Thanks -- the function is definitely useful for known SNPs, but what if I'm starting with a novel SNP in genomic coordinates?
On Fri, Jan 29, 2010 at 11:34 AM, Jennifer Jackson <[email protected]> wrote: > Hello again, > > We have another table/file to suggest: > > snp130CodingDbSnp -- it has more detailed functional annotations provided > by dbSNP > > Thanks, > Jennifer > > > ------------------------------------------------ > Jennifer Jackson > UCSC Genome Bioinformatics Group > > ----- "Jennifer Jackson" <[email protected]> wrote: > > > From: "Jennifer Jackson" <[email protected]> > > To: "Archie Russell" <[email protected]> > > Cc: [email protected] > > Sent: Friday, January 29, 2010 11:05:33 AM GMT -08:00 US/Canada Pacific > > Subject: Re: [Genome] snp->protein change > > > > Hello, > > > > Using the dbSNP track controls or the primary table itself, > > Coding - Synonymous and Coding - Non-Synonymous > > is an annotated for some of the data in this location: > > > > snp130.func > > > > http://genome.ucsc.edu/FAQ/FAQdownloads#download1 > > http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html > > > > You can also take any transcript (full or coding only), > > swap in the variation, and use this tool to do a translation: > > http://genome.ucsc.edu/ -> Utilities (left blue navigation bar) -> DNA > > Duster > > http://users.soe.ucsc.edu/~kent/dnaDust/dnadust.html<http://users.soe.ucsc.edu/%7Ekent/dnaDust/dnadust.html> > > > > Jennifer > > > > ------------------------------------------------ > > Jennifer Jackson > > UCSC Genome Bioinformatics Group > > > > ----- "Archie Russell" <[email protected]> wrote: > > > > > From: "Archie Russell" <[email protected]> > > > To: [email protected] > > > Sent: Friday, January 29, 2010 10:50:06 AM GMT -08:00 US/Canada > > Pacific > > > Subject: [Genome] snp->protein change > > > > > > Hi guys > > > > > > If I zoom in close enough using the browser I see there are amino > > > acid > > > residues for each gene, is there a tool or suggested method to > > > determine > > > how a particular SNP effects these residues? > > > > > > Thanks > > > Archie > > > _______________________________________________ > > > Genome maillist - [email protected] > > > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
