geneticcode

Return nucleotide codon to amino acid mapping for genetic code

Syntax

Map = geneticcode

Map = geneticcode(GeneticCode)

Description

Map = geneticcode returns a structure, Map, the mapping of nucleotide codons to amino acids for the standard genetic code.

Map = geneticcode(GeneticCode) returns a structure containing the mapping of nucleotide codons to amino acids for the specified genetic code.

Examples

Acquire Mapping of Nucleotide Codons to Amino Acids

Return the mapping of nucleotide codons to amino acids for the Flatworm Mitochondrial genetic code.

wormmap = geneticcode("Flatworm Mitochondrial")

wormmap = struct with fields:
      Name: 'Flatworm Mitochondrial'
       AAA: 'N'
       AAC: 'N'
       AAG: 'K'
       AAT: 'N'
       ACA: 'T'
       ACC: 'T'
       ACG: 'T'
       ACT: 'T'
       AGA: 'S'
       AGC: 'S'
       AGG: 'S'
       AGT: 'S'
       ATA: 'I'
       ATC: 'I'
       ATG: 'M'
       ATT: 'I'
       CAA: 'Q'
       CAC: 'H'
       CAG: 'Q'
       CAT: 'H'
       CCA: 'P'
       CCC: 'P'
       CCG: 'P'
       CCT: 'P'
       CGA: 'R'
       CGC: 'R'
       CGG: 'R'
       CGT: 'R'
       CTA: 'L'
       CTC: 'L'
       CTG: 'L'
       CTT: 'L'
       GAA: 'E'
       GAC: 'D'
       GAG: 'E'
       GAT: 'D'
       GCA: 'A'
       GCC: 'A'
       GCG: 'A'
       GCT: 'A'
       GGA: 'G'
       GGC: 'G'
       GGG: 'G'
       GGT: 'G'
       GTA: 'V'
       GTC: 'V'
       GTG: 'V'
       GTT: 'V'
       TAA: 'Y'
       TAC: 'Y'
       TAG: '*'
       TAT: 'Y'
       TCA: 'S'
       TCC: 'S'
       TCG: 'S'
       TCT: 'S'
       TGA: 'W'
       TGC: 'C'
       TGG: 'W'
       TGT: 'C'
       TTA: 'L'
       TTC: 'F'
       TTG: 'L'
       TTT: 'F'
    Starts: {'ATG'}

Input Arguments

GeneticCode — Genetic code

1 or "Standard" (default) | integer | character vector | string scalar

Genetic code, specified as an integer, character vector, or string scalar. It is either of the following:

• Code number or code name from the table Genetic Code

• transl_table(code) number from the NCBI web page describing genetic codes [1].

Tip

If you use a code name, you can truncate the name to the first two letters of the name.

Genetic Code

Code Number	Code Name
1	Standard
2	Vertebrate Mitochondrial
3	Yeast Mitochondrial
4	Mold, Protozoan, Coelenterate Mitochondrial, and Mycoplasma/Spiroplasma
5	Invertebrate Mitochondrial
6	Ciliate, Dasycladacean, and Hexamita Nuclear
9	Echinoderm Mitochondrial
10	Euplotid Nuclear
11	Bacterial and Plant Plastid
12	Alternative Yeast Nuclear
13	Ascidian Mitochondrial
14	Flatworm Mitochondrial
15	Blepharisma Nuclear
16	Chlorophycean Mitochondrial
21	Trematode Mitochondrial
22	Scenedesmus Obliquus Mitochondrial
23	Thraustochytrium Mitochondrial

Output Arguments

Map — Mapping of nucleotide codons to amino acids

structure

Mapping of nucleotide codons to amino acids for the specified genetic code, returned as a structure. It contains one field for each nucleotide codon.

References

[1] NCBI web page describing genetic codes: https://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi?mode=c

Version History

Introduced before R2006a