Hello Kavitha, If you are trying to find 3' and 5' UTRs associated with a region that aligns to DNA or mRNA sequence that you have, you will first need to BLAT your sequence. This will give you the coordinates of the region that aligns to your DNA/mRNA. You will find blat here:
http://genome.ucsc.edu/cgi-bin/hgBlat and you can read more about using BLAT here: http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#BLATAlign With these coordinates you can then retrieve UTR sequence as outlined in this previously answered mailing list question: https://www.soe.ucsc.edu/pipermail/genome/2005-October/008854.html Note that you will want to modify step 4: instead of clicking region: "genome" you can input the region found by BLATing your sequence. Hopefully this information was helpful and answers your question. If you have further questions or require clarification feel free to contact the mailing list at [email protected]. Best regards, Pauline Fujita UCSC Genome Bioinformatics Group http://genome.ucsc.edu Kavitha I S wrote: > Dear Sir/Mam, > > I wish to download all the UTR(5' and 3') regions for a gene using DNA or > mRNA sequence. > How do I do it in the genome browser. > > Please help me in this regard. > > Thank you, > > _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
