Dear Stefanie, The UCSC Genes track was last updated on 2009-10-08 for hg19. It appears that NP_003088 was last updated on 21-MAR-2010 (http://www.ncbi.nlm.nih.gov/nuccore/29540555?report=GenBank) which is after the UCSC Genes track was last updated. This would explain why this particular splice variant isn't in the kgSpAlias.txt.
Hope that this helps. If you have further questions, please don't hesitate to contact the mailing list again. Vanessa Kirkup Swing UCSC Genome Bioinformatics Group ----- Original Message ----- From: "Stefanie Gerstberger" <[email protected]> To: [email protected] Sent: Wednesday, October 6, 2010 5:16:23 PM GMT -08:00 US/Canada Pacific Subject: [Genome] missing gene Hi, I noticed that sometimes some genes found on NCBI are missing on the UCSC gene list. For example I noticed that the splice form of gene SNRPN NM_003097.3, NP_003088 is not part of the UCSC gene list in the kgSpAlias.txt. Is there a particular reason for some missing genes or is this a mistake? Thanks a lot for your help, Stefanie --------------------------------------------------- Stefanie Gerstberger graduate student in Chemical Biology Tri-Institutional Program Cornell University, Rockefeller University, Memorial Sloan Kettering Cancer Center _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
