Help with dna sequence files

Gerald Loeffler loeffler at bender.co.at
Wed Mar 11 10:07:24 EST 1998


Hi Floyd!

One approach would be to use SRS, Thure Etzolds fabulous Sequence
Retrieval System (www.ebi.ac.uk -> Services -> SRS).

Start a new SRS session, select the EMBL database, query the FtKey field
for the value "intron" (where "intron" is part of the controlled
vocabulary for features, if I'm right). This will give you a set of the
many (26416 when I tried it) EMBL sequence entries that have annotation
regarding introns. Now you can look at one entry at a time and click on
the intron-link(s) for each entry...

	hope this helps,
	gerald

Floyd Martin wrote:
> 
> Hello there!
>         I am a graduate student at Ohio State University (Biophysics
> program).  I am interested in studying intron sequences of DNA.
> Unfortunately, I have little or no idea as to how to go about extracting
> said introns from files that Genbank, etc. have collected.  I have seen
> numerous articles that have done so but their practical description was
> less than detailed.
>         I guess what I'm getting at here (assuming I'm even adressing the
> right people) is there any software out there that can do it for me or
> perhaps put the data files into a more friendly format?  If this is a do it
> yourself enterprise, could someone give me a general idea of how to
> proceed?  I'm totally flummoxed here.  Any assistance would be greatly
> appreciated.
> 
> floyd martin (martin.687 at osu.edu)

-- 
Gerald Loeffler - Bioinformatics Scientist
Boehringer Ingelheim R&D Vienna, Molecular Biology Department
Email: loeffler at bender.co.at
Phone: +43 1 80105 634 and +43 676 3289588
Fax:   +43 1 80105 683
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