[Genome] 3' fasta sequence

[Brooke Rhead]

Hello Lana,

You can use the Table Browser (the "Tables" link in the blue bar at the 
top of the page) to get fasta sequences.  Choose the track for which you 
would like to retrieve sequence, and "outputput format: sequence", then 
hit "get output".

If you are using a "Genes and Gene Predictions" track, you should see an 
option on the next page to select genomic, protein or mRNA sequence.  If 
you choose to retrieve genomic sequence, there will be additional 
options to retrieve only certain regions of genes, such as 3' UTR Exons.

General instructions for using the Table Browser are here:
http://genome.ucsc.edu/goldenPath/help/hgTablesHelp.html

If you have additional questions, please feel free to write back to the 
mailing list address.

--
Brooke Rhead
UCSC Genome Bioinformatics Group



Lana Schaffer wrote:
> Hi,
> Is there an easy batch query to get the fasta sequence
> Or 3' fasta sequence?
> 
> Lana Schaffer
> Biostatistics/Informatics
> The Scripps Research Institute
> DNA Array Core Facility
> La Jolla, CA 92037
> (858) 784-2263
> (858) 784-2994
> schaffer at scripps.edu 
> 
> 
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