Hi Valeria, Thanks for giving the detailed steps for recreating your issue. Our mailing list software strips attachments, but I followed your steps and got the following output:
uc004dtz.2 27301 uc004dtz.2 APEX2 NM_014481 uc011mom.1 27301 uc011mom.1 APEX2 uc011cmp.1 79072 uc011cmp.1 FASTKD3 uc003jeb.2 79072 uc003jeb.2 FASTKD3 NM_024091 uc003jec.2 79072 uc003jec.2 FASTKD3 uc002uev.3 79675 uc002uev.3 FASTKD1 NM_024622 uc002uew.3 79675 uc002uew.3 KIAA1800 uc002uex.3 79675 uc002uex.3 FASTKD1 NM_024622 uc002uey.2 79675 uc002uey.2 FASTKD1 NM_024622 uc002xsl.2 81031 uc002xsl.2 SLC2A10 NM_030777 uc003tmu.2 9238 uc003tmu.2 KIAA0948 uc003tmv.2 9238 uc003tmv.2 TBRG4 NM_004749 uc003tmw.2 9238 uc003tmw.2 TBRG4 NM_199122 uc003tmx.2 9238 uc003tmx.2 TBRG4 NM_030900 uc011kcd.1 9238 uc011kcd.1 TBRG4 NM_004749 I looked up each of the 5 Entrez Gene identifiers that you provided at the Entrez site (http://www.ncbi.nlm.nih.gov/gene), including looking in the "Also Known As" field. The results there are: 27301 is APEX2 (a.k.a. APE2; XTH2; APEXL2; APEX2) 79072 is FASTKD3 (a.k.a. MGC5297; FLJ23274; MGC142123; FASTKD3) 79675 is FASTKD1 (a.k.a. FLJ21901; KIAA1800; FASTKD1) 81031 is SLC2A10 (a.k.a. ATS; GLUT10; MGC126706; SLC2A10) 9238 is TBRG4 (a.k.a. CPR2; FASTKD4; KIAA0948; TBRG4) Which all match the results from the Table Browser. I also looked up some of the RefSeq identifiers here: http://www.ncbi.nlm.nih.gov/nuccore/ And they also seem to match: NM_014481 is APEX2 NM_024091 is FASTKD3 etc. Maybe you can clarify what the problem is that you are seeing with these results? If you are wondering why you are getting multiple outputs for the same Entrez Gene identifier, that is because we associate each Entrez Gene identifier with more than one UCSC Gene. -- Brooke Rhead UCSC Genome Bioinformatics Group On 10/18/10 14:34, Vasta, Valeria wrote: > > > Hello > > > > I am trying to get a list of UCSC gene names and coordinates starting > from the RefSeq gene ID number and I got back a list of unrelated genes > (attached) . The path I followed is this: > > > > chosed Hg19 > > Group= Genes and gene prediction tracks > > Track=UCSC > > Table= knownToLocusLink > > Filter-create=value does match : I pasted the list of genes by Gene ID# > > > > Some of the IDs: > > 27301 > > 81031 > > 79072 > > 79675 > > 9238 > > > > Back in table broswer > > Output format = selected fields for primary and related tables > > Output file=writed a name > > File type returned=plain text > > Get output: select name and GeneID +gene symbol + refseq id > > > > I appreciate your help > > > > Thanks a lot > > > > > > Valeria Vasta > > Assay Development Scientist | Biochemical and Molecular Genetics R&D > > Seattle Children's Research Institute > > 206-884-7674 OFFICE > > 206-987-7660 FAX > > [email protected] > > OFFICE 1900 9th Ave, Seattle, WA 98101 > > MAIL C9S-9 > > WWW seattlechildrens.org <http://seattlechildrens.org/> > > > > > > CONFIDENTIALITY NOTICE: This e-mail message, including any attachments, is > for the sole use of the intended recipient(s) and may contain confidential > and privileged information protected by law. Any unauthorized review, use, > disclosure or distribution is prohibited. If you are not the intended > recipient, please contact the sender by reply e-mail and destroy all copies > of the original message. > > > > ------------------------------------------------------------------------ > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
