[ensembl-dev] Question about stop codons and EnsEMBL pipeline

Simon White sw4 at sanger.ac.uk
Fri Apr 20 16:57:30 BST 2012

Hi Marc,
Yes you are quite right that is how the gene projection pipeline behaves, I suspect in this case the models were projected from human.

On 20 Apr 2012, at 14:08, Marc P. Hoeppner wrote:

> Hi,
> reading the recently published Gorilla genome paper, I came across a gene that they list as having a premature stop codon - TEX14 (ENSGGOG00000011348). Checking the website and using the API to retrieve the translateable_seq on the transcripts, it would appear that this gene produces valid protein sequences.
> My question is therefore - is there something internal to the annotation process or API that would patch up such stop codons, perhaps assuming that a sequencing error is a more plausible explanation? I hope that makes sense somehow ;)
> /Marc
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