Table 1.
Oligoduplexes used in this study
| Oligoduplex | Sequencea | |
|---|---|---|
| Watson–Crick duplexes | A/T | 5′ CGCACGACTTCCTGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGACCTTCTCGTGCGTTG 5′ |
| G/C | 5′ CGCACGACTTCCCGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGGCCTTCTCGTGCGTTG 5′ | |
| Symmetrical mismatches | T/T | 5′ CGCACGACTTCCTGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGTCCTTCTCGTGCGTTG 5′ |
| A/A | 5′ CGCACGACTTCCAGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGACCTTCTCGTGCGTTG 5′ | |
| C/C | 5′ CGCACGACTTCCCGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGCCCTTCTCGTGCGTTG 5′ | |
| G/G | 5′ CGCACGACTTCCGGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGGCCTTCTCGTGCGTTG 5′ | |
| Asymmetric mismatches | G/T | 5′ CGCACGACTTCCTGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGGCCTTCTCGTGCGTTG 5′ |
| C/T | 5′ CGCACGACTTCCTGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGCCCTTCTCGTGCGTTG 5′ | |
| A/G | 5′ CGCACGACTTCCGGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGACCTTCTCGTGCGTTG 5′ | |
| A/C | 5′ CGCACGACTTCCCGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGGACCTTCTCGTGCGTTG 5′ | |
| 2-AP duplexes | 2/T | 5′ CGCACGCCTTCCTGGAAGCACACTA 3′ 3′ GCGTGCGGAAGG2CCTTCGTGTGAT 5′ |
| 2/A | 5′ CGCACGCCTTCC2GGAAGCACACTA 3′ 3′ GCGTGCGGAAGGACCTTCGTGTGAT 5′ | |
| 2/2 | 5′ CGCACGCCTTCC2GGAAGCACACTA 3′ 3′ GCGTGCGGAAGG2CCTTCGTGTGAT 5′ | |
| 2FSb | 5′ CGCACGCCTTCCTGGAAGCACACTA 3′ 3′ GCGTGCGGA2GGACCTTCGTGTGAT 5′ | |
| Abasic sites | −/A | 5′ CGCACGACTTCCAGGAAGAGCACGC 3′ 3′ GCGTGCTGAAGG-CCTTCTCGTGCGTTG 5′ |
| −/− | 5′ CGCACGACTTCC-GGAAGAGCACGC 3′ 3′ GCGTGCTGAAGG-CCTTCTCGTGCGTTG 5′ | |
| Non-specific | NSc | 5′ CGCACGACTTGTCACAAGAGCACGC 3′ 3′ GCGTGCTGAACAGTGTTCTCGTGCGTTG 5′ |
aEcl18kI/PspGI/EcoRII-C recognition site is in boldface; the central base pair of the recognition sequence is underlined; 2 stands for 2–aminopurine; a dash (−) marks the abasic site.
bOligoduplex 2FS contains 2-aminopurine introduced immediately adjacent to the target site.
cOligoduplex NS lacks the recognition sequence of Ecl18kI/PspGI/EcoRII-C.