Automatic recommendation
Not OK - siRNA is not specific
26 hits were found for GGAACAGAAGAGCGAACAU (19 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_181985 | LILRA5 | 941 | 959 | u | G | A | A | C | A | G | A | A | G | A | G | a | G | A | A | C | A | a | 82 | 3 | 11 | false | <90% | 1104 | |||
| NM_021250 | LILRA5 | 1018 | 1036 | u | G | A | A | C | A | G | A | A | G | A | G | a | G | A | A | C | A | a | 82 | 3 | 11 | false | <90% | 1365 | |||
| NM_021976 | RXRB | 1112 | 1130 | G | G | A | A | C | A | G | A | A | G | A | G | u | G | A | c | C | A | g | 58 | 3 | 12 | false | <90% | 2892 | |||
| NM_014668 | GREB1 | 7094 | 7112 | G | G | A | A | C | A | G | A | A | G | A | G | a | G | A | A | g | g | a | 58 | 4 | 12 | false | <90% | 8482 | |||
| NM_006020 | ALKBH1 | 2096 | 2114 | c | u | c | A | C | A | G | A | A | G | A | G | a | G | A | A | C | A | U | 56 | 4 | 9 | false | <90% | 2585 | |||
| NM_173828 | C5orf16 | 920 | 938 | G | G | g | A | C | A | G | A | A | G | c | G | C | G | A | A | C | A | a | 14 | 3 | 7 | c | false | <90% | 2535 | ||
| NM_001759 | CCND2 | 473 | 491 | G | G | A | A | C | A | G | A | A | G | u | G | C | G | A | A | g | A | a | 10 | 3 | 10 | c | false | <90% | 6480 | ||
| NM_014512 | KIR2DS1 | 864 | 882 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1101 | |||
| NM_012313 | KIR2DS3 | 862 | 880 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1113 | |||
| NM_014511 | KIR2DL3 | 594 | 612 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1302 | |||
| NM_012312 | KIR2DS2 | 870 | 888 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1559 | |||
| NM_012314 | KIR2DS4 | 897 | 915 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1586 | |||
| NM_015868 | KIR2DL3 | 888 | 906 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1596 | |||
| NM_014513 | KIR2DS5 | 885 | 903 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1602 | |||
| NM_153443 | KIR3DL3 | 1103 | 1121 | G | G | A | A | C | A | G | A | A | c | A | G | u | G | A | A | C | A | g | 1 | 3 | 9 | false | <90% | 1691 | |||
| NM_013289 | KIR3DL1 | 1199 | 1217 | G | G | A | A | C | A | G | A | A | c | A | G | C | c | A | A | C | A | g | -7 | 3 | 9 | c | false | <90% | 1986 | ||
| XM_376795 | FLJ45872 | 702 | 720 | G | G | A | A | C | A | G | A | A | a | A | G | C | a | A | A | C | A | c | -7 | 3 | 9 | c | false | <90% | 4146 | ||
| XM_940037 | FLJ45872 | 705 | 723 | G | G | A | A | C | A | G | A | A | a | A | G | C | a | A | A | C | A | c | -7 | 3 | 9 | c | false | <90% | 4149 | ||
| NM_014219 | KIR2DL2 | 877 | 895 | G | G | A | A | C | A | G | A | A | c | A | G | C | G | A | A | u | A | g | -11 | 3 | 9 | c | false | <90% | 1587 | ||
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 | |||||||||||||
| XM_942048 | ELTD1 | 2286 | 2304 | g | c | c | c | U | C | G | C | U | C | U | U | C | U | G | U | U | C | C | 30 | 4 | 15 | bc | false | <90% | 2550 | ||
| XM_371262 | ELTD1 | 2286 | 2304 | g | c | c | c | U | C | G | C | U | C | U | U | C | U | G | U | U | C | C | 30 | 4 | 15 | bc | false | <90% | 2550 | ||
| NM_130848 | C5orf20 | 1725 | 1743 | u | U | G | U | U | g | G | C | U | C | U | U | g | U | G | U | U | C | C | 24 | 3 | 6 | false | <90% | 3144 | |||
| NM_012120 | CD2AP | 4057 | 4075 | u | U | G | U | U | C | c | C | U | C | U | U | C | U | G | U | U | a | a | 24 | 4 | 10 | c | false | <90% | 5425 | ||
| NM_153815 | RASGRF1 | 435 | 453 | c | c | G | U | U | C | c | C | U | C | U | U | C | U | G | U | U | C | C | 20 | 3 | 12 | bc | false | <90% | 2843 | ||
| NM_001081491 | NXF1 | 1333 | 1351 | A | U | G | U | U | C | u | C | U | C | U | U | C | U | c | U | U | C | u | 4 | 3 | 7 | c | false | <90% | 4147 | ||
| NM_173857 | VN1R4 | 377 | 395 | A | U | G | U | U | g | G | C | U | u | U | U | C | U | G | U | U | C | u | -51 | 3 | 8 | bc | false | <90% | 906 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2166
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