Table 3.
Single- and double-stranded DNA activators
| Sequence namea | Sequenceb | crRNAs used for targeting | Figures |
|---|---|---|---|
| TS1 NTS1 |
5′-AGATTTAGCCATGTGTAGACTAAA-3′ 5′-TTTA GTCTACACATGGCTAAATCT-3′ |
crRNA | 2, 3, Supplementary Figures S3, S4, S5, S6, S7, S8, S9 |
| TS- crRNA + 3′DNA7 NTS- crRNA + 3′DNA7 |
5′-AGCACCCAGTCCGCCCTGAGTAAA-3′ 5′-TTTA CTCAGGGCGGACTGGGTGCT-3′ |
crRNA + 3′DNA7 | Supplementary Figure S3 |
| SARS-CoV-2 ds-DNA amplicon | 5′-GATCCTTGTAAAGGAAAGTAACAATTAAA ACCTTCAACACCATTACAAGGTGTGCTAGGATCCCCGGGTACCGAGCTCGAATTCACTGGCCGTCGTTTTACA-3′ 5′- TGTAAAACGACGGCCAGTGAATTCGA GCTCGGTACCCGGGGATCCTAGCACACCTTGTAATGGTGTTGAAGGTTTTAATTGTTACTTTCCTTTACAAGGATC-3′ |
crRNA- SARS-CoV-2 | 5a, 5b |
| PM MM1 MM4 MM8 MM12 MM16 MM20 MM1–2 MM4–5 MM8–9 MM12–13 MM16–17 MM19–20 NTS |
5′- TTGTAAAGGAAAGTAACAATTAAA-3′ 5′-TTGTAAAGGAAAGTAACAACTAAA-3′ 5′-TTGTAAAGGAAAGTAATAATTAAA-3′ 5′-TTGTAAAGGAAATTAACAATTAAA-3′ 5′-TTGTAAAGTAAAGTAACAATTAAA-3′ 5′-TTGTGAAGGAAAGTAACAATTAAA-3′ 5′-GTG TAA AGG AAA GTA ACA ATTAAA-3′ 5′-TTGTAAAGGAAAGTAACATCTAAA-3′ 5′-TTGTAAAGGAAAGTAGTAATTAAA-3′ 5′-TTGTAAAGGAAGTTAACAATTAAA-3′ 5′-TTGTAAACTAAAGTAACAATTAAA-3′ 5′-TTGGGAAGGAAAGTAACAATTAAA-3′ 5′-GAG TAA AGG AAA GTA ACA ATTAAA-3′ 5′-TTTA ATTGTTACTTTCCTTTACAA-3′ |
crRNA- SARS-CoV-2 | 5e, 5f, Supplementary Figures S12, S13, S14 |
| Salmonella ds-DNA amplicon | 5′-TGGCGATATTGGTGTTTATGGGGTCGTTCTACATTGACAGAATCCTCAGTTTTTCAACGTTTCCTGCGGTACTGTTAATTACCACGCTCTTTCGTCTGGCATTATCGATCAGTACCAGCCGTCTTATCTTGATTGAAGCCGATGCCGGTGAAATTATCGCCACGTTCGGGCAATTCGTTATTGGCGATAGCCTGGCGGTGGGTTTTGTTGTCTTCTCTATTGTCACCGTGGTCCAGTTTATCGTTATTAC-3′ | crRNA-Salmonella | 5c, 5d |
aTS represent the target single-stranded DNA, complementary to the RNA guide, whereas NTS represent the complementary non-target single-stranded DNA. PM stands for perfect match and MM for mismatch (reported in bold in the sequence). The numbers following ‘MM’ indicate the position of the mismatches respect to the PAM motif (i.e. MM1 indicates that mismatch is the first base following PAM motif, MM4 indicates that mismatch is the fourth base following PAM motif, etc).
bItalic bases represent the PAM motif; bold bases represent the mismatches.