Hello Kim, You can obtain this info using our Table Browser tool found here:
http://genome.ucsc.edu/cgi-bin/hgTables Specifically the "gbCdnaInfo" table has a field "id" which lists the GI and another field "acc" which lists the corresponding Genbank/EMBL accession. To get the gene symbol and description you will have to link it to a second table called "kgXref" as follows: After selecting your assembly of interest (i.e. human, hg19) select: group: Genes and Gene Prediction Tracks track: RefSeq Genes table: gbCdnaInfo identifiers: click "paste list" - this will take you to a menu where you can input accession numbers (i.e. AA033727) Once you have pasted in your list of IDs select: output format: "selected fields from primary and related tables" Once you click on "get output" this will take you to a menu where you can specify the second table you will need. In the "Select Fields from hg19.gbCdnaInfo" check the boxes beside "id" and "acc". Then in the "Linked Tables" section check the box beside hg19.kgXref and click the button at the bottom "Allow Selection From Checked Tables". Now from the "hg19.kgXref fields" section check the boxes beside "geneSymbol" and "description" then click "get output" at the top. Best regards, Pauline Fujita, Ph.D. UCSC Genome Bioinformatics Group http://genome.ucsc.edu On 09/07/11 12:23, Kim Spradling wrote: > Good Afternoon, > > I would like to add the gene ID, official gene symbol, and gene description > to a list of protein GI accession numbers. Is there a way to do this in the > genome browser? > > Thanks so much, > Kim > ___________________________________________________ > Kimberly D. Spradling, Ph.D. > Postdoctoral Scientist, Department of Genetics > Texas Biomedical Research Institute > 7620 NW Loop 410 > San Antonio, TX 78245 > Phone: 210-258-9624 > E-mail: [email protected] > Website: www.TxBiomed.org > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
