Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
19 hits were found for GGAUUUAUGCAUAGUAUAU (12 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_003201 | TFAM | 1485 | 1503 | a | G | A | U | U | U | A | U | G | C | A | U | A | u | U | A | U | u | U | 75 | 3 | 12 | c | false | <90% | 1936 | ||
| NM_207294 | MBNL1 | 2638 | 2656 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 5132 | ||
| NM_207295 | MBNL1 | 2674 | 2692 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 5168 | ||
| NM_207296 | MBNL1 | 2752 | 2770 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 5246 | ||
| NM_207297 | MBNL1 | 2783 | 2801 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 5277 | ||
| NM_207293 | MBNL1 | 2896 | 2914 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 5390 | ||
| NM_207292 | MBNL1 | 3895 | 3913 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 6368 | ||
| NM_021038 | MBNL1 | 3931 | 3949 | a | u | A | U | U | U | A | U | G | C | A | U | A | c | U | A | U | A | c | 62 | 4 | 11 | c | false | <90% | 6404 | ||
| NM_015057 | MYCBP2 | 11170 | 11188 | G | G | A | a | U | U | A | U | G | C | A | U | A | G | U | A | a | u | g | 32 | 4 | 12 | c | false | <90% | 14735 | ||
| NM_173830 | C6orf182 | 202 | 220 | G | a | A | U | U | a | A | U | G | C | A | U | A | G | U | A | U | A | g | 20 | 3 | 12 | bc | false | <90% | 2530 | ||
| NM_001083535 | C6orf182 | 587 | 605 | G | a | A | U | U | a | A | U | G | C | A | U | A | G | U | A | U | A | g | 20 | 3 | 12 | bc | false | <90% | 2915 | ||
| NM_173698 | RP1-32F7.2 | 1967 | 1985 | u | G | A | U | U | U | A | U | G | C | u | U | A | G | g | A | U | A | U | 11 | 3 | 9 | c | false | <90% | 3156 | ||
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 | |||||||||||||
| NR_003090 | MOBP | 1284 | 1302 | A | U | A | U | A | C | U | A | U | G | C | A | U | A | A | A | U | u | u | 92 | 2 | 17 | ac | false | <90% | 2689 | ||
| NM_004748 | CCPG1 | 3620 | 3638 | A | U | A | U | A | C | U | A | U | G | C | A | U | g | A | A | U | u | u | 72 | 3 | 13 | c | false | <90% | 6666 | ||
| NM_020739 | CCPG1 | 3652 | 3670 | A | U | A | U | A | C | U | A | U | G | C | A | U | g | A | A | U | u | u | 72 | 3 | 13 | c | false | <90% | 6698 | ||
| NM_025076 | UXS1 | 1761 | 1779 | u | U | A | U | A | C | U | A | U | G | C | A | U | A | A | A | g | a | a | 66 | 4 | 15 | ac | false | <90% | 2132 | ||
| NM_018657 | MYNN | 2706 | 2724 | A | U | A | a | A | C | U | A | U | G | C | A | U | A | A | A | a | a | u | 32 | 4 | 12 | c | false | <90% | 3178 | ||
| NM_013449 | BAZ2A | 7799 | 7817 | u | U | A | U | A | u | U | A | U | G | C | A | U | A | A | A | U | a | u | 27 | 4 | 11 | c | false | <90% | 8934 | ||
| NM_019024 | HEATR5B | 6756 | 6774 | A | U | A | U | A | C | U | A | U | G | a | A | U | A | A | A | a | u | C | 12 | 3 | 10 | c | false | <90% | 6792 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1969
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