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
ftp://ftp.ebi.ac.uk/pub/databases/taxonomy/taxonomy.dat
> 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/
