[ensembl-dev] determining consequences of SNPs

[Fiona Cunningham]

Hi Andrea,

We use the genomic coords from the reference assembly for the
consequences. (and also to build all our genes so the Ensembl
transcripts are the same. )
Fiona

------------------------------------------------------
Fiona Cunningham
Ensembl Variation Project Leader, EBI
www.ensembl.org
www.lrg-sequence.org
t: 01223 494612 || e: fiona at ebi.ac.uk



On 18 March 2011 20:06, Andrea Edwards <edwardsa at cs.man.ac.uk> wrote:
> Hello
>
> When ensembl calculates the consequence of an exonic SNP as
> synonymous/non-synonmous etc, does it use the genomic sequence or mRNA
> sequences. I believe the former is more accurate as mRNA sequences can
> different from the genomic sequence?
>
> thanks a lot
>
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