[Bioperl-l] new GFF models, UTRs, DB::GFF.

Philip MacMenamin pm66 at nyu.edu
Wed May 19 11:54:19 EDT 2004


Is there a straight forward way that you can find out if a UTR is 5' or 3' 
via the GFF DB, ie without getting strand, getting position of gene, finding 
where gene start is relative to UTR. 

Previously this information was contained in the name, which seemed like a 
reasonable idea. ie, you could ask for 
@5UTRs = $searchSeg->features(-Types=>'UTR:5_UTR'); 
or test 
if ($UTR->name =~/5_/) 
and so on.

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