Extraction of portions of GenBank flatfiles

Constantinos G. Crambis agbiotec at agriroot.aua.gr
Tue Jan 28 04:29:05 EST 2003


Is anyone aware of any software (not commercial), that can be used for
extraction of portions of the
flatfiles ? (I think that's how they call the GenBank entries you get
after a search) . For example if in a database flatfile entry, 
you have a reference to coding sequence as " CDS : 235 ... 1500 bp" , is
there a software that can find the keyword "CDS" 
in the flatfile, and then read and return the string composed of the
letters a c g t, that is between the numbers 235...1500 
in the sequence at the end of the file ? I am particularly interested,
to extract promoter regions from whole gene entries of 
GenBank. 
 
 
Constantinos G. Crambis
Agricultural University of Athens
Dept. of Agricultural Biotechnology
Molecular Biology Lab
 <mailto:agbiotec at agriroot.aua.gr> agbiotec at agriroot.aua.gr
agbiotec at yahoo.com
 
 
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