Bioinformatics Toolbox

revgeneticcode

Get the reverse mapping for a genetic code

Syntax

map = revgeneticcode
revgeneticcode(GeneticCode,               
               'PropertyName', PropertyValue ...)

revgeneticcode(..., 'Alphabet' AlphabetValue) 
revgeneticcode(..., 'ThreeLetterCodes', CodesValue)

Arguments

`GeneticCode`	Enter a code number or code name from the table Genetic Code . If you use a code name, you can truncate the name to the first two characters of the name.
`AlphabetValue`	Property to select the nucleotide alphabet. Enter either `'dna'` or `'rna'`. The default value is `'dna'`.
`CodesValue`	Property to select one- or three-letter amino acid codes. Enter `true` for three-letter code or `false` for one-letter code.

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`

Description

map = revgeneticcode returns a structure containing the reverse mapping for the standard genetic code.

revgeneticcode(GeneticCode, 'PropertyName', PropertyValue ...) returns a structure of the inverse mapping for alternate genetic codes.

revgeneticcode(..., 'Alphabet' AlphabetValue) defines the nucleotide alphabet to use in the map.

revgeneticcode(..., 'ThreeLetterCodes', CodesValue) returns the mapping structure with three-letter amino acid codes as field names instead of the default single-letter codes if ThreeLetterCodes is true.

Examples

moldcode = revgeneticcode(4,'Alphabet','rna');
wormcode = revgeneticcode('Flatworm Mitochondrial',...
                          'ThreeLetterCode',true);

map = revgeneticcode

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

revgeneticcode

Syntax

Arguments

Description

Examples

See Also