Table 2.
Country | Target gene | Primer and probe | Sequence (5′-3′) | Position (Reference sequence: NC_045512.2) |
---|---|---|---|---|
China12 | ORF1ab | ORF1ab-F | ccctgtgggttttacacttaa | 13,342–13,362 |
ORF1ab-R | acgattgtgcatcagctga | 13,442–13,460 | ||
ORF1ab-P | FAM-ccgtctgcggtatgtggaaaggttatgg-BHQ1 | 13,377–13,404 | ||
N | N-F | ggggaacttctcctgctagaat | 28,881–28,902 | |
N-R | cagacattttgctctcaagctg | 28,958–28,979 | ||
N-P | FAM-ttgctgctgcttgacagatt-TAMRA | 28,934–28,953 | ||
USA13 | N | N1-F | gaccccaaaatcagcgaaat | 28,287–28,306 |
N1-R | tctggttactgccagttgaatctg | 28,335–28,358 | ||
N1-P | FAM-accccgcattacgtttggtggacc-BHQ1 | 28,309–28,332 | ||
N | N2-F | ttacaaacattggccgcaaa | 29,164–29,183 | |
N2-R | gcgcgacattccgaagaa | 29,213–29,230 | ||
N2-P | FAM-acaattttgcccccagcgcttcag-BHQ1 | 29,188–29,210 | ||
N | N3-F | gggagccttgaatacaccaaaa | 28,681–28,702 | |
N3-R | tgtagcacgattgcagcattg | 28,732–28,752 | ||
N3-P | FAM-aycacattggcacccgcaatcctg-BHQ1 | 28,706–28,727 | ||
Japan14 | N | N-F | aaattttggggaccaggaac | 29,125–29,144 |
N-R | tggcagctgtgtaggtcaac | 29,280–29,299 | ||
N-P | FAM-atgtcgcgcattggcatgga-BHQ | 29,222–29,241 | ||
Germany11 | RdRP | RdRp-F | gtgaratggtcatgtgtggcgg | 15,431–15,452 |
RdRP-R | caratgttaaasacactattagcata | 15,505–15,530 | ||
RdRp-P | FAM-caggtggaacctcatcaggagatgc-BBQ | 15,470–15,494 | ||
E | E-F | acaggtacgttaatagttaatagcgt | 26,269–26,294 | |
E-R | atattgcagcagtacgcacaca | 26,360–26,381 | ||
E-P | FAM-acactagccatccttactgcgcttcg-BBQ | 26,332–26,357 | ||
E envelope protein, F forward primer, N nucleocapsid protein, ORF open reading frame, P probe, R reverse primer, RdRp RNA-dependent RNA polymerase.