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

[Sarah Hunt]

Hi Fin,

Thanks for the additional information. We'll think about this one for 
our next release.

Sarah

On 03/08/2018 05:23, Fin Swimmer wrote:
> Hello Sarah,
>
> we often use this kind of view to have a quick check whether there are 
> known variants under our primers. It's quite hard to say how far from 
> the transcript we are looking, as this depends why we put there a 
> primer (amplify a promotor, amplify the whole gene, ...). With the way 
> it was before - highlighting variants for all sequence that is shown - 
> we were happy.
>
> Thanks.
>
>
> fin swimmer
>
> Am 2018-08-02 15:38, schrieb Sarah Hunt:
>> 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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