Table 1.
Primers used for the amplification of the P1 region
| Region | Primer | Orientation | Sequence (5’-3’) a | Position b | Reference |
|---|---|---|---|---|---|
|
VP1 |
292 |
Sense |
MIGCIGYIGARACNGG |
2613–2628 |
30 |
| 222 |
Antisense |
CICCIGGIGGIAYRWACAT |
2969–2951 |
||
|
VP2 |
AM12 |
Sense |
GARGARTGYGGITAYAGYGA |
962–981 |
31 |
| AM32 |
Antisense |
TTDATCCAYTGRTGIGG |
1545–1529 |
||
|
VP3 |
RC7 |
Sense |
GTVHDIAAYGCIGGHATGGG |
1463-1482 |
This study |
| RC8 |
Antisense |
GTYTGCATIGTGTCDSHIGG |
2597-2578 |
||
|
VP4 |
RC1 |
Sense |
CCATATAGYTATTGGATTGGC |
615-635 |
This study |
| RC2M |
Antisense |
GGIARYTTCCACCACCAHCC |
1197-1178 |
||
|
VP1-2A |
RC5M |
Sense |
TIACITTTGTSATHACIAG |
2799-2817 |
This study |
| RC6 |
Antisense |
ACIACRCCYTCICCICCCAT |
3690-3671 |
||
| |
RC10 |
Antisense |
TCCCACACRCAVYTYWGCC |
3396-3378 |
This study |
| |
RC5-B2 |
Sense |
CTAACWTTYGTCATNACCAG |
2813-2832 |
This study |
| |
RC5-B4 |
Sense |
CTYACMTTTGTSATYACYAG |
2802-2821 |
This study |
| |
RC5-B3 |
Sense |
CTGACGTTTGTCATAACAAG |
2798-2817 |
This study |
| |
RC5(B5/B6) |
Sense |
GARYTVACYTTTGTSATHAC |
2801-2820 |
This study |
| |
RC11(B2,B4,B5,B6) |
Antisense |
TCYCTRTTRTARTCYTCCC |
3417-3399 |
This study |
| RC12(B3) | Antisense | TCYCTGTTGTAACTTTCCC | 3411-3393 | This study |
a The following standard ambiguity codes were used: D = G, A, or T; R = A or G; Y = T or C; N = A, T, C, or G; M = A or C; S = G or C; H = A, C or T; W = A or T and I = deoxyinosine.
b With reference to the sequence of CV-B3.