and geneticcode database ?

Peter Rice pmr at sanger.ac.uk
Fri Nov 13 11:11:01 EST 1998

gbottu at bigben.vub.ac.be (Guy Bottu) writes:
> It turns out that only genetic codes 7 and 8 are not referenced in
> taxonomy.

I still only get 6 codes linked. I used the taxonomy file

> 2. Alas ! taxonomy does reference genetic codes 13, 14 and 15 and these
> are not found in the gc.prt file
> Anyone an idea about where to find them ?

They were in the EGCG 8.1 local data files as trans12.txt ... trans14.txt.
The filename numbers are 1 less than the NCBI numbers but match the
NCBI SGC codes :-)

13 is Ascidian Mitochondrial

           Ascidian Mitochondrial       Standard 

                        W Trp TGA       * End TGA
                        M Met ATA       I Ile ATA
                        G Gly AGA       R Arg AGA
                        G Gly AGG       R Arg AGG

14 is Flatworm Mitochondrial

           Flatworm Mitochondrial       Standard

                        Y Tyr TAA       * End TAA
                        W Trp TGA       * End TGA
                        S Ser AGA       R Arg AGA
                        S Ser AGG       R Arg AGG

15 is Blepharisma Macronuclear
     Blepharisma Macronuclear     Standard

                 Q Gln TAG       * End TAG

Peter Rice                | Informatics Division, The Sanger Centre,
E-mail: pmr at sanger.ac.uk  | Wellcome Trust Genome Campus,
Tel: (44) 1223 494967     | Hinxton, Cambridge, CB10 1SA, England
Fax: (44) 1223 494919     | URL: http://www.sanger.ac.uk/Users/pmr/

More information about the Bio-srs mailing list

Send comments to us at biosci-help [At] net.bio.net