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Table 5 Translational optimal codons of T. multiceps

From: Analysis of transcriptome data reveals multifactor constraint on codon usage in Taenia multiceps

AA

Codon

High

RSCU(N)

Low

RSCU(N)

AA

Codon

High

RSCU(N)

Low

RSCU(N)

Phe

UUU

0.78(2687)

1.13(1612)

Ser

UCU

1.01(1455)

1.14(1901)

 

UUC*

1.22(4172)

0.87(1229)

 

UCC*

1.54(2224)

1.01(1678)

Leu

UUA

0.25 (555)

0.63(1404)

 

UCA

0.75(1079)

1.16(1937)

 

UUG

0.79(1723)

1.41(3125)

 

UCG

0.90(1294)

0.83(1389)

 

CUU

1.10(2413)

1.32(2910)

 

AGU

0.85(1231)

1.07(1785)

 

CUC*

2.03(4437)

0.84(1864)

 

AGC

0.95(1372)

0.78(1295)

 

CUA

0.50(1096)

0.62(1375)

Pro

CCU

1.05(1557)

1.15 (985)

 

CUG*

1.33(2917)

1.17(2592)

 

CCC*

1.37(2037)

0.82 (703)

Ile

AUU

1.06(2541)

1.42(2609)

 

CCA

0.90(1336)

1.36(1163)

 

AUC*

1.52(3644)

0.87(1605)

 

CCG

0.69(1026)

0.67 (575)

 

AUA

0.42(1019)

0.70(1292)

Thr

ACU

1.02(1663)

1.16(1879)

Met

AUG

1.00(2622)

1.00(2746)

 

ACC*

1.50(2449)

0.92(1492)

Val

GUU

0.90(2027)

1.37(2157)

 

ACA

0.77(1262)

1.08(1756)

 

GUC*

1.26(2837)

0.79(1249)

 

ACG

0.71(1153)

0.85(1380)

 

GUA

0.42 (948)

0.63 (989)

Ala

GCU

1.09(2436)

1.27(3404)

 

GUG*

1.42(3213)

1.20(1890)

 

GCC*

1.40(3133)

0.96(2575)

Tyr

UAU

0.59(1234)

1.05(1239)

 

GCA

0.75(1686)

1.04(2780)

 

UAC*

1.41(2920)

0.95(1124)

 

GCG

0.76(1691)

0.73(1955)

His

CAU

0.80(1079)

1.10(1275)

Cys

UGU

0.87(1565)

1.11 (806)

 

CAC*

1.20(1630)

0.90(1052)

 

UGC*

1.13(2036)

0.89 (649)

Gln

CAA

0.86(1319)

1.01(3748)

Trp

UGG

1.00(1904)

1.00 (714)

 

CAG*

1.14(1755)

0.99(3698)

Arg

CGU*

1.52(1377)

1.28(2285)

Asn

AAU

0.87(1721)

1.21(3282)

 

CGC*

1.61(1460)

1.03(1841)

 

AAC*

1.13(2251)

0.79(2132)

 

CGA

1.15(1040)

1.10(1972)

Lys

AAA

0.79(1230)

0.95(5661)

 

CGG

0.78 (707)

0.72(1286)

 

AAG*

1.21(1865)

1.05(6277)

 

AGA

0.46 (421)

1.01(1808)

Asp

GAU

0.91(1832)

1.20(4650)

 

AGG

0.47 (429)

0.85(1523)

 

GAC*

1.09(2215)

0.80(3082)

Gly

GGU

1.34(2761)

1.37(1483)

Glu

GAA

0.70(1403)

1.01(8782)

 

GGC*

1.41(2917)

0.92 (997)

 

GAG*

1.30(2606)

0.99(8660)

 

GGA

0.81(1665)

1.03(1110)

     

GGG

0.44 (919)

0.68 (739)

  1. Note: AA: amino acid; N: number of codons; RSCU: Relative synonymous codon usage. The codon usage of 431 genes (5% of the total number of genes) from the extremes of the principal were pooled. The codon usage of both pools was compared using Chi squared test, to identify optimal codons. Asterisks denote codons that occurred significantly more often (P < 0.01)