Hello Trisha, There have been some updates to the UCSC Genes track and the default human browser was moved from Human Mar. 2006 (hg18) assembly -> Human GRCh37 (hg19) assembly
However, when I search by your gene symbol CRLF2, I still see two variants at this location on chrX: hg19 chrX:1,314,887-1,331,530 hg18 chrX:1,274,887-1,291,530 hg18 has mapping to chrX_random and chrY (pseudoautosomal region). hg19 seems to have resolved the duplication in chrX_random, and only have the expected chr& mapping (sam reason, due to PARs). Have I misunderstood your question? I took a quick look at the newest mouse and rat genome. Mouse has the gene's two isoforms. Rat seems to missing the data (unaligned ....). You will know about whether this is expected or not for your gene. Please have a look at the regions above and let us know if you have more questions - there are no stupid questions :-) Jennifer ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "MACFARLANE T.V. (260922)" <[email protected]> wrote: > From: "MACFARLANE T.V. (260922)" <[email protected]> > To: [email protected] > Sent: Friday, December 11, 2009 5:10:40 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] Previous variants > > Hello > > This may be a stupid question, but around 12 months ago I was looking > into sequence analysis of TSLPR (also CRLF2). When I looked then there > were 2 isoforms sequenced, one with 6 exons and a variant with 5 (the > first 4 identicle to those of isoform 1 and a different 5th exon). > However now that I've come back to look at it there are still 2 > isoforms on the site, but exon-wise they seem to be identical. > Does anyone know anything about when this may have been changed on the > site? Or have any other information on how they came to be changed? Or > of course if I managed to completely misread it the first time...! > > Thanks > Trisha Macfarlane > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
