [Source:UniProt/SWISSPROT;Acc:, 1 of 1
>> [Source:Jamboree;Acc:XB-GENE-961613]
>> and should be
>>   [Source:Jamboree;Acc:XB-GENE-961613]
>> "1 of 1" is part of the gene name according to Xenbase.
>>
>> Also, "beta-" & "1,3-glucuronyltransferase" should not be separated by
>> a space I think.
>>
>>
>>
>> Putative ortholog of galactosylgalactosylxylosylprotein
>> 3-beta-glucuronosyltransferase 1 (EC 2.4.1.135)
>> (Beta-1,3-glucuronyltransferase 1) (Glucuronosyltransferase-P)
>> (GlcAT-P) (UDP-GlcUA:glycoprotein beta-1,3-glucuronyltransferase)
>> (GlcUAT-P), 1 of 1 [Source:Jamboree;Acc:XB-GENE-961613]
>>
>> Regards

-- 
Sébastien Moretti
Department of Ecology and Evolution,
Biophore, University of Lausanne,
CH-1015 Lausanne, Switzerland
Tel.: +41 (21) 692 4221/4079
http://selectome.unil.ch/ http://bgee.unil.ch/