Table 2.
The Relative synonymous codon usage (RSCU) patterns of polymerase genes of EIVs and their host species
| Amino acid | Codon | PB2 | PB1 | PA | Horse | Donkey | Dog | Amino acid | Codon | PB2 | PB1 | PA | Horse | Donkey | Dog |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Phe | UUU | 0.98 | 0.63 | 1.22 | 0.83 | 0.88 | 0.82 | Ser | UCA | 2.2 | 1.58 | 1.18 | 0.80 | 0.83 | 0.81 |
| UUC | 1.02 | 1.38 | 0.77 | 1.17 | 1.12 | 1.16 | UCG | 0.43 | 0.17 | 0.15 | 0.34 | 0.24 | 0.38 | ||
| Leu | UUA | 0.55 | 0.72 | 1.08 | 0.33 | 0.24 | 0.35 | AGU | 0.76 | 0.68 | 1.25 | 0.86 | 1.10 | 0.89 | |
| UUG | 1.45 | 1.29 | 0.92 | 0.72 | 0.82 | 0.68 | AGC | 1.24 | 1.32 | 0.74 | 1.48 | 1.27 | 1.56 | ||
| CUU | 1.16 | 0.65 | 1.35 | 0.73 | 0.80 | 0.67 | Arg | AGA | 1.4 | 1.57 | 1.13 | 1.30 | 1.49 | 1.20 | |
| CUC | 0.88 | 0.79 | 1.05 | 1.32 | 1.63 | 1.25 | AGG | 0.6 | 0.43 | 0.87 | 1.32 | 1.86 | 1.32 | ||
| CUA | 0.95 | 1.11 | 0.66 | 0.34 | 0.18 | 0.37 | CGU | 0.63 | 0.00 | 0.57 | 0.55 | 0.49 | 0.46 | ||
| CUG | 1 | 1.44 | 0.92 | 2.56 | 2.33 | 2.45 | CGC | 0.99 | 0.48 | 1.13 | 1.15 | 0.79 | 1.26 | ||
| Ile | AUU | 1.31 | 0.91 | 1.24 | 0.92 | 0.58 | 0.96 | CGA | 0.98 | 1.91 | 2.1 | 0.61 | 0.74 | 0.67 | |
| AUC | 0.52 | 0.85 | 0.83 | 1.66 | 1.95 | 1.61 | CGG | 1.4 | 1.61 | 0.17 | 1.08 | 0.62 | 1.31 | ||
| AUA | 1.18 | 1.24 | 0.93 | 0.42 | 0.47 | 0.45 | Cys | UGU | 0.01 | 1.19 | 0.59 | 0.89 | 0.62 | 0.85 | |
| Val | GUU | 0.76 | 0.91 | 0.96 | 0.60 | 0.64 | 0.58 | UGC | 1.99 | 0.81 | 1.4 | 1.11 | 1.38 | 1.10 | |
| GUC | 0.66 | 1.12 | 0.63 | 1.08 | 1.42 | 1.1 | His | CAU | 1.4 | 1.11 | 0.92 | 0.81 | 0.89 | 0.78 | |
| GUA | 1.18 | 1.08 | 1.04 | 0.35 | 0.29 | 0.42 | CAC | 0.6 | 0.89 | 1.07 | 1.19 | 1.11 | 1.22 | ||
| GUG | 1.4 | 0.89 | 1.34 | 1.97 | 1.65 | 1.98 | Gln | CAA | 1.25 | 1.24 | 1.25 | 0.52 | 0.84 | 0.50 | |
| Pro | CCU | 1.1 | 1.13 | 0.39 | 1.19 | 0.83 | 1.08 | CAG | 0.75 | 0.76 | 0.74 | 1.48 | 1.16 | 1.46 | |
| CCC | 0.96 | 0.75 | 0.85 | 1.38 | 1.60 | 1.47 | Asn | AAU | 1.2 | 1.15 | 0.97 | 0.84 | 0.66 | 0.87 | |
| CCA | 1.79 | 1.66 | 2.16 | 0.97 | 1.06 | 1.05 | AAC | 0.8 | 0.85 | 1.02 | 1.16 | 1.34 | 1.12 | ||
| CCG | 0.14 | 0.47 | 0.58 | 0.45 | 0.51 | 0.51 | Lys | AAA | 1.37 | 1.32 | 1.33 | 0.79 | 0.79 | 0.79 | |
| Thr | ACU | 0.83 | 1.07 | 0.77 | 0.94 | 0.82 | 0.89 | AAG | 0.63 | 0.89 | 0.67 | 1.21 | 1.21 | 1.13 | |
| ACC | 0.93 | 0.85 | 1.11 | 1.58 | 1.77 | 1.58 | Asp | GAU | 1.15 | 1.27 | 1.25 | 0.83 | 0.84 | 0.86 | |
| ACA | 1.85 | 1.89 | 2 | 0.96 | 0.79 | 1.05 | GAC | 0.85 | 0.73 | 0.74 | 1.17 | 1.16 | 1.09 | ||
| ACG | 0.39 | 0.19 | 0.1 | 0.52 | 0.61 | 0.53 | Glu | GAA | 1.36 | 1.34 | 1.16 | 0.76 | 0.84 | 0.79 | |
| Ala | GCU | 0.94 | 1.03 | 1.26 | 1.05 | 1.20 | 1 | GAG | 0.64 | 0.66 | 0.83 | 1.24 | 1.16 | 1.23 | |
| GCC | 0.93 | 0.94 | 0.81 | 1.72 | 1.74 | 1.78 | Gly | GGU | 0.7 | 0.74 | 0.84 | 0.65 | 0.87 | 0.65 | |
| GCA | 1.79 | 1.75 | 1.44 | 0.77 | 0.77 | 0.81 | GGC | 0.67 | 0.5 | 0.49 | 1.43 | 1.42 | 1.45 | ||
| GCG | 0.35 | 0.29 | 0.48 | 0.45 | 0.30 | 0.47 | GGA | 1.99 | 1.53 | 1.7 | 0.95 | 0.85 | 1.02 | ||
| Tyr | UAU | 0.76 | 0.96 | 1.23 | 0.75 | 0.63 | 0.79 | GGG | 0.64 | 1.23 | 0.96 | 0.97 | 0.86 | 1.05 | |
| UAC | 1.24 | 1.04 | 0.76 | 1.25 | 1.37 | 1.15 | |||||||||
| Ser | UCU | 0.53 | 0.68 | 1.38 | 1.09 | 1.10 | 1.09 | ||||||||
| UCC | 0.84 | 1.57 | 1.27 | 1.43 | 1.46 | 1.52 |
Over- (RSCU ≥1.6) and under-represented (RSCU ≤0.6) codons are displayed in bold and italics, respectively