Dear Brooke Thanks for your reply. I'm not on a mirror site, but using the main UCSC site. In order to download the gtf file I went to the table browser, and chose the following: genome: S.cerevisiae assembly: June 2008, SGD/sacCer2 group: Ensembl genes track: ensGene output format: GTF When I click on the "Describe table schema" link I see: "Schema for Ensembl Genes - Ensembl Genes *(lifted to sacCer2 from Ensembl version EF 2*)" Mali
On Wed, Jun 29, 2011 at 11:00 PM, Brooke Rhead <[email protected]> wrote: > Hi Mali, > > Can you be more specific about how you downloaded the file from the Table > Browser? I only see regular (not lifed) version 62 Ensembl genes on the > UCSC sacCer2 browser. > > Were you by any chance on a mirror site, and not on > http://genome.ucsc.edu/? > > -- > Brooke Rhead > UCSC Genome Bioinformatics Group > > > > On 06/29/11 03:15, mali salmon wrote: > >> Dear Sir/Madam >> I have downloaded a gtf file for yeast ensembl genes from the ucsc table >> browser. >> According to the description of the table, the locations were "lifted to >> sacCer2 from Ensembl version EF 2." >> However, when I compare the locations I get to those from ensembl gtf file >> I >> downloaded from ensembl ("Saccharomyces_cerevisiae.**EF2. >> 62.gtf), I see that there is no difference. >> How this could be? I suppose there are some changes between the two builds >> Looking forward to your reply >> Thanks >> Mali >> ______________________________**_________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/**mailman/listinfo/genome<https://lists.soe.ucsc.edu/mailman/listinfo/genome> >> > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
