---------- Forwarded message ---------- From: xu hong <[email protected]> Date: Sat, 7 Apr 2012 18:54:18 +0800 Subject: Re: [Genome] may I ask how can I get sequences for genomic/DNA regions from UCSC? To: saVanessa Kirkup Swing <[email protected]>
Hi Vanessa, I have a long list, so (2) seems a better choice. Thanks. Best Hong Xu 2012/4/7, Vanessa Kirkup Swing <[email protected]>: > 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
