Table 1.
Oligonucleotides of RNA monomers
| RNA ID | Sequence (5′–3′) | Note | Relative activity (%) | ||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| RNA-1 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | siRNA targeting DGCR5 | 100 ± 10 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-2 | C | U | G | A | G | G | U | U | A | C | U | G | A | A | U | C | U | A | A | C | A | A | U | G | A | siRNA targeting LINC00261 | 114 ± 20 | ||
| G | G | G | A | C | U | C | C | A | A | U | G | A | C | U | U | A | G | A | U | U | G | U | U | A | C | U | |||
| RNA-3 | C | C | A | G | U | G | G | A | A | U | C | A | U | G | G | G | G | A | U | U | U | C | U | T | A | siRNA targeting LINC00885 | 105 ± 10 | ||
| G | G | G | G | U | C | A | C | C | U | U | A | G | U | A | C | C | C | C | U | A | A | A | G | A | A | U | |||
| RNA-4 | C | U | G | A | C | A | U | C | G | U | C | U | C | G | C | A | U | U | U | A | U | G | A | G | C | keep 5′ motif and shuffle remaining | 70 ± 6 | ||
| G | G | G | A | C | U | G | U | A | G | C | A | G | A | G | C | G | U | A | A | A | U | A | C | U | C | G | |||
| RNA-5 | C | A | C | C | G | C | C | A | C | G | A | C | C | A | A | G | U | A | A | A | U | A | U | G | U | random sequence containing 5′ motif | 141 ± 23 | ||
| G | G | G | U | G | G | C | G | G | U | G | C | U | G | G | U | U | C | A | U | U | U | A | U | A | C | A | |||
| RNA-6 | C | U | A | G | U | C | A | C | C | A | C | U | U | C | U | U | A | U | G | G | U | C | U | C | U | random sequence containing 5′ motif | 110 ± 13 | ||
| G | G | G | A | U | C | A | G | U | G | G | U | G | A | A | G | A | A | U | A | C | C | A | G | A | G | A | |||
| RNA-7 | C | C | G | U | C | A | G | A | C | A | A | U | G | U | C | A | A | G | C | U | G | A | A | G | U | random sequence containing 5′ motif | 173 ± 15 | ||
| G | G | G | G | C | A | G | U | C | U | G | U | U | A | C | A | G | U | U | C | G | A | C | U | U | C | A | |||
| RNA-8 | A | C | A | C | U | G | G | C | C | C | C | U | G | A | U | A | G | U | U | C | A | C | C | T | T | move motif to center | 2 ± 0.3 | ||
| A | C | U | G | U | G | A | C | C | G | G | G | G | A | C | U | A | U | C | A | A | G | U | G | G | A | A | |||
| NA-9 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | Deleting G | 2 ± 0.6 | ||
| G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | ||||
| RNA-10 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | Deleting GG | 4 ± 2 | ||
| G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||||
| RNA-11 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | GG to CC | 1 ± 1 | ||
| C | C | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-12 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | GG to AA | 2 ± 0.1 | ||
| A | A | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-13 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | G to A | 2 ± 0.4 | ||
| G | A | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-14 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | G to A | 2 ± 0.3 | ||
| A | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-15 | U | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | G to A | 3 ± 0.9 | ||
| G | G | A | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-16 | G | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | G to C | 2 ± 0.5 | ||
| G | G | C | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-17 | A | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | G to U | 8 ± 6 | ||
| G | G | U | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-18 | Cm | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | 2′-O-methyl | 72 ± 6 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-19 | Cm | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | 2′-O-methyl | 61 ± 13 | ||
| Gm | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-20 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | Um | 2′-O-methyl | 3 ± 0.2 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | Am | |||
| RNA-21 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | 2′-O-methyl | 2 ± 0.6 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | Am | |||
| RNA-22 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | Um | 2′-O-methyl | 129 ± 15 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-23 | pC | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | Tp | monophosphate | 64 ± 9 | ||
| pG | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | Ap | |||
| RNA-24 | pC | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | monophosphate | 106 ± 7 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | Ap | |||
| RNA-25 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | Tp | monophosphate | 90 ± 5 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | Ap | |||
| RNA-26 | pC | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | monophosphate | 69 ± 12 | ||
| pG | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-27 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | change AA into DNA | 141 ± 7 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-28 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | U | U | change TT into RNA | 152 ± 8 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-29 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | U | T | change one T into U | 141 ± 10 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-30 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | U | change one T into U | 148 ± 10 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-31 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | overhang | 101 ± 7 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | |||||
| RNA-32 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | U | U | overhang | 149 ± 13 | ||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | |||||
| RNA-33 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | overhang | 107 ± 20 | ||||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | |||
| RNA-34 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | T | T | 6 nt deletion at 3′ | 43 ± 19 | ||||||||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | |||||||||
| RNA-35 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | T | 7 nt deletion at 3′ | 17 ± 5 | |||||||||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | ||||||||||
| RNA-36 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | 8 nt deletion at 3′ | 0 ± 0.4 | ||||||||||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | |||||||||||
| RNA-37 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | T | A | 9 nt deletion at 3′ | 0 ± 0.4 | |||||||||||
| G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | ||||||||||||
| RNA-38 | C | U | G | A | U | G | A | C | A | C | U | G | G | C | U | A | G | U | U | C | A | C | C | T | T | single sense strand | 0 ± 0.5 | ||
| RNA-39 | G | G | G | A | C | U | A | C | U | G | U | G | A | C | C | G | A | U | C | A | A | G | U | G | G | A | A | single antisense strand | 1 ± 1.5 |
The sense strand (left, 5′ end; right, 3′ end) is positioned on top, while the antisense strand (left, 3′ end; right, 5′ end) is below. If not indicated otherwise, both 5′ and 3′ ends of sense and antisense contain terminal hydroxyl groups. The underlined bases indicate DNA bases, and the bolded bases indicate the common IFN-inducing motif; p, monophosphate group; m, N1-2-O-methyl group. +++, high activity; ++, middle activity; +, low activity; -, no activity.