Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
12 hits were found for GCAUCAUAACCAUAUGGUA (4 guide strand hits and 8 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_018269 | ADI1 | 238 | 256 | a | C | A | U | C | A | U | A | A | C | C | A | U | A | U | G | c | a | A | 71 | 3 | 15 | ac | false | <90% | 1628 | ||
| NM_198395 | G3BP1 | 2684 | 2702 | a | a | A | U | C | A | U | A | g | C | C | A | U | A | U | G | G | U | A | 26 | 3 | 10 | bc | false | <90% | 2824 | ||
| NM_005754 | G3BP1 | 2715 | 2733 | a | a | A | U | C | A | U | A | g | C | C | A | U | A | U | G | G | U | A | 26 | 3 | 10 | bc | false | <90% | 2855 | ||
| NM_012214 | MGAT4A | 276 | 294 | u | C | A | U | C | A | U | A | A | a | C | A | U | A | U | G | G | a | c | 7 | 4 | 8 | c | false | <90% | 8382 | ||
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_173635 | FLJ40235 | 306 | 324 | a | A | C | C | A | U | A | U | G | G | U | U | c | U | G | A | U | G | u | 82 | 3 | 11 | false | <90% | 1706 | |||
| NM_138821 | PAM | 1435 | 1453 | U | c | u | g | A | U | A | U | G | G | U | U | A | U | G | A | U | G | C | 32 | 3 | 15 | bc | false | <90% | 3636 | ||
| NM_138822 | PAM | 1435 | 1453 | U | c | u | g | A | U | A | U | G | G | U | U | A | U | G | A | U | G | C | 32 | 3 | 15 | bc | false | <90% | 3699 | ||
| NM_138766 | PAM | 1435 | 1453 | U | c | u | g | A | U | A | U | G | G | U | U | A | U | G | A | U | G | C | 32 | 3 | 15 | bc | false | <90% | 3753 | ||
| NM_000919 | PAM | 1435 | 1453 | U | c | u | g | A | U | A | U | G | G | U | U | A | U | G | A | U | G | C | 32 | 3 | 15 | bc | false | <90% | 3960 | ||
| NM_012327 | PIGN | 839 | 857 | a | u | a | C | A | U | A | U | a | G | U | U | A | U | G | A | U | G | C | 6 | 4 | 10 | bc | false | <90% | 4816 | ||
| NM_176787 | PIGN | 916 | 934 | a | u | a | C | A | U | A | U | a | G | U | U | A | U | G | A | U | G | C | 6 | 4 | 10 | bc | false | <90% | 4893 | ||
| NM_175907 | ZADH2 | 3985 | 4003 | U | A | C | C | A | U | u | U | G | G | U | U | A | U | G | A | c | u | u | 2 | 4 | 9 | c | false | <90% | 4132 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1480
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