Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
13 hits were found for GGAUCCUCAACUCACUCUU (6 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 | |||||||||||||
| NM_079422 | MYL1 | 16 | 34 | c | a | g | c | C | C | U | C | A | A | C | U | C | A | C | U | C | U | U | 30 | 4 | 15 | bc | false | <90% | 862 | ||
| NM_182642 | CTDSP1 | 110 | 128 | G | c | A | U | C | C | U | C | c | A | C | U | C | A | C | U | C | U | U | 28 | 2 | 10 | bc | false | <90% | 783 | ||
| NM_021198 | CTDSP1 | 446 | 464 | G | c | A | U | C | C | U | C | c | A | C | U | C | A | C | U | C | U | U | 28 | 2 | 10 | bc | false | <90% | 2655 | ||
| NM_080669 | SLC46A1 | 1319 | 1337 | G | c | A | U | C | u | U | C | A | A | C | U | C | A | C | U | C | U | a | 20 | 3 | 12 | bc | false | <90% | 6505 | ||
| XM_941352 | LOC255275 | 1515 | 1533 | c | a | A | U | C | C | c | C | A | A | C | U | C | A | C | U | C | U | c | 15 | 4 | 11 | bc | false | <90% | 3042 | ||
| XM_171855 | LOC255275 | 1515 | 1533 | c | a | A | U | C | C | c | C | A | A | C | U | C | A | C | U | C | U | c | 15 | 4 | 11 | bc | false | <90% | 3042 | ||
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_015077 | SARM1 | 6507 | 6525 | u | A | G | A | G | U | G | A | G | U | U | G | A | a | G | A | U | g | C | 75 | 3 | 12 | c | false | <90% | 6862 | ||
| XM_001130643 | LOC729568 | 445 | 463 | A | A | G | A | G | U | G | A | G | U | U | G | A | u | G | A | a | C | g | 51 | 3 | 13 | c | false | <90% | 720 | ||
| XR_019433 | LOC651669 | 478 | 496 | A | A | G | A | G | U | G | A | G | U | U | G | A | u | G | A | a | C | g | 51 | 3 | 13 | c | false | <90% | 812 | ||
| XR_015550 | LOC729450 | 888 | 906 | A | A | G | A | G | U | G | A | G | U | U | G | A | u | G | A | a | C | g | 51 | 3 | 13 | c | false | <90% | 1222 | ||
| NM_001004478 | OR10Z1 | 582 | 600 | c | c | G | A | G | U | G | A | G | c | U | G | A | G | G | A | U | C | u | -1 | 4 | 8 | bc | false | <90% | 942 | ||
| XM_001128780 | LOC730991 | 1614 | 1632 | g | g | c | A | G | U | G | A | G | a | U | G | A | G | G | A | U | C | C | -15 | 4 | 9 | bc | false | <90% | 2213 | ||
| XM_001126745 | LOC728061 | 1615 | 1633 | g | g | c | A | G | U | G | A | G | a | U | G | A | G | G | A | U | C | C | -15 | 4 | 9 | bc | false | <90% | 2215 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1482
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