Hi Javed, A useful tool to retrieve this information is the Table Browser. From the main page, click on "Tables" in the blue navigation bar and set the following:
clade: Mammal genome: Human assembly: Mar. 2006 (NCBI36/hg18) group: Genes and Gene Prediction Tracks track: UCSC Genes table: knownGene region: genome output format: selected fields from primary and related tables output file: if you would rather have the results saved to a file instead of displaying in the browser window, enter the name you would like the output file to have, otherwise, leave blank Click "get output". On the following page, select the fields you want (name, exonStart, exonEnds, etc) and click "get output". This will provide you with coordinate information. If you want sequence information, go back to the Table Browser and set the output format to 'sequence', on the following page select 'genomic', click 'submit'. Then choose 'One FASTA record per region (exon, intron, etc)' on the next page to include coordinates of the exons and introns in the FASTA headers. Please note, you can select a gene track other than UCSC Genes to retrieve this information. Click on 'view table schema' in the Table Browser to view a description of each table. For more information on how to use the Table Browser, please see: http://genome.ucsc.edu/cgi-bin/hgTables#Help If you have any further questions, please contact us again at [email protected]. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group Khan, Javed (NIH/NCI) [E] wrote: > Hi there, I would like to download the annotated Human Genome build 18, such > that it contains corordinates of all of the genes and exons and introns, > numbered appropriately. Where do I get this data from? > > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
