Genetic Codes

to the genetic-codes wiki!

1. Standard
2. Vertebrate Mitochondrial
3. Yeast Mitochondrial
4. Mold, Protozoan, and Coelenterate Mitochondrial and Mycoplasma/Spiroplasma
5. Invertebrate Mitochondrial
6. Ciliate, Dasycladacean and Hexamita Nuclear
9. Echinoderm and Flatworm Mitochondrial
10. Euplotid Nuclear
11. Bacterial, Archaeal and Plant Plastid
12. Alternative Yeast Nuclear
13. Ascidian Mitochondrial
14. Alternative Flatworm Mitochondrial
16. Chlorophycean Mitochondrial
21. Trematode Mitochondrial
22. Scenedesmus obliquus Mitochondrial
23. Thraustochytrium Mitochondrial
24. Pterobranchia Mitochondrial
25. Candidate Division SR1 and Gracilibacteria
26. Pachysolen tannophilus Nuclear
27. Karyorelict Nuclear
28. Condylostoma Nuclear
29. Mesodinium Nuclear
30. Peritrich Nuclear
31. Blastocrithidia Nuclear
33. Cephalodiscidae Mitochondrial UAA-Tyr

This repository contains ready-to-use files of the genetic codes downloaded from the National Center for Biotechnology Information (NCBI).

How to use them

The genetic code tables are in the maps directory. The name of each file corresponds to the translation table code used by NCBI. The list.txt file maps these codes to their corresponding descriptions (e.g. 1 is Standard, 2 is Vertebrate Mitochondrial, and so on).

Materials and Methods

Sources

This NCBI page contains a compilation of the different genetic codes made by Andrzej (Anjay) Elzanowski and Jim Ostell at NCBI. I copy-pasted each genetic code table into a file at sources, naming them with the NCBI translation table code. The names of the translation codes are available at list.txt. Moreover, the HTML code of the page is available at sources/ncbi.html.

From tables to maps

Then, I ran the following lines to convert the tables into maps:

mkdir -p maps
for file in $(ls sources | grep -v "html"); do 
	./table-to-map.sh "sources/$file" > "maps/$file"
done