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Hi Reece,<br>
<br>
There may have been some confusion about your question to the list.
Hopefully I can clear it up a little.<br>
<br>
There are 25,268 "refseq_human_import" genes in the human
otherfeatures database. These are incorporated into the database
from GFF files which NCBI provide to us, we do not download them
from a public location. We do not have the NCBI sequence, only the
coordinates of the genes.<br>
<br>
The current otherfeatures data dates from refseq_54 (you can see
this in gene.db_version). We only update this set when NCBI and
EnsEMBL do a comparison of data sets as part of the CCDS consortium.<br>
<br>
Dan<br>
<br>
<br>
On 04/06/13 02:22, Reece Hart wrote:
<blockquote
cite="mid:CAKNDN-fxaPSSPPv_UNz-Sp+kHnCmR8ZidFT51eEiLWdyOhvoBg@mail.gmail.com"
type="cite">
<div dir="ltr">Greetings-<br>
<div><br>
</div>
<div style="">I'm trying to gauge whether ensembl might provide
a kinder, gentler interface to refseq data than that provided
by EUtils. </div>
<div style=""><br>
</div>
<div style="">What's the source of the refseq data in
otherfeatures? </div>
<div style=""><br>
</div>
<div style="">How current is the otherfeatures data?</div>
<div style=""><br>
</div>
<div style="">What reconciliation is done when there are
substitutions (e.g., VHL, TNFRSF10C, SERPINE2) or indels
(NEFL, ABO, ZAN) in the transcript relative to GRCh37?</div>
<div style=""><br>
</div>
<div style="">Thanks,</div>
<div style="">Reece</div>
<div style=""><br>
</div>
</div>
<br>
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