Server update, November, 2009: We've been recently upgrading the GENSCAN webserver hardware, which resulted in some problems in the output of GENSCAN. We apologize for the inconvenience. These output errors were resolved.
This server can accept sequences up to 1 million base pairs (1 Mbp) in
length. If you have trouble with the web server or if you have a
large number of sequences to process, request a local copy of the
program (see instructions at the bottom of this page).
Suboptimal exon cutoff (optional):
Sequence name (optional):
Predicted peptides only
Predicted CDS and peptides
Upload your DNA sequence file (upper or lower case,
Or paste your DNA sequence here (upper or lower case,
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GENSCAN was developed by Chris Burge in the research group of Samuel Karlin,
Department of Mathematics, Stanford University.
The program and the model that underlies it are described in:
Burge, C. and Karlin, S. (1997) Prediction of complete
gene structures in human genomic DNA.
J. Mol. Biol. 268, 78-94.
The splice site models used are described in more detail in:
Burge, C. B. (1998) Modeling dependencies in pre-mRNA splicing
signals. In Salzberg, S., Searls, D. and Kasif, S., eds.
Computational Methods in Molecular Biology,
Elsevier Science, Amsterdam, pp. 127-163.
Burge, C. B. and Karlin, S. (1998) Finding the genes in genomic DNA.
Curr. Opin. Struct. Biol. 8, 346-354.
This web server is located in the Burge laboratory
at the MIT Department of Biology.
Address any comments/questions/suggestions to:
Please notify me by email (firstname.lastname@example.org) if:
1) the web/email server is not working;
2) you find a bug in GENSCAN; or
3) you have a suggestion for how to make the
program more "user friendly". In your email, please specify which Genscan
server you had trouble with (e.g., new MIT web server, MIT email server) and
the nature of the problem.
NOTE. This server is for the program "GENSCAN", developed
by Chris Burge at Stanford University, not to be
confused with the Applied Biosystems sequencing software called "GENESCAN".
Copyright © 1997-2005 Christopher Burge
GENSCAN is freely available for academic use. Executables are
currently available for the following Unix platforms: Intel/Linux,
Sun/Solaris, Intel/Solaris, SGI/Irix, DEC/Tru64, and IBM/AIX. Platforms not
listed are not currently supported. To obtain a copy of GENSCAN for
academic use, go to the
academic license agreement web site and download the executable
after completing the form.
For commercial use, contact
at the Stanford University
Office of Technology Licensing.