Hello Kun Qu,
Most assemblies will have at least one track with the coding region
defined in the Gene and Gene Prediction track group. Use the Table
Browser to navigate the tables/schema and output portions of a track or
use ftp to the Downloads server to obtain the entire track.
For example: Human Feb. 2009 (GRCh37/hg19) assembly
Track -> UCSC Genes
Primary table -> knownGene
File name on downloads ->
goldenPath/hg19/database/knownGene.txt.gz
genePred file format ->
http://genome.ucsc.edu/FAQ/FAQformat.html#format9
Navigate the downloads server here:
http://hgdownload.cse.ucsc.edu/downloads.html
Anonymous ftp help:
http://genome.ucsc.edu/FAQ/FAQdownloads.html#download1
Thank you for your patience. Please feel free to contact the
help mailing list again if you require further assistance.
Regards,
Jen
UCSC Genome Browser Support
On 6/7/10 3:45 PM, Kun Qu wrote:
> Hi,
>
> I wonder if there are any annotation files contains information about
> all intron, 3'UTR or 5'UTR chromosome start/end positions?
>
> Thank you
>
> Kun Qu Ph.D.
> Bioinformatician
> Department of Dermatology
> Stanford University School of Medicine
> Stanford, CA, 94305
> Phone: 812-340-1202
> E-mail: [email protected]
>
> _______________________________________________
> Genome maillist - [email protected]
> https://lists.soe.ucsc.edu/mailman/listinfo/genome
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