Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
13 hits were found for AGGAUCCUCAACCACCCAC (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_006849 | PDIA2 | 872 | 890 | A | G | G | A | U | C | C | U | C | A | A | C | C | A | C | C | u | g | C | 73 | 2 | 16 | ac | false | <90% | 1726 | ||
| NM_003253 | TIAM1 | 4046 | 4064 | A | G | G | A | U | C | C | U | C | A | A | g | u | A | C | C | C | A | C | 55 | 2 | 11 | false | <90% | 7218 | |||
| NM_018396 | METTL2B | 565 | 583 | u | G | G | A | U | C | C | U | C | A | g | C | C | A | C | C | u | A | C | 13 | 3 | 9 | c | false | <90% | 2192 | ||
| NM_181725 | METTL2A | 526 | 544 | u | G | G | A | U | C | C | U | C | A | g | C | C | A | C | C | u | A | C | 13 | 3 | 9 | c | false | <90% | 2499 | ||
| NM_001005372 | METTL2A | 732 | 750 | u | G | G | A | U | C | C | U | C | A | g | C | C | A | C | C | u | A | C | 13 | 3 | 9 | c | false | <90% | 2705 | ||
| NM_058172 | ANTXR2 | 1588 | 1606 | A | G | G | A | U | C | C | U | C | c | A | C | C | A | C | C | a | c | C | -8 | 3 | 9 | c | false | <90% | 3881 | ||
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_130809 | PRRC1 | 1187 | 1205 | u | U | u | G | G | U | G | G | U | U | G | A | a | G | A | U | C | C | U | 68 | 3 | 9 | false | <90% | 4732 | |||
| NM_138384 | MTG1 | 1162 | 1180 | c | U | G | G | G | U | G | G | U | U | G | A | G | G | c | U | C | a | a | 65 | 4 | 13 | c | false | <90% | 1614 | ||
| NM_018356 | C5orf22 | 172 | 190 | G | U | G | G | G | U | G | G | U | g | G | A | G | G | A | U | C | a | U | 14 | 2 | 9 | c | false | <90% | 2719 | ||
| NM_052966 | FAM129A | 2871 | 2889 | G | U | G | G | G | U | G | G | U | g | G | A | G | G | A | U | g | C | U | -6 | 2 | 9 | c | false | <90% | 6926 | ||
| XR_016245 | LOC441066 | 657 | 675 | G | U | G | G | G | U | G | G | U | g | G | A | G | G | A | a | C | C | g | -13 | 3 | 9 | c | false | <90% | 695 | ||
| XM_001126539 | LOC728104 | 499 | 517 | G | U | G | G | G | U | G | G | U | g | G | A | G | G | A | a | C | C | g | -13 | 3 | 9 | c | false | <90% | 754 | ||
| NM_000300 | PLA2G2A | 420 | 438 | G | U | G | G | G | U | G | G | c | a | G | A | G | G | A | U | C | C | c | -47 | 3 | 8 | bc | false | <90% | 997 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1313
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