TABLE 1.
Primers used to produce the partial sequences for the 11 rotavirus gene segments
| Segment | PCR and sequencing primersa (nt) | Sense | Sequenced region |
|---|---|---|---|
| 1 | beg, 5′-CAAAGAGCGTTCATGTCTTT-3′ (2371-2390) | + | 2500-2522 (153 nt) |
| end, 5′-GGTAGTGTTGGCATAAATTT-3′ (2710-2729) | − | ||
| seq, 5′-GTTAACAAATTATCTGACCA-3′ (2452-2471) | + | ||
| 2 | beg, 5′-CCTCAATGGCGTACAGGAA-3′ (13-20) | + | 67-342 (276 nt) |
| end, 5′-ATTCTCTACAGCCATATCTT-3′ (591-610) | − | ||
| seq, 5′-GCTAAACGTGAAAACTTACCA-3′ (38-59) | + | ||
| 3 | beg, 5′-CCTGGATGGAAATTAACATAT-3′ (407-427) | + | 509-850 (342 nt) |
| end, 5′-ATGGTGTGTCCAATGGATCC-3′ (970-989) | − | ||
| seq, 5′-GTCAAAACGCTGCAACAGATG-3′ (480-500) | + | ||
| 4 | beg, 5′-TGGCTTCGCTCATTTATAGACA-3′ (11-32) | + | 250-561 (312 nt) |
| end, 5′-ATTTCGGACCATTTATAACC-3′ (868-887)b | − | ||
| seq, 5′-GATGGTCCTTATCAGCC-3′ (205-221) | + | ||
| 5 | beg, 5′-CTAGATGTAGAAT(G/A)TTCACG-3′ (885-905) | + | 1153-1398 (246 nt) |
| end, 5′-TAGGCGCTACTCTAGTG-3′ (1524-1550) | − | ||
| seq, 5′-TCACAGGAAAAGATATATGA-3′ (1122-1141) | + | ||
| 6 | beg, 5′-ACTCTTAAAGATGCTAGGGA-3′ (51-70) | + | 207-512 (306 nt) |
| end, 5′-GCTGAATTAAT(T/A)ACTCTT-3′ (726-745) | − | ||
| seq, 5′-ACTATGAATGGAAATGA(A/T/C/G)TT-3′ (141-160) | + | ||
| 7 | beg, 5′-GA(T/C)ACTAT(T/A)GATTGGAAAT-3′ (521-539) | + | 705-968 (264 nt) |
| end, 5′-TTGACAGTGTTAGCTTTTAAC-3′ (1013-1033) | − | ||
| seq, 5′-ATGAACTCTCTTCAGAATGT-3′ (641-660) | + | ||
| 8 | beg, 5′-ATAGCTATTGGTCATTCAAA-3′ (457-476) | + | 739-1041 (303 nt) |
| end, 5′-CATAAGCGCTTTCTATTCTT-3′ (1034-1053) | − | ||
| seq, 5′-CATGGTAAAGGTCACTATAG-3′ (706-725) | + | ||
| 9 | beg, 5′-GGCTTTAAAAGAGAGAATTTCCGTCTGG-3′ (1-28)c | + | 100-498 (399 nt) |
| end, 5′-GGTCACATCATACAATTCTAATCTAAG-3′ (1036-1062)c | − | ||
| seq, 5′-GTATGGTATTGAATATACCAC-3′ (51-71) | + | ||
| 10 | beg, 5′-AGTTCTGTTCCGAGAGAGCG-3′ (11-30) | + | 105-506 (402 nt) |
| end, 5′-GTCACACTAAGACCATTCC-3′ (731-749) | − | ||
| seq, 5′-CACATTGAGTGTAATCACTT-3′ (68-87) | + | ||
| 11 | beg, 5′-TGGAAAATCTATTGGTAGGA-3′ (110-129) | + | 306-630 (325 nt) |
| end, 5′-AGTGGGGAGCTCCCTAGTG-3′ (631-649) | − | ||
| seq, 5′-CTGGCGTGTCTATGGATTCA-3′ (280-299) | + |