Table 7.
Relative Synonymous Codon Usage for the highly and lowly expressed genes.
| AA | Codon | RSCUa | Na | RSCUb | Nb | AA | Codon | RSCUa | Na | RSCUb | Nb |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Phe | UUU | 0.08 | (34) | 0.57 | (185) | Ser | UCU | 0.11 | (27) | 0.94 | (178) |
| UUC* | 1.92 | (839) | 1.43 | (466) | UCC* | 1.20 | (284) | 0.88 | (166) | ||
| Leu | UUA | 0.00 | (0) | 0.16 | (41) | UCA | 0.10 | (23) | 0.84 | (160) | |
| UUG | 0.09 | (33) | 1.55 | (390) | UCG | 1.76 | (417) | 1.67 | (317) | ||
| CUU | 0.07 | (26) | 0.93 | (235) | Pro | CCU | 0.16 | (60) | 0.85 | (249) | |
| CUC* | 1.38 | (518) | 1.16 | (292) | CCC* | 1.49 | (545) | 0.88 | (257) | ||
| CUA | 0.01 | (5) | 0.49 | (123) | CCA | 0.12 | (43) | 0.71 | (209) | ||
| CUG* | 4.45 | (1676) | 1.70 | (429) | CCG* | 2.23 | (813) | 1.56 | (459) | ||
| Ile | AUU | 0.19 | (78) | 1.01 | (288) | Thr | ACU | 0.09 | (47) | 0.78 | (217) |
| AUC* | 2.81 | (1181) | 1.74 | (495) | ACC* | 3.11 | (1573) | 1.20 | (333) | ||
| AUA | 0.00 | (1) | 0.25 | (72) | ACA | 0.07 | (33) | 0.70 | (193) | ||
| Met | AUG | 1.00 | (648) | 1.00 | (427) | ACG | 0.73 | (367) | 1.32 | (364) | |
| Val | GUU | 0.15 | (88) | 0.92 | (332) | Ala | GCU | 0.22 | (183) | 0.91 | (428) |
| GUC* | 1.97 | (1131) | 1.04 | (373) | GCC* | 2.50 | (2078) | 1.03 | (483) | ||
| GUA | 0.08 | (48) | 0.34 | (123) | GCA | 0.22 | (181) | 0.76 | (355) | ||
| GUG | 1.79 | (1025) | 1.69 | (608) | GCG | 1.06 | (882) | 1.30 | (611) | ||
| Tyr | UAU | 0.10 | (41) | 0.69 | (185) | Cys | UGU | 0.06 | (7) | 0.83 | (123) |
| UAC* | 1.90 | (767) | 1.31 | (350) | UGC* | 1.94 | (212) | 1.17 | (175) | ||
| TER | UAA | 0.56 | (20) | 0.79 | (28) | TER | UGA | 1.77 | (63) | 1.63 | (58) |
| UAG | 0.67 | (24) | 0.59 | (21) | Trp | UGG | 1.00 | (531) | 1.00 | (468) | |
| His | CAU | 0.12 | (36) | 0.89 | (236) | Arg | CGU | 0.52 | (164) | 1.37 | (364) |
| CAC* | 1.88 | (570) | 1.11 | (296) | CGC* | 3.79 | (1189) | 1.50 | (399) | ||
| Gln | CAA | 0.06 | (29) | 0.63 | (221) | CGA | 0.18 | (55) | 0.85 | (227) | |
| CAG* | 1.94 | (1021) | 1.37 | (480) | CGG | 1.41 | (442) | 1.23 | (328) | ||
| Asn | AAU | 1.10 | (50) | 0.75 | (265) | Ser | AGU | 0.11 | (27) | 0.73 | (139) |
| AAC* | 1.90 | (926) | 1.25 | (446) | AGC* | 2.71 | (642) | 0.94 | (178) | ||
| Lys | AAA | 0.06 | (33) | 0.60 | (229) | Arg | AGA | 0.00 | (1) | 0.41 | (109) |
| AAG* | 1.94 | (1046) | 1.40 | (539) | AGG | 0.11 | (33) | 0.64 | (170) | ||
| Asp | GAU | 0.15 | (151) | 0.89 | (564) | Gly | GGU | 0.54 | (305) | 1.04 | (414) |
| GAC* | 1.85 | (1868) | 1.11 | (706) | GGC* | 2.90 | (1646) | 1.19 | (471) | ||
| Glu | GAA | 0.29 | (270) | 0.84 | (513) | GGA | 0.14 | (81) | 0.91 | (363) | |
| GAG* | 1.71 | (1609) | 1.16 | (704) | GGG | 0.41 | (235) | 0.86 | (341) |
*Codons whose occurrences are significantly higher (P < .01) in the extreme left side of axis 1 than the genes present on the extreme right of the first major axis. Each group contains 10% of sequences at either extreme of the major axis generated by correspondence analysis. AA: amino acid; N: number of codon; agenes on extreme left of axis 1; bgenes on extreme right of axis 1.