Hi Charu, Ok. I think the mixup is that the organism column in gbCdnaInfo is simply a foreign key into the organism table. It isn't a NCBI taxon id. We don't keep the taxon ids.
Please let us know if you have any additional questions: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 4/3/12 11:00 AM, Kumar, Charu Gupta wrote: > Hi Greg, > > hg19. Sorry should have clarified that one. > Thanks, > Charu > ________________________________________ > From: Greg Roe [[email protected]] > Sent: Tuesday, April 03, 2012 11:34 AM > To: Kumar, Charu Gupta > Cc: [email protected] > Subject: Re: [Genome] Problems with Organism Info in gbCdnaInfo, e.g.AU194514 > > Hi Charu, > > What assembly are you using to get gbCdnaInfo? > > - Greg > > On 4/2/12 4:18 PM, Kumar, Charu Gupta wrote: >> Hi, >> >> I am noticing problems in 'gbCdnaInfo' table in the Organism field. E.g. >> take the acc, AU194514. In NCBI it belongs to Porphyra yezoenis >> (taxid:2788), but in gbCdnaInfo table, the Organism field has taxid as 623 >> (Shigella) for this acc. >> This is not limited to just one record. >> >> It would be great if you could help me out with this. These discrepancies >> are significantly affecting my work. >> >> Thanks, >> Charu >> Charu G. Kumar, Ph.D., UIUC >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
