DNA to protein in 6 frames and output in FASTA

Thomas Sicheritz Thomas.Sicheritz at molbio.uu.se
Tue Apr 20 05:15:23 EST 1999

phains at my-dejanews.com writes:

> Hello all,
> I am looking for software (Win9X/NT or UNIX) that will translate a given DNA
> sequence (in FASTA format) in all six frames and then output this translation
> in FASTA format. Ideally, it will be able to identify ORFs and exclude
> non-ORF regions. ie. we want to translate a DNA database into a protein
> database. If anyone can help with this it would be appreciated.

* nextorf.tcl (requires Biowish) 
* SEALS http://www.ncbi.nlm.nih.gov/Walker/SEALS/index.html
* perl scripts from http://www.bioperl.org/

* http://www2.ebi.ac.uk/translate/
* http://alces.med.umn.edu/webtrans.html
* http://www.ncbi.nlm.nih.gov/gorf/gorf.html

Sicheritz Ponten Thomas E.  Department of Molecular Biology
blippblopp at linux.nu         BMC, Uppsala University
BMC:  +46 18 4714214        BOX 590 S-751 24 UPPSALA Sweden
Fax   +46 18  557723        http://evolution.bmc.uu.se/~thomas
Molecular Tcl:   http://evolution.bmc.uu.se/~thomas/tcl
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