[Genome] mRNA to genomic sequence

Lomelin, David david.lomelin at ucsf.edu
Fri Nov 3 20:57:52 PST 2006


Hi, I'm a student at UCSF working in Neil Risch's lab.  I'm interested in retrieving the genomic sequence for a given mRNA refseq sequence so that I could take a look at the intronic regions.  I saw that your Table Browser allows me this option exactly as I need; however, I'm interested in obtaining this information programatically so that I could look at multiple regions in a quick and automated way.  I tried to retrieve the data by copying and pasting the url and having a program retrieve the results, but apparently, the url does not contain a refseq parameter that allows me to fetch sequences dynamically.  Rather, it seems (I'm guessing) that the url contains a process id that contains the refseq somewhere locally on the UCSC site which prevents me from fetching sequences on the fly.  Is there any way for me to access your data in a more programmatic fashion?  Thank you.
 
--David




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