Rattus norvegicus Codon Usage Table

See the most used codons, highest-fraction synonymous codons, and full codon usage frequencies for Rattus norvegicus.

Use frequency to find the most common codons in this organism, and use fraction to compare synonymous codon preference within the same amino acid family.

Escherichia coli Saccharomyces cerevisiae Arabidopsis thaliana Caenorhabditis elegans Cricetulus griseus Drosophila melanogaster Homo sapiens Spodoptera frugiperda Mus musculus Nicotiana tabacum Pichia pastoris Sus scrofa Rattus norvegicus Streptomyces Zea mays

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These settings control the summary cards and the full codon usage table below.

Top Codons by Frequency

Codons ranked by frequency per 1,000 codons in the selected organism.

CTG

Amino acid: L

Fraction 0.42

Freq 41.2

GAG

Amino acid: E

Fraction 0.61

Freq 40.5

AAG

Amino acid: K

Fraction 0.63

Freq 35.0

CAG

Amino acid: Q

Fraction 0.75

Freq 33.0

GTG

Amino acid: V

Fraction 0.47

Freq 30.4

GAC

Amino acid: D

Fraction 0.58

Freq 28.4

GCC

Amino acid: A

Fraction 0.40

Freq 27.6

GAA

Amino acid: E

Fraction 0.39

Freq 26.3

Top Codons by Fraction

Synonymous codons ranked by fraction. Stop codons and single-codon amino acids are excluded.

CAG

Amino acid: Q

Fraction 0.75

Freq 33.0

AAG

Amino acid: K

Fraction 0.63

Freq 35.0

CAC

Amino acid: H

Fraction 0.62

Freq 14.9

GAG

Amino acid: E

Fraction 0.61

Freq 40.5

AAC

Amino acid: N

Fraction 0.60

Freq 22.5

TAC

Amino acid: Y

Fraction 0.60

Freq 17.6

TTC

Amino acid: F

Fraction 0.59

Freq 24.0

GAC

Amino acid: D

Fraction 0.58

Freq 28.4

Preferred Codons by Amino Acid

One preferred codon per amino acid, ranked by frequency to surface practical defaults.

CTG

Amino acid: L

Fraction 0.42

Freq 41.2

GAG

Amino acid: E

Fraction 0.61

Freq 40.5

AAG

Amino acid: K

Fraction 0.63

Freq 35.0

CAG

Amino acid: Q

Fraction 0.75

Freq 33.0

GTG

Amino acid: V

Fraction 0.47

Freq 30.4

GAC

Amino acid: D

Fraction 0.58

Freq 28.4

GCC

Amino acid: A

Fraction 0.40

Freq 27.6

ATC

Amino acid: I

Fraction 0.54

Freq 25.6

Rattus norvegicus (Rat): (Genetic code: Standard)

Print-friendly 2-column table in genetic code order. Frequency is shown per 1,000 codons.

Triplet	Amino acid	Fraction	Frequency/Thousand	Number	Triplet	Amino acid	Fraction	Frequency/Thousand	Number
TTT TTC TTA TTG	F F L L	0.41 0.59 0.06 0.12	16.5 24.0 5.6 12.4	67,342 97,917 22,946 50,586	TCT TCC TCA TCG	S S S S	0.18 0.23 0.14 0.06	14.5 18.1 10.7 4.4	59,379 73,906 43,498 17,938
TAT TAC TAA TAG	Y Y * *	0.40 0.60 0.27 0.23	11.7 17.6 0.6 0.5	47,581 71,817 2,487 2,003	TGT TGC TGA TGG	C C * W	0.45 0.56 0.50 1.00	9.7 12.1 1.1 13.3	39,593 49,606 4,323 54,121
CTT CTC CTA CTG	L L L L	0.12 0.21 0.07 0.42	12.1 20.7 7.3 41.2	49,547 84,406 29,920 168,065	CCT CCC CCA CCG	P P P P	0.30 0.32 0.27 0.11	17.1 18.3 15.8 6.4	69,680 74,530 64,570 26,151
CAT CAC CAA CAG	H H Q Q	0.38 0.62 0.25 0.75	9.2 14.9 10.8 33.0	37,758 60,682 44,091 134,878	CGT CGC CGA CGG	R R R R	0.09 0.18 0.12 0.20	4.9 10.0 6.6 10.7	20,024 41,025 27,045 43,511
ATT ATC ATA ATG	I I I M	0.32 0.54 0.14 1.00	15.5 25.6 6.7 23.7	63,414 104,432 27,251 96,623	ACT ACC ACA ACG	T T T T	0.23 0.37 0.28 0.12	12.8 20.3 15.1 6.4	52,394 82,782 61,774 26,019
AAT AAC AAA AAG	N N K K	0.40 0.60 0.37 0.63	15.1 22.5 20.8 35.0	61,847 92,081 84,916 142,997	AGT AGC AGA AGG	S S R R	0.15 0.25 0.20 0.21	11.6 19.4 10.6 11.5	47,538 79,105 43,324 47,066
GTT GTC GTA GTG	V V V V	0.16 0.26 0.11 0.47	10.2 16.7 7.0 30.4	41,475 68,342 28,503 124,205	GCT GCC GCA GCG	A A A A	0.28 0.40 0.22 0.10	19.5 27.6 15.3 6.9	79,794 112,838 62,476 28,040
GAT GAC GAA GAG	D D E E	0.42 0.58 0.39 0.61	20.8 28.4 26.3 40.5	84,969 116,171 107,203 165,509	GGT GGC GGA GGG	G G G G	0.17 0.34 0.25 0.24	11.3 22.4 16.6 15.8	46,093 91,387 67,691 64,344

Showing 64 entries for Rattus norvegicus (Rat).

Frequency is measured per 1,000 codons. Fraction compares codons that encode the same amino acid.

Questions this table can answer

Which codons are most common in Rattus norvegicus?

Which synonymous codons are preferred in Rattus norvegicus?

Which codons should be checked before expression design?

How to use this page

Use the summary cards to find the most used and highest-fraction codons quickly.

Switch sorting in the full table when you want to compare by frequency, fraction, or count.

Use the full organism list and search codons/amino acids on the Codon Usage Frequency Table.

FAQ

What are the most used codons in Rattus norvegicus?

Use the "Most Used Codons" section to see which codons appear most often in Rattus norvegicus. The ranking is based on frequency per 1,000 codons.

Which codons have the highest fraction in Rattus norvegicus?

Use the "Highest Fraction Codons" section to compare synonymous codons for the same amino acid. Single-codon amino acids and stop codons are excluded so the ranking reflects codon preference rather than trivial 1.00 values.

What is the difference between codon frequency and codon fraction in Rattus norvegicus?

Frequency measures how often a codon appears per 1,000 codons in the dataset. Fraction measures how strongly that codon is preferred relative to alternative codons encoding the same amino acid.

How should I use this Rattus norvegicus codon usage table for optimization?

Start with the preferred-codon summaries to identify likely defaults, then review the full table below before making codon optimization or expression design decisions.