Hi Hong, There are two ways to do this.
1) If you have a short list, we recommend using the "DNA" button in the top blue bar when you are viewing your assembly of interest. Here is an example for hg19: http://genome.ucsc.edu/cgi-bin/hgc?g=getDna&i=mixed&c=chr21&l=33031596&r=33041570&db=hg19 2) If you have a long list then you can use the table browser which is describe in the above linked page. If you are unfamiliar with the table browser, please see the user's guide: http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html#Introduction Hope this helps. If you have further questions, please email the list: [email protected]. Vanessa Kirkup Swing UCSC Genomic Bioinformatics Group ---------- Forwarded message ---------- From: xu hong <[email protected]> Date: Thu, Apr 5, 2012 at 11:14 PM Subject: [Genome] may I ask how can I get sequences for genomic/DNA regions from UCSC? To: [email protected] Hi, all I'm a student new to UCSC. Now I want to get sequences from UCSC for our DNA-regions to do sequence alignment. Here are the first few lines of our data(chromosomeID,start position,end position,but no strand information provided): chr2 13026228 13026247 chr4 112164105 112164124 chr21 31844603 31844622 chr2 125424894 125424913 chr4 126495863 126495882 chr2 41026698 41026717 chr13 61843955 61843974 chr4 144626565 144626584 chr4 34930167 34930186 chr6 10729425 10729444 chr12 45115005 45115024 chrX 66859468 66859487 chr21 25104752 25104771 chr4 72564464 72564483 chr4 95390241 95390260 chr20 50966120 50966139 chr6 116806872 116806891 chr1 242565264 242565283 May I ask how could I get the sequences for our DNA-region data from UCSC Genome Browser? Thanks much for help. Best, Hong Xu _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
