Table 4.
Comparison of genomic sequences between TMUV-TP1906, Sitiawan virus and other Tembusu virus strains.
| Genomic Region (% Sequence Identity) |
TMUV-TP1906 | Sitiawan Virus (JX477686) |
TMUV-MM1775 (MH414569) |
DTMUV-SD14 (MH748542) |
DTMUVs (see Table 2) |
|---|---|---|---|---|---|
| Complete genome sequence | 10,990 nt (100) |
NA # | 11,001 (91.54) |
11,001 (88.31) |
10,890–10,992 * (86.93–87.49) |
| 5′-UTR | 94 nt (100) |
NA # | 94 nt (94.68) |
94 nt (92.55) |
93–95 (90.43–93.68) |
| 3′-UTR (total length) |
618 nt (100) |
NA # | 629 nt (95.15) |
629 nt (92.72) |
618 nt (89.28–92.14) |
| 3′-UTR (variable region) |
87 nt(100) | NA # | 94 nt (74.71) |
94 nt (71.26) |
84–85 nt (56.96–66.25) |
| ORF | 10,278 nt (100) |
10,278 nt (93.71) |
10,278 nt (91.27) |
10,278 nt (88.00) |
10,275–10,278 nt † (86.52–87.21) |
| polyprotein | 3425 aa (100) |
3425 aa (98.92) |
3425 aa (98.57) |
3425 aa (96.64) |
3424–3425 aa (95.71–96.61) |
| C | 360 nt (100) 120 aa (100) |
360 nt (96.67) 120 aa (99.17) |
360 nt (94.71) 120 aa (96.67) |
360 nt (90.53) 120 aa (95.00) |
360 nt (88.89–90.28) 120 aa (93.33–95.00) |
| prM | 501 nt (100) 167 aa (100) |
501 nt (91.20) 167 aa (98.20) |
501 nt (90.80) 167 aa (98.80) |
501 nt (87.00) 167 aa (95.21) |
501 nt (84.40–85.40) 167 aa (94.61–96.41) |
| E | 1503 nt (100) 501 aa (100) |
1503 nt (93.68) 501 aa( 98.40) |
1503 nt (90.21) 501 aa (98.60) |
1503 nt (87.62) 501 aa (96.41) |
1503 nt (86.09–86.96) 501 aa (96.41–97.8) |
| NS1 | 1056 nt (100) 352 aa (100) |
1056 nt (93.93) 352 aa (97.73) |
1056 nt (91.86) 352 aa (98.86) |
1056 nt (89.67) 352 aa (96.31) |
1056 nt (85.13–88.35) 352 aa (90.62–94.89) |
| NS2A | 681 nt (100) 227 aa (100) |
681 nt (92.22) 227 aa (99.12) |
681 nt (89.88) 227 aa (97.8) |
681 nt (86.43) 227 aa (93.81) |
681 nt (84.14–85.61) 227 aa (90.75–92.51) |
| NS2B | 393 nt (100) 131 aa (100) |
393 nt (91.09) 131 aa (96.95) |
393 nt (89.57) 131 aa (96.95) |
393 nt (87.28) 131 aa (93.13) |
393 nt (85.24–86.77) 131 aa (90.84–93.89) |
| NS3 | 1857 nt (100) 619 aa (100) |
1857 nt (94.18) 619 aa (99.52) |
1857 nt (91.76) 619 aa (99.03) |
1857 nt (89.01) 619 aa (98.71) |
1857 nt (87.51–88.26) 619 aa (97.58–98.71) |
| NS4A | 378 nt (100) 126 aa (100) |
378 nt (93.39) 126 aa (99.21) |
378 nt (90.74) 126 aa (98.41) |
378 nt (86.21) 126 aa (96.03) |
378 nt (84.62–87.04) 126 aa (92.86–96.03) |
| 2K | 69 nt (100) 23 aa (100) |
69 nt (95.65) 23 aa (100) |
69 nt (94.12) 23 aa (100) |
69 nt (94.12) 23 aa (95.65) |
69 nt (85.51–91.18) 23 aa (95.65) |
| NS4B | 762 nt (100) 254 aa (100) |
762 nt (93.83) 254 aa (99.61) |
762 nt (90.94) 254 aa (99.21) |
762 nt (85.9) 254 aa (95.28) |
762 nt (84.83–88.52) 254 aa (91.34–97.64) |
| NS5 | 2715 nt (100) 905 aa (100) |
2715 nt (94.18) 905 aa (99.34) |
2715 nt (91.71) 905 aa (98.56) |
2715 nt (88.32) 905 aa (97.79) |
2712–2715 nt † (87.18–87.81) 904–905 aa † (96.91–98.34) |
# NA: Not available. Sequence is not available in GenBank database; * 5 DTMUV strains including DK/TH/CU-1, BYD-1, CK-SD-11, DK/TH/CU-DTMUV and G23 which do not deposit complete genome sequences in GenBank were not analyzed; † NS5 protein of both DTMUV D1977 and D1921 strains composed of 904 amino acids