Translation of protein sequence to nucleotide sequence

Roland Walker walker at ncbi.nlm.nih.gov
Mon Aug 17 11:31:37 EST 1998


Anthony Ting wrote:
> Is anyone aware of a program that translate a protein sequence
> into a nucleotide sequence given a specific codon usage table?

The SEALS command

  wimklein

can do reverse translations under all known genetic codes.  See

  http://www.ncbi.nlm.nih.gov/Walker/SEALS/index.html

and

  http://www.ncbi.nlm.nih.gov/Walker/SEALS/info/readmes/wimklein.html

The reverse translation uses ambiguity codes, and does not address 
the question of likely codon usage.

I'd be happy to add the ability to reverse translate accounting for
user-supplied codon-usage data, perhaps in the form of a separate
tool that could redefine any ambiguous sequence according to a codon-
usage table.

What is the typical input format for the codon-usage table?

R




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