Patterns of Synonymous Codon Usage on Human Metapneumovirus and Its Influencing Factors
Table 3
Synonymous codon usages of complete coding region of HMPV, human cell, AMPV, and bird cell.
AA
Codon
aRSCU
bRSCU
cRSCU
dRSCU
Ala
GCU
1.36
1.08
1.02
1.42
GCC
0.55
1.6
0.77
1.33
GCA
1.89
0.92
1.99
0.98
GCG
0.2
0.44
0.22
0.27
Arg
CGU
0.12
0.48
0.15
0.00
CGC
0.13
1.08
0.14
0.55
CGA
0.31
0.66
0.34
0.27
CGG
0.23
1.2
0.41
1.09
AGA
3.58
1.26
2.86
2.18
AGG
1.63
1.26
2.10
1.91
Asn
AAU
1.13
0.94
1.08
1.41
AAC
0.87
1.06
0.92
0.59
Asp
GAU
1.26
0.92
1.12
0.88
GAC
0.74
1.08
0.89
1.12
Cys
UGU
1.04
0.92
1.11
0.67
UGC
0.96
1.08
0.89
1.33
Gln
CAA
1.27
0.54
1.19
0.48
CAG
0.73
1.46
0.81
1.52
Glu
GAA
1.26
0.84
1.11
0.75
GAG
0.74
1.16
0.89
1.25
Gly
GGU
1.08
0.64
0.89
0.43
GGC
0.73
1.36
0.68
1.19
GGA
1.49
1
1.43
1.08
GGG
0.71
1
1.01
1.30
His
CAU
1.13
0.84
1.00
0.35
CAC
0.87
1.16
1.00
1.65
Ile
AUU
1.2
1.08
1.02
1.78
AUC
1
1.41
0.90
1.03
AUA
0.8
0.51
1.08
0.19
Leu
UUA
1.44
0.48
1.19
0.42
UUG
1.08
0.78
1.36
0.85
CUU
1.14
0.78
0.83
0.56
CUC
0.64
1.2
0.57
0.99
CUA
0.85
0.42
0.92
0.28
CUG
0.84
2.4
1.13
2.89
Lys
AAA
1.21
0.86
1.12
0.93
AAG
0.79
1.14
0.88
1.07
Phe
UUU
1.32
0.92
1.27
1.33
UUC
0.68
1.08
0.73
0.67
Pro
CCU
1.15
1.16
1.12
1.22
CCC
0.82
1.28
0.74
1.22
CCA
1.8
1.12
1.78
1.47
CCG
0.23
0.44
0.36
0.08
Ser
UCU
0.97
1.14
0.93
0.71
UCC
0.63
1.32
0.72
1.15
UCA
1.46
0.9
1.37
1.06
UCG
0.13
0.3
0.18
0.26
AGU
1.46
0.9
1.41
0.44
AGC
1.36
1.44
1.30
2.38
Thr
ACU
1.17
1
0.98
0.16
ACC
0.92
1.44
0.83
1.28
ACA
1.75
1.12
1.91
1.76
ACG
0.16
0.44
0.27
0.80
Tyr
UAU
1.34
0.88
1.14
0.95
UAC
0.66
1.12
0.86
1.05
Val
GUU
1.46
0.72
1.17
0.57
GUC
0.73
0.96
0.72
0.91
GUA
0.93
0.48
0.87
0.80
GUG
0.88
1.84
1.24
1.71
The number in this table is shown as relative synonymous codon usage values (RSCU) and aRSCU values represent values in HMPV, bRSCU values represent values in human host cell, cRSCU values represent values in AMPV, and dRSCU values represent values in bird cell. All preferred codons are shown in bold. AA is abbreviation of amino acid.
