Hi UCSC team, I'm noticing an inconsistency of a large scale between the Browser and the Table. In particular, I have a list of NMs (refseq ids) which I need to get its coordinates using 'track: RefSeq Genes' and 'table: refGene'. For brevity, lets use NM_214677 (there are other genes in my list with the same problem)
An error inn the Table browser led me to suspect that NM_214677 could be missing: "Note: 1 of the 1 given identifiers (e.g. NM_214677) have no match in table refGene, field name or in alias table refLink, field name. Try the "describe table schema" button for more information about the table and field." I proceeded to try almost every possible table but I could not find NM_214677. I was beginning to resign to my fate until I checked the Genome Browser and found NM_214677 here: http://genome.ucsc.edu/cgi-bin/hgGene?hgg_gene=uc002mie.1&hgg_prot=Q9H2X3-2&hgg_chrom=chr19&hgg_start=7734080&hgg_end=7740491&hgg_type=knownGene&db=hg18&hgsid=216140513 However, the link in the page (under 'Other Names for This Gene'), which I suppose should link me to another page gave me this error: "Couldn't find NM_214677 in refLink table - database inconsistency." I hope a fix is already in place, otherwise is this 'normal'? Is there any other particular way that I can search for my missing NMs? Thanks! _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
