[Bioperl-l] refseqs

Phillips, Ken kphillips at paragen.com
Tue Apr 27 15:13:39 EDT 2004

All - 

I have a list of refseq mRNA accessions for which I want to parse out individual exon sequence for array probe design.  I am not very familiar with the bioperl api, and it seems at first glance a rather daunting task as the exon coordinates are not present in the refseq flatfile, and not accessible as seqFeature objects using the exon tag.  My question is, how does one map refseq accessions to coordinates on a genomic contig?

Any help would be greatly appreciated.

Kenneth L. Phillips
Bioinformatics Specialist
Computational Systems Biology
ParadigmGenetics, Inc.
108 T.W. Alexander Drive
P.O. Box 14528
Research Triangle Park, NC 27709-4528

Phone: (919) 425-3000
Direct: (919) 425-3075
Cell: (919) 632-9865
kphillps at paragen.com

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