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Promoter SEarch: HELP!

Michael Coyne mcoyne at argo.net
Sat Oct 21 11:19:33 EST 1995

Mari L. Shinohara wrote:
> Hello,
> I'd like to know any information that makes me available to know what
> cis-acting elements a promoter region sequence has.  I tried the BLAST
> search but, as you know, this is rather for searching similar genes and
> not good for finding "protein binding site sequence", which usually
> consist of a short strech of sequence.
> Any suggestion would be most welcome.  Thank you in advance!
> Mari Shinohara
> Dartmouth Medical School

Have you tried running the sequence of interest (assuming you have one) through 
the MOTIFs database?  This will pull out patterns of sequences previously 
identified as (usually) performing a function, such as ATP binding and the 


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