Dear UCSC,
I am working on human KATNA1 promoter region. I retrieved the promoter sequence by using table browser, (1000 bp upstream/5'-UTR). In March 2006 assembly, under UCSC genes, two different predicted promoter regions were available for katanin p60 subunit A1, (hg18_knownGene_uc003qms.2 range=chr6:150001377-150012543 and hg18_knownGene_uc003qmr.1 range=chr6:150001377-150002421 5). However, in the new Feb. 2009 assembly, hg18 _uc003qms.2 sequence has been removed from the system (in which the last 13 bases of this sequence were not matching anywhere in the genome). My point is, according to what this change has been made and if the predicted promoter site in 2009 assembly is accurate. We had designed primers using hg18 _uc003qms.2 sequence (before Feb 2009 release), however none of them give any product (all kind of optimization were done). Do you think that it is related with the sequence? Thank you very much for your help Yesim Negis Istanbul Technical University Turkey _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
