Hello, Using "defined regions" is one method to extract data for certain tracks. I am not sure exactly how your query is set up, so I cannot know for certain whether the option to add additional genome sequence upstream/downstream is available with output=sequence. It should be if genome sequence is selected, but if not, use this method instead:
Custom track (BED) -> Genome fasta sequence 1) create a custom track BED file of the chimp coordinates and load into chimp 2) in the Table browser, using the chimp assembly, select this custom track 3) set output type as "sequence", name file for download, and click on "get output" 4) on the next form "Sequence Retrieval Region Options:", you will be able to specify upstream and/or downstream additional sequence, then submit Here is an FAQ (option "B" is what I describe above): http://genome.ucsc.edu/FAQ/FAQdownloads.html#download32 Custom track help (includes BED): http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#CustomTracks Hopefully this helps! Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 5/12/10 3:58 PM, Terence Dante Capellini wrote: > Hi, > I have obtained the chimp coordinates for several human SNPs(130) and wanted > to obtain the chimp sequence (specific bases) at those chimp coordinates > using the table browser, specifically using "defined regions." When I do > this I do see a way to obtain those specific single base-sequences. Is there > a better way to obtain this data for a large region or am I doing something > particularly wrong in my table browser search. Thanks, > Terence > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
