GeneticCodeTable
in package
FinalYes
Numbering matches NCBI's own "Genetic Codes" table IDs, so a caller already familiar with that numbering (or reading it off a GenBank /transl_table qualifier) can use it directly. The tables are those of NCBI's gc.prt (version 4.6) whose stop codons are the same in every context, which Biopython's CodonTable agrees with on all 64 codons. Left out are 27 (Karyorelict), 28 (Condylostoma) and 31 (Blastocrithidia) : their UGA, and for the last two UAA and UAG, is a stop or an amino acid according to its position, which a table giving one reading per codon cannot say.
Class GeneticCodeTable
Tags
Table of Contents
Constants
- NAMES : array<string|int, string> = [1 => "Standard", 2 => "Vertebrate Mitochondria...
- STANDARD : mixed = 1
- SUPPORTED_TABLES : array<string|int, int> = [1, 2, 3, 4, 5, 6, 9, 10, 11, 12, 13, 14, 15, 1...
- VERTEBRATE_MITOCHONDRIAL : mixed = 2
Constants
NAMES
public
array<string|int, string>
NAMES
= [1 => "Standard", 2 => "Vertebrate Mitochondrial", 3 => "Yeast Mitochondrial", 4 => "Mold Mitochondrial; Protozoan Mitochondrial; Coelenterate\n Mitochondrial; Mycoplasma; Spiroplasma", 5 => "Invertebrate Mitochondrial", 6 => "Ciliate Nuclear; Dasycladacean Nuclear; Hexamita Nuclear", 9 => "Echinoderm Mitochondrial; Flatworm Mitochondrial", 10 => "Euplotid Nuclear", 11 => "Bacterial, Archaeal and Plant Plastid", 12 => "Alternative Yeast Nuclear", 13 => "Ascidian Mitochondrial", 14 => "Alternative Flatworm Mitochondrial", 15 => "Blepharisma Macronuclear", 16 => "Chlorophycean Mitochondrial", 21 => "Trematode Mitochondrial", 22 => "Scenedesmus obliquus Mitochondrial", 23 => "Thraustochytrium Mitochondrial", 24 => "Rhabdopleuridae Mitochondrial", 25 => "Candidate Division SR1 and Gracilibacteria", 26 => "Pachysolen tannophilus Nuclear", 29 => "Mesodinium Nuclear", 30 => "Peritrich Nuclear", 32 => "Balanophoraceae Plastid", 33 => "Cephalodiscidae Mitochondrial"]
NCBI's name of each supported table
STANDARD
public
mixed
STANDARD
= 1
SUPPORTED_TABLES
public
array<string|int, int>
SUPPORTED_TABLES
= [1, 2, 3, 4, 5, 6, 9, 10, 11, 12, 13, 14, 15, 16, 21, 22, 23, 24, 25, 26, 29, 30, 32, 33]
VERTEBRATE_MITOCHONDRIAL
public
mixed
VERTEBRATE_MITOCHONDRIAL
= 2