Hi Varun, If you are able to find these pseudogenes (their identifiers) in one of our tracks (e.g., Yale Pseudo60, GENCODE Genes) then you can use the table browser: http://genome.ucsc.edu/cgi-bin/hgTables
(Note, that if you go into the track controls for Gencode Genes, you can set it to display only pseudogenes.) From the table browser you'd then: - Select the assembly, group, track, and table - Select genome - paste your list of identifiers - Select output format: sequence - Optionally, you can provide a file name if you would like to download the results - Submit On the next screen choose genomic sequence type. Submit. Finally, check boxes for 5' UTR Exons, CDS Exons , 3' UTR Exons. An easy way to see if your pseudogenes align with anything on one or more of our tracks, upload the positions you have as a custom track and in the genome browser, turn on your custom track and the tracks you want to compare it with. You can then spot check the regions. - Greg On 3/12/12 8:21 AM, varun gupta wrote: > Hi > Hope You are doing good. > > I am interested in finding cdna seq (5'utr,exon,3'utr) for rps19 > pseudogenes. > > I have few rps19 pseudogenes with their coordinates and chromosome numbers. > > How can i extract the cdna sequences for the respective RPS19 pseudogenes. > > PS: i have around 7 rps19 pseudogenes with their coordinates.. > > Regards > > Varun > _______________________________________________ > Genome maillist [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
