Hello, Yes. There are tracks in the browser that already contain this type of data or you can upload alignment data in a format called MAF using the Custom Track feature.
For example, in the Human March 2006 (hg18) assembly, open the track called "Other RefSeq" as full, click on the track name to go the details page and set "Color track by codons:" to "genomic codons", and then zoom down to the AA level at exon locations. There are also tracks called "Other mRNAs" and "Other ESTs" with various types of color coding (see each track for the options). Not all species have these "Other" tracks, although many non-human species do have an alternative track called "Human Proteins" that you may be interested in. For Custom Tracks using MAF format, here are some links to the help pages: http://genome.ucsc.edu/cgi-bin/hgCustom http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#CustomTracks http://genome.ucsc.edu/FAQ/FAQformat.html#format5 We hope this helps. Jennifer Jackson ------------------------------------------------ Jennifer Jackson UCSC Genome Bioinformatics Group ----- "Miriam Meisler" <[email protected]> wrote: > From: "Miriam Meisler" <[email protected]> > To: [email protected] > Sent: Friday, September 18, 2009 8:00:48 AM GMT -08:00 US/Canada Pacific > Subject: [Genome] species alignment of amino acid sequences > > Is it possible to view a multi-species alignment of > amino acid sequences for a protein using the browser? > > > -- > Miriam Meisler, Ph. D. > Department of Human Genetics > University of Michigan > 4909 Buhl Box 0618 > Ann Arbor, MI 48109-0618 > tel. 734 763 5546 FAX 734 763 9691 > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
