Table 1 List of antisense oligonulceotides used in this study
Name of AS-ON | Sequence | Target gene | Position within the target gene | GC content (%) | Overall ΔG°37 | Duplex ΔG°37 | Break targ. ΔG°37 | Oligo-self ΔG°37 | Oligo-oligo ΔG°37 | Tm (°c) |
|---|---|---|---|---|---|---|---|---|---|---|
5UP2 | 5′-CAAGGCATAGAGCCAACACC-3′ | 2 nt mismatching | 11–30 bp | 55 | ||||||
5UP2* | 5′-CGTGGCATAGAGCCAACACC-3′ | 5′UTR | 11–30 bp | 60 | −22.3 | −24.9 | 0 | −2.6 | −6.8 | 68.9 |
YN1 | 5′-TGGGCTGTGCCAGTGGTCAC-3′ | 5′UTR | 52–71 bp | 65 | −20.6 | −41.1 | −15.7 | −4.8 | −12.6 | 93.1 |
YN2 | 5′-GATTGAAGGCAGTCTGGATC-3′ | ORF7 | 234–253 bp | 50 | −16.1 | −22.6 | −5.9 | −0.3 | −5.7 | 67.2 |
YN3 | 5′-TGCAACTCCGGAAGCAAGGT-3′ | 5′UTR | 140–159 bp | 55 | −17.9 | −25.4 | −6.8 | −0.5 | −8 | 69.7 |
YN4 | 5′-CAGCTCACATAGCGTCAAAT-3′ | ORF5 | 131–150 bp | 45 | −25.2 | −36.1 | −9.3 | −1.5 | −6.4 | 86.7 |
YN5 | 5′--CGTACGACGGTAGATGCTCT-3′ | NSP9 | 1266–1285 bp | 55 | −23.5 | −25 | −0.4 | −0.7 | −7.8 | 69.6 |
YN6 | 5′-CGACGACAGACACAACTGCC-3′ | ORF7 | 215–237 bp | 60 | −14.1 | −24.5 | −9.6 | −0.6 | −6.4 | 66.4 |
YN7 | 5′- CTGGATCGACAGACAGACACA-3′ | ORF7 | 221–240 bp | 55 | −15.9 | −38 | −20.6 | −1.4 | −9.5 | 87.5 |
YN8 | 5′-TGCAGCATCCTCACAACCGT-3′ | NSP9 | 704–723 bp | 55 | −23.1 | −27.8 | −4.7 | 0 | −5.9 | 75.3 |