[ensembl-dev] UniGene cross-references

[mag]

Dear Sebastien,

To map UniGene cross-references to Ensembl features, we align the 
sequence against ours.
For Hs.523443, we align 96% of the Ensembl sequence, but only 38% of the 
UniGene sequence aligns against Ensembl.
http://dec2014.archive.ensembl.org/Homo_sapiens/Gene/Matches?db=core;g=ENSG00000244734;r=11:5225464-5229395;t=ENST00000335295

Since release 79, we only keep alignments which are above the 90% 
threshold for both sequences.
This filters out fragments/partial alignments and is why this UniGene id 
is not mapped to Ensembl since release 79 (March 2015).


Regards,
Magali

On 20/02/2017 09:56, Sebastien Moretti wrote:
> Hi
>
> I wonder why the UniGene cross-reference is no more associated with 
> gene HBB (ENSG00000244734).
>
> The cross-reference to UniGene is still in UniProt for that Gene/Protein.
>
> Regards
>
> -- 
> Sébastien Moretti
> Staff Scientist
> Department of Ecology and Evolution,
> Biophore, University of Lausanne,
> CH-1015 Lausanne, Switzerland
> Tel.: +41 (21) 692 4221/4079
> http://selectome.unil.ch/ http://bgee.unil.ch/
>
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