Hello, Yan. To do what you're requesting, follow these steps:
1. From the main browser page, select "Tables" from the menu at the top of the screen. This will take you to the Table Browser. 2. In the Table Browser, make sure the "assembly" field is set to hg19 3. Find the "track" field and set it to "RefSeq Genes" 4. Make sure the "region" field is set to "genome" 5. Set the "output format" field to "BED - browser extensible data" 6. If you would like your output sent to a file, specify a file name in the "output file" field and then select "plain text" or "gzip compressed" for your file type. Otherwise, just leave "output file" blank and it your output will be displayed in the browser window. 7. Click the "get output" button. This will bring you to a new screen. 8. Click the radio button next to "Exons plus" and leave the number value next to it at zero. 9. Click the "get BED" button. That's it. For more information on how to use the Table Browser, please refer to our help page: http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html I hope this information is helpful. Please contact us again at [email protected] if you have any further questions. --- Steve Heitner UCSC Genome Bioinformatics Group -----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of yan zhou Sent: Wednesday, August 31, 2011 1:24 PM To: [email protected] Subject: [Genome] download Refseq Exon Bed file Hi, Does anyone know how to get a bed file of all refseq exon of hg19? I did it a while ago for hg18, and remembered it's very easy to do within table browser. But now I can't find any option under refseq to chose all exon/coding exon to get a bed file. Wasn't sure why. Please help. Thanks Yan _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
