| 30/30 |
5′-AGCGTAGCACTGGGCTGCTGAACTGTGCTG-3′ |
30-bp cognate substrate for Bfil (recognition sequence underlined); Bio-30/30 has the same sequence, as shown, but with a biotin tag at the 5′ end of its top strand |
| Bio-30/30 |
3′-TCGCATCGTGACCCGACGACTTGACACGAC-5′ |
|
| 30/30(S) |
5′-AGCGTAGCACTGGGCTGC-TGAACTGTGCTG-3′ |
As 30/30 except for a phosphorothioate linkage at the position indicated by s, the site of bottom-strand cleavage by Bfil |
|
3′-TCGCATCGTGACCCGACGsACTTGACACGAC-5′ |
|
| 30(S)/30 |
5′-AGCGTAGCACTGGGCTGCTsGsAsACTGTGCTG-3′ |
As 30/30 except for phosphorothioate linkages at the three positions indicated by s, the sites of top-strand cleavage by Bfil |
|
3′-TCGCATCGTGACCCGACGA-C-T-TGACACGAC-5′ |
|
| 30/(18P_12) |
5′-AGCGTAGCACTGGGCTGC-TGAACTGTGCTG-3′ |
Duplex made from three oligos to give a nicked DNA akin to the Bfil product on the bottom strand of 30/30; the nucleotide 5′ to the nick is phosphorylated, to mimic the terminus left by Bfil |
|
3′-TCGCATCGTGACCCGACGp ACTTGACACGAC-5′ |
|
| 30/18P |
5′-AGCGTAGCACTGGGCTGCTGAACTGTGCTG-3′ |
Analogous to 30/(18P_12) except made from two oligos to give a 3′-tailed duplex |
|
3′-TCGCATCGTGACCCGACGp-5′ |
|
| 30/(18P_dd12) |
5′-AGCGTAGCACTGGGCTGC-TGAACTGTGCTG-3′ |
As 30/(18P_12) except that the nucleotide 3′ to the nick is replaced by a dideoxynucleotide (indicated by dd) |
|
3′-TCGCATCGTGACCCGACGpddACTTGACACGAC-5′ |
|
| 30/(18Δ_12) |
5′-AGCGTAGCACTGGGCTGC-TGAACTGTGCTG-3′ |
As 30/(18P_12), except that the nucleotide 5′ to the nick is not phosphorylated |
|
3′-TCGCATCGTGACCCGACGOH ACTTGACACGAC-5′ |
|
