sequence analysis of 5'UTR - HELP

M. Scherf scherf at gsf.de
Fri Apr 7 07:21:25 EST 2000


topalli at my-deja.com wrote:
> 
> Hi,
> 
> I have several kb of the 5' untranslated region of a gene.  Is there any
> software out there that can do some preliminary analysis of this
> sequence for me?  Is there any such resources in the Web.

yes - have a look at

http://genomatix.gsf.de 
 
> Specifically I'd like to look for response elements, transcription factor
> binding sites, TATA, CAAT boxes and the like.  It seems like a pretty
> basic problem and a fairly mechanical process so I would be surprised if
> there were not publicly available resources.

Transcription factor binding sites can be found with the software
MatInspector. The program is one of several tools which are available 
on the genomatix server:

http://genomatix.gsf.de/cgi-bin/matinspector/matinspector.pl


Matthias

-- 
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Dr. Matthias Scherf          

Tel.:  +49 (89) 3187-4060    GSF Forschungszentrum Umwelt & Gesundheit
Fax.:  +49 (89) 3187-4400    Ingolstaedter Landstr. 1
E-mail:scherf at gsf.de         D-85764 Neuherberg (Germany)    

http://www.gsf.de/biodv, 
http://wwwbrauer.informatik.tu-muenchen.de/~scherf
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