[ensembl-dev] No variants shown gene up- and downstream

Sarah Hunt seh at ebi.ac.uk
Thu Aug 2 14:38:05 BST 2018


Hi Fin,

Thanks for the example link. You are correct - the upstream and down 
stream variants are no longer shown here either. Did you find it useful 
to have them here? And how far from the transcript would you be looking?

Thanks,

Sarah


On 02/08/2018 13:12, Fin Swimmer wrote:
> Hello Sarah,
>
> I didn't mean the variant table. What I meant was the sequence view 
> under "Exons" for a specific transcript, e.g. 
> http://www.ensembl.org/Homo_sapiens/Transcript/Exons?db=core;g=ENSG00000134086;r=3:10145464-10147765;t=ENST00000256474
>
> Sorry, if this wasn't clear.
>
> fin swimmer
>
> Am 2018-08-02 11:36, schrieb Sarah Hunt:
>> Hi Fin,
>>
>> We are no longer reporting upstream and downstream variants on our
>> gene pages for human. The table was becoming cumbersome to use since
>> the number of variants greatly increased in density.
>>
>> We have a new variant table available from our location pages. To
>> access if from a gene page, select the 'Location' tab then select
>> 'Variant table' from the menu on the left. From the initial table, you
>> can use the usual location navigation to move along the chromosome.
>> Here's an example link:
>>
>> http://www.ensembl.org/Homo_sapiens/Location/Variant/Table?db=core;g=ENSG00000158158;r=2:96760498-96760998 
>>
>>
>> I'm sorry we neglected to announce this in the release blog.
>>
>> Best wishes,
>>
>> Sarah
>>
>> On 02/08/2018 09:57, Fin Swimmer wrote:
>>> Hello,
>>>
>>> may it be, that with the new realease, variants that are located up- 
>>> or downstream of my selected gene aren't shown anymore?
>>>
>>> I've checked whether I have any fiters active. But I haven't.
>>>
>>> fin swimmer
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