Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
16 hits were found for GAUGUUAACUGCACUGAUG (9 guide strand hits and 7 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 | |||||||||||||
| XM_937616 | PARG | 0 | 18 | x | A | U | G | U | U | A | A | C | U | G | C | A | g | U | G | A | g | G | 75 | 3 | 12 | c | false | <90% | 1275 | ||
| NM_173468 | MOBKL1A | 1581 | 1599 | c | A | U | G | U | U | A | A | C | U | G | C | A | C | U | G | u | a | G | 71 | 3 | 15 | ac | false | <90% | 6960 | ||
| NM_001001933 | LHX8 | 1627 | 1645 | G | A | U | G | U | U | A | A | C | U | G | C | g | C | U | G | c | a | u | 58 | 4 | 12 | false | <90% | 2393 | |||
| NM_020337 | ANKRD50 | 3078 | 3096 | G | A | U | G | U | U | A | A | C | U | G | C | A | a | a | G | A | U | G | 55 | 2 | 13 | c | false | <90% | 7763 | ||
| NM_020318 | PAPPA2 | 3595 | 3613 | G | A | U | G | a | U | A | A | C | U | G | C | A | C | U | G | A | c | a | 40 | 3 | 12 | c | false | <90% | 6940 | ||
| NM_024095 | ASB8 | 305 | 323 | G | A | U | G | U | g | A | A | C | U | G | C | A | C | U | c | A | U | G | 10 | 2 | 9 | c | false | <90% | 2629 | ||
| NM_005102 | FEZ2 | 1438 | 1456 | u | A | U | c | U | a | A | A | C | U | G | C | A | C | U | G | A | U | G | -2 | 3 | 13 | bc | false | <90% | 2043 | ||
| NM_001042548 | FEZ2 | 1519 | 1537 | u | A | U | c | U | a | A | A | C | U | G | C | A | C | U | G | A | U | G | -2 | 3 | 13 | bc | false | <90% | 2110 | ||
| NM_032557 | USP38 | 2934 | 2952 | G | A | U | G | U | U | g | A | C | U | u | C | A | C | U | G | A | U | c | -32 | 3 | 7 | c | false | <90% | 4684 | ||
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_001039891 | ZNF674 | 1280 | 1298 | C | c | U | C | A | G | U | G | C | A | G | U | g | A | A | C | A | U | g | 73 | 3 | 10 | false | <90% | 2689 | |||
| XM_209719 | LOC285679 | 27 | 45 | C | A | g | C | A | G | U | G | C | A | G | U | U | g | A | C | A | U | g | 55 | 3 | 10 | c | false | <90% | 1182 | ||
| XM_001130645 | LOC729569 | 27 | 45 | C | A | g | C | A | G | U | G | C | A | G | U | U | g | A | C | A | U | g | 55 | 3 | 10 | c | false | <90% | 1216 | ||
| NM_006380 | APPBP2 | 3035 | 3053 | a | A | U | C | A | a | U | G | C | A | G | U | U | A | A | C | A | a | g | 27 | 4 | 11 | c | false | <90% | 6468 | ||
| NM_052855 | ANKRD40 | 487 | 505 | u | g | c | C | A | G | U | c | C | A | G | U | U | A | A | C | A | U | C | 4 | 4 | 11 | bc | false | <90% | 2060 | ||
| NM_016817 | OAS2 | 1242 | 1260 | u | g | a | C | A | G | U | G | C | u | G | U | U | A | A | C | A | U | C | -15 | 4 | 9 | bc | false | <90% | 3539 | ||
| NM_002535 | OAS2 | 1242 | 1260 | u | g | a | C | A | G | U | G | C | u | G | U | U | A | A | C | A | U | C | -15 | 4 | 9 | bc | false | <90% | 3647 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1705
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