Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
15 hits were found for GGGGGGAAGACAUCUCAUC (7 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_001987 | ETV6 | 2000 | 2018 | u | a | G | G | G | G | A | A | G | A | C | A | U | C | U | g | A | U | g | 55 | 4 | 13 | c | false | <90% | 5992 | ||
| NM_133644 | GTPBP3 | 742 | 760 | G | G | G | a | G | G | A | A | G | A | C | A | c | C | U | C | A | U | a | 47 | 3 | 8 | false | <90% | 1960 | |||
| XM_001125688 | ZNF658 | 1007 | 1025 | u | a | u | G | G | G | A | A | G | A | C | A | U | C | a | C | A | U | C | 42 | 4 | 11 | c | false | <90% | 2887 | ||
| NM_001032297 | ZNF658B | 1007 | 1025 | u | a | u | G | G | G | A | A | G | A | C | A | U | C | a | C | A | U | C | 42 | 4 | 11 | c | false | <90% | 3375 | ||
| XR_017432 | LOC653501 | 1605 | 1623 | u | a | u | G | G | G | A | A | G | A | C | A | U | C | a | C | A | U | C | 42 | 4 | 11 | c | false | <90% | 3973 | ||
| NM_033160 | ZNF658 | 1598 | 1616 | u | a | u | G | G | G | A | A | G | A | C | A | U | C | a | C | A | U | C | 42 | 4 | 11 | c | false | <90% | 3982 | ||
| NM_005089 | ZRSR2 | 1252 | 1270 | a | G | G | G | G | G | A | A | G | A | a | A | U | C | U | C | A | c | a | 29 | 4 | 9 | c | false | <90% | 1512 | ||
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_032010 | MAP1B | 3368 | 3386 | G | A | U | G | A | G | A | U | G | U | C | U | a | C | C | C | C | u | C | 86 | 2 | 12 | false | <90% | 9161 | |||
| NM_005909 | MAP1B | 3623 | 3641 | G | A | U | G | A | G | A | U | G | U | C | U | a | C | C | C | C | u | C | 86 | 2 | 12 | false | <90% | 9416 | |||
| NM_005928 | MFGE8 | 198 | 216 | G | A | g | G | A | G | A | U | G | U | C | U | U | C | C | C | C | u | C | 77 | 2 | 14 | c | false | <90% | 1934 | ||
| NM_130830 | LRRC15 | 4125 | 4143 | c | A | a | G | A | G | A | U | G | U | C | a | U | C | C | C | C | C | C | 44 | 3 | 8 | false | <90% | 5938 | |||
| NM_014428 | TJP3 | 953 | 971 | G | A | U | G | A | G | A | U | G | U | C | c | U | C | u | C | C | C | C | 41 | 2 | 11 | false | <90% | 2859 | |||
| XM_940802 | SR140 | 3513 | 3531 | a | u | a | c | A | G | A | U | G | U | C | U | U | C | C | C | C | C | C | 30 | 4 | 15 | bc | false | <90% | 7464 | ||
| NM_001080415 | SR140 | 3513 | 3531 | a | u | a | c | A | G | A | U | G | U | C | U | U | C | C | C | C | C | C | 30 | 4 | 15 | bc | false | <90% | 7464 | ||
| NM_152519 | FLJ23861 | 1775 | 1793 | G | A | U | G | A | G | c | U | G | U | C | U | U | C | C | u | C | C | a | 2 | 3 | 8 | c | false | <90% | 5410 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1901
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