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Bioinformatics Advance Access published online on May 26, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti507
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oupjournals.org
Received March 29, 2005
Revised April 29, 2005
Accepted May 17, 2005

Applications note

SECISDesign: a server to design SECIS-elements within the coding sequence

Anke Busch 1, Sebastian Will 1, and Rolf Backofen 1*

1 Friedrich-Schiller-University Jena, Institute of Computer Science, Chair for Bioinformatics, Ernst-Abbe-Platz 2, 07743 Jena, Germany

* To whom correspondence should be addressed.
Rolf Backofen, E-mail: backofen{at}inf.uni-jena.de


  Abstract

Summary: SECISDesign is a server for the design of SECIS-elements and arbitrary RNA-elements within the coding sequence of an mRNA. The element has to satisfy both structure and sequence constraints. At the same time, a certain amino acid similarity to the original protein is kept. The designed sequence can be used e.g. for recombinant expression of selenoproteins in E.coli.

Availability: The server is available at http://www.bio.inf.uni-jena.de/Software/SECISDesign/index.html.


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