[ensembl-dev] Xenbase Xref in Ensembl

[mag]

Hi Sébastien,

The XenBase id is stored as well.
If you look at the gene page, the description contains more information 
about the Xenbase id ( Source:Jamboree;Acc:XB-GENE-6076969 in this example).

If you are using the API, it corresponds to the dbprimary_acc entry in 
the xref table.

You are right, the name is not very convenient, probably for historical 
reasons.

We will change this in the next release (76, not the one coming out this 
week).


Regards,
Magali

On 25/02/2014 14:41, Sébastien Moretti wrote:
> Thanks Magali I can see it now (not very convenient this name).
>
> Do you also store the XenBase id (e.g. XB-GENE-6076969 for your 
> example) as you do for Zebrafish with zfin_id ?
>
>> Hi Sébastien,
>>
>> External references from Xenbase are stored in Ensembl under the
>> external_db name Xenopus_Jamboree and displayed under the name Jamboree.
>>
>> As you can see on the gene page
>> http://www.ensembl.org/Xenopus_tropicalis/Gene/Matches?g=ENSXETG00000014526;r=GL172656.1:1913116-1927218;t=ENSXETT00000031783 
>>
>>
>> the Xenbase external references are also used as official gene names for
>> Xenopus.
>>
>>
>> Hope that helps,
>> Magali
>>
>> On 25/02/2014 13:51, Sébastien Moretti wrote:
>>> Hi
>>>
>>> I wonder why I cannot find external references to XenBase for Xenopus
>>> genes in Ensembl.
>>>
>>> Did I miss them or is there a reason?
>>>
>>> Thanks
>

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