TABLE 1.
Primers used for cDNA synthesis, PCR amplification, and sequencing
| Primer | Sequence | Amino acid motif | Gene | Locationa |
|---|---|---|---|---|
| AN32 | GTYTGCCA | WQT | VP1 | 3009-3002 |
| AN33 | GAYTGCCA | WQS | VP1 | 3009-3002 |
| AN34 | CCRTCRTA | YDG | VP1 | 3111-3104 |
| AN35 | RCTYTGCCA | WQS | VP1 | 3009-3002 |
| 224 | GCIATGYTIGGIACICAYRT | AMLGTH(I/L/M) | VP3 | 1977-1996 |
| 222 | CICCIGGIGGIAYRWACAT | M(F/Y)(I/V)PPG(A/G) | VP1 | 2969-2951 |
| 292 | MIGCIGYIGARACNGG | (Q/T)A(A/V)ETG | VP1 | 2612-2627 |
| AN89 | CCAGCACTGACAGCAGYNGARAYNGGb | PALTA(A/V)E(I/T)G | VP1 | 2602-2627 |
| AN88 | TACTGGACCACCTGGNGGNAYRWACATb | M(F/Y)(I/V)PPGGPV | VP1 | 2977-2951 |
| AN232 | CCAGCACTGACAGCAb | PALTA | VP1 | 2602-2616 |
| AN233 | TACTGGACCACCTGGb | PGGPV | VP1 | 2977-2963 |
| AN230 | AATTAACCCTCACTAAAGGGAGAAGATATTATACTCAYTGGc | RYYTHW | VP3 | 1993-2010 |
| AN231 | GTCAGCTGGGTTTATNCCRTA | YGINPAD | VP1 | 3069-3049 |
a
The locations of all primers except AN230 and AN231 are those relative to the genome of PV1 Mahoney (GenBank accession number J02281); the locations for AN230 and AN231 are relative to those of the genome of EV68 Fermon (GenBank accession number AY426531).
b
AN232 is the nondegenerate “clamp” portion of AN89, and AN233 is the nondegenerate clamp portion of AN88. Within the AN88 and AN89 sequences, these clamp regions are indicated in italic type.
c
The T3 RNA polymerase promoter sequence is underlined.