Automatic recommendation
Not OK - siRNA is not specific
19 hits were found for UUGACGAUGGAGUAGAUUU (9 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_002350 | LYN | 335 | 353 | g | U | G | A | C | G | A | U | G | G | A | G | U | A | G | A | U | U | U | 98 | 1 | 18 | abc | false | <90% | 2298 | ||
| NM_012215 | MGEA5 | 2602 | 2620 | a | U | G | A | C | G | A | U | G | G | A | G | U | g | G | g | U | U | U | 52 | 3 | 12 | c | false | <90% | 5146 | ||
| NM_004774 | PPARBP | 2765 | 2783 | U | U | c | A | u | G | A | U | G | G | A | G | U | A | G | A | U | U | U | 28 | 2 | 14 | bc | false | <90% | 5809 | ||
| NM_031276 | TEX11 | 545 | 563 | U | U | G | A | C | c | A | U | G | G | A | G | a | A | G | A | U | U | a | 21 | 3 | 6 | false | <90% | 3029 | |||
| NM_001003811 | TEX11 | 667 | 685 | U | U | G | A | C | c | A | U | G | G | A | G | a | A | G | A | U | U | a | 21 | 3 | 6 | false | <90% | 3151 | |||
| NM_001735 | C5 | 1268 | 1286 | U | U | G | A | u | G | A | U | G | G | A | G | U | A | G | c | U | U | c | 17 | 3 | 10 | c | false | <90% | 5480 | ||
| XM_942001 | LOC652522 | 230 | 248 | U | U | G | A | a | G | A | U | G | G | A | G | U | A | G | A | a | g | a | 17 | 4 | 11 | c | false | <90% | 3321 | ||
| NM_000553 | WRN | 1909 | 1927 | U | U | G | A | a | G | A | U | G | G | A | G | U | A | G | A | a | g | a | 17 | 4 | 11 | c | false | <90% | 5745 | ||
| NM_015441 | OLFML2B | 1392 | 1410 | g | U | G | A | C | a | A | U | G | G | A | G | U | g | G | A | U | U | U | 15 | 3 | 7 | c | false | <90% | 3240 | ||
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_001637 | AOAH | 1446 | 1464 | A | A | c | U | C | U | A | C | U | C | C | A | a | C | G | U | C | A | u | 65 | 3 | 9 | false | <90% | 2254 | |||
| XM_379623 | FLJ41200 | 369 | 387 | g | g | A | U | C | U | A | C | U | C | C | A | U | C | a | U | C | A | u | 56 | 4 | 12 | c | false | <90% | 2317 | ||
| XM_943473 | FLJ41200 | 369 | 387 | g | g | A | U | C | U | A | C | U | C | C | A | U | C | a | U | C | A | u | 56 | 4 | 12 | c | false | <90% | 2317 | ||
| NM_001971 | ELA1 | 26 | 44 | u | g | g | U | C | U | A | C | U | C | C | A | U | C | G | g | C | A | A | 40 | 4 | 12 | c | false | <90% | 952 | ||
| NM_014550 | CARD10 | 2810 | 2828 | A | g | A | U | C | U | A | C | c | C | C | A | U | C | G | U | C | A | u | 23 | 3 | 9 | bc | false | <90% | 3912 | ||
| NM_014554 | SENP1 | 745 | 763 | A | A | u | U | C | U | A | C | c | C | C | A | U | C | G | U | C | A | A | 20 | 2 | 10 | bc | false | <90% | 4726 | ||
| NM_004947 | DOCK3 | 2671 | 2689 | g | c | A | U | C | U | u | C | U | C | C | A | U | C | G | U | C | A | A | 20 | 3 | 12 | bc | false | <90% | 8755 | ||
| NM_003042 | SLC6A1 | 789 | 807 | A | c | A | U | C | U | A | C | U | a | C | A | U | C | G | U | C | A | u | 0 | 3 | 8 | bc | false | <90% | 4493 | ||
| NM_000079 | CHRNA1 | 755 | 773 | c | c | c | U | C | U | A | C | U | u | C | A | U | C | G | U | C | A | A | -15 | 4 | 9 | bc | false | <90% | 1965 | ||
| NM_001039523 | CHRNA1 | 830 | 848 | c | c | c | U | C | U | A | C | U | u | C | A | U | C | G | U | C | A | A | -15 | 4 | 9 | bc | false | <90% | 2040 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 219
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