[ensembl-dev] mod(mdg4)-FBgn0002781 does not exist in GTF gene setfor Drosophila melanogaster

[Amonida Zadissa]

On 21/08/2015 12:23, José Manuel Rodríguez wrote:
> Hi Amonida,
>
> How are you?

I'm fine thanks, hope you're well too.

>>
>> The FBgn0002781 gene contains a trans-splicing transcript and
>> unfortunately our GTF dumping pipeline can't handle cases where the
>> gene and transcript are on different strands.
>
> Sad news… Do you think to include these cases in your GTF dumping?
> Maybe for the next release or the e83 release?

Actually, this is the only trans-splicing gene in the entire set of
Ensembl annotations. So the current frequency of their present is very
low. Regardless though we are looking into if/how to represent such
genes in Ensembl; at the moment this gene just breaks the pipeline. I
can't tell you when it will be resolved though.

Best regards,
Amonida

> Cheers,
> J
>
>>
>> Best regards,
>> Amonida
>>
>> José Manuel Rodríguez <jmrodriguez at cnio.es> wrote:
>>
>> Hi all,
>>
>> I am working with the gene dataset in GTF format (the last release, Ensembl81) for Drosophila melanogaster but I have seen that the mod(mdg4)-FBgn0002781 does not exist.
>>
>> Do you know why?
>>
>> Thanks in advance.
>>
>> Cheers,
>> J
>>
>
>