Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
12 hits were found for UUAUGCAUAGUAUAUAGAG (2 guide strand hits and 10 sense strand hits.)
Hits to Guide strand
| Accession | Gene | Start | End | Details of mismatches | Spec. Score | Mismatches | Contiguous | Jackson style specificity | Hits similar gene | HSP Score | HSP % Identity | HSP length | Gene Length | ||||||||||||||||||
| 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | |||||||||||||
| NM_001464 | ADAM2 | 600 | 618 | U | U | u | U | G | C | A | a | A | G | U | A | U | A | U | A | G | A | a | 13 | 3 | 10 | bc | false | <90% | 2657 | ||
| NM_000912 | OPRK1 | 4888 | 4906 | U | U | A | U | G | C | A | U | u | G | U | A | U | A | U | A | c | g | a | 8 | 4 | 8 | c | false | <90% | 4959 | ||
Hits to Sense strand
| Accession | Gene | Start | End | Details of mismatches | Spec. Score | Mismatches | Contiguous | Jackson style specificity | Hits similar gene | HSP Score | HSP % Identity | HSP length | Gene Length | ||||||||||||||||||
| 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | |||||||||||||
| NM_004748 | CCPG1 | 3618 | 3636 | C | U | a | U | A | U | A | U | A | C | U | A | U | G | C | A | U | g | A | 77 | 2 | 14 | c | false | <90% | 6666 | ||
| NM_020739 | CCPG1 | 3650 | 3668 | C | U | a | U | A | U | A | U | A | C | U | A | U | G | C | A | U | g | A | 77 | 2 | 14 | c | false | <90% | 6698 | ||
| NM_019024 | HEATR5B | 6756 | 6774 | g | U | g | U | A | U | A | U | A | C | U | A | U | G | a | A | U | A | A | 53 | 3 | 11 | c | false | <90% | 6792 | ||
| NR_003090 | MOBP | 1286 | 1304 | u | a | u | a | A | U | A | U | A | C | U | A | U | G | C | A | U | A | A | 30 | 4 | 15 | bc | false | <90% | 2689 | ||
| XM_032945 | C21orf25 | 2465 | 2483 | a | a | C | U | A | U | A | U | c | C | U | A | U | G | C | A | U | A | g | 21 | 4 | 9 | bc | false | <90% | 4783 | ||
| NM_199050 | C21orf25 | 2465 | 2483 | a | a | C | U | A | U | A | U | c | C | U | A | U | G | C | A | U | A | g | 21 | 4 | 9 | bc | false | <90% | 5848 | ||
| NM_015500 | C21orf25 | 2966 | 2984 | a | a | C | U | A | U | A | U | c | C | U | A | U | G | C | A | U | A | g | 21 | 4 | 9 | bc | false | <90% | 6349 | ||
| NM_018057 | SLC6A15 | 4000 | 4018 | u | g | C | U | A | a | A | U | A | C | U | A | U | G | C | A | U | A | c | 18 | 4 | 12 | bc | false | <90% | 4227 | ||
| NM_001046 | SLC12A2 | 4553 | 4571 | u | U | C | U | A | U | A | U | A | C | c | A | U | G | C | u | U | A | A | 10 | 3 | 9 | c | false | <90% | 6891 | ||
| NM_025076 | UXS1 | 1760 | 1778 | g | U | C | g | u | U | A | U | A | C | U | A | U | G | C | A | U | A | A | 9 | 3 | 14 | bc | false | <90% | 2132 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2100
View matched accessions
3 prime seed match details
Immunostimulatory motif search results
UGUGU - Judge et al. Sequence-dependent stimulation of the mammalian innate immune response by synthetic siRNA. Nat Biotechnol. 2005 Apr;23(4):457-62. (PMID: 15778705)
No Immunostimulatory motif found (UGUGU).
GUCCUUCAA - Hornung et al. Sequence-specific potent induction of IFN-alpha by short interfering RNA in plasmacytoid dendritic cells through TLR7. Nat Med. 2005 Mar;11(3):263-70. Epub 2005 Feb 20. (PMID: 15723075)
No Immunostimulatory motif found (GUCCUUCAA).
Settings used for search
Scores were calculated using scoring scheme SS1
Using AVG scoring mode.
Hit scores
| Parameter | Spec. Score cut-off | Colour | Comment |
| Hit to same gene | Colour | Hits to the same accession or genes with 100 percent identity (i.e. likely transcript variants). It is advisable to always check the genes hit. | |
| High scoring hit | ≥80 | Colour | Hits are very likely to cause an off-target effect |
| Medium scoring hit | <80¸≥40 | Colour | Hits with a small chance of causing an off target effect. |
| Low scoring hit | Colour | Hits very unlikely to cause an off-target effect |
The mismatches are colour coded based on the weighting of that position.
| Cut-off | Colour |
| Match | Colour |
| Wobble base pairs (G-U) | Colour |
| Critical bases (none) | Colour |
| 0.6 bits | Colour |
| 0.4 bits | Colour |
| 0.2 bits | Colour |
SpecificityServer is designed to help you identify potential non-specific matches to your siRNA. It incorporates the latest information about non-specific matches (sequence-specific only).
Designed by: Alistair Chalk, Quan Du, Zicai Liang and Erik L.L. Sonnhammer