• Reverse translation
  • Using the reverse translation function allows you to find the DNA sequences based on amino acid sequence. This function is commonly used to degenerate oligonucleotide sequences from a known peptide sequence.

      Choose the Protein | Reverse Translation command to open a Reverse Translation dialog box. There is a Channel List box and a Sequence Text box. DNAMAN lists all available protein sequences in the Sequence Channel list box. You may select any of the available sequences and show it in the Sequence Text box. You may also modify these sequences or enter a new sequence in the Sequence Text box.

      There are four options for how to perform reverse translation.

    1. Show all possible codons. This is default option. With this option, DNAMAN displays the reverse translated DNA sequence with ambiguous nucleotides at variant position in a text window. Check IUPAC code for information about the ambiguous nucleotides. You can easily edit the sequence and select the preferred nucleotides at ambiguous positions.
    2. The following three options are available only if you have checked the Codon preference file option. DNAMAN will choose precisely nucleotides for each position of the reverse translated DNA sequence, and not incorporate any ambiguous nucleotides. See the next section (Codon Usage Analysis) for information about the codon usage file.

    3. Use the most frequently used codon(s). DNAMAN will check the codon usage table and use only the most frequently used codons of each amino acid for reverse translation.
    4. Use alternatively two most frequently used codons. DNAMAN will check the codon usage table and use alternatively the two most frequently used codons of each amino acid for reverse translation.
    5. Use alternatively all codons. DNAMAN will check the codon usage table and use alternatively all codons used by each amino acid for reverse translation.