Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
34 hits were found for GAGACAGUCAUCCUCAGGC (21 guide strand hits and 13 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_170712 | RASSF1 | 1594 | 1612 | G | u | G | A | C | A | G | U | C | A | U | C | a | U | C | A | G | G | g | 73 | 3 | 10 | false | <90% | 1674 | |||
NM_170713 | RASSF1 | 1690 | 1708 | G | u | G | A | C | A | G | U | C | A | U | C | a | U | C | A | G | G | g | 73 | 3 | 10 | false | <90% | 1770 | |||
NM_007182 | RASSF1 | 1886 | 1904 | G | u | G | A | C | A | G | U | C | A | U | C | a | U | C | A | G | G | g | 73 | 3 | 10 | false | <90% | 1968 | |||
NM_170714 | RASSF1 | 1898 | 1916 | G | u | G | A | C | A | G | U | C | A | U | C | a | U | C | A | G | G | g | 73 | 3 | 10 | false | <90% | 1979 | |||
NM_001001684 | FLJ45831 | 1670 | 1688 | a | A | u | A | C | A | G | U | C | A | U | C | C | U | C | A | G | u | a | 70 | 4 | 14 | c | false | <90% | 3007 | ||
NM_024895 | PDZD7 | 1377 | 1395 | c | c | c | A | C | A | G | U | C | A | U | C | C | U | C | A | G | G | g | 62 | 4 | 15 | bc | false | <90% | 2037 | ||
NM_014646 | LPIN2 | 116 | 134 | a | g | G | g | C | A | G | U | C | A | U | C | C | U | C | A | G | G | C | 49 | 3 | 15 | bc | false | <90% | 6245 | ||
NM_015056 | RRP1B | 1622 | 1640 | G | u | G | g | C | A | G | U | C | A | U | C | C | U | C | A | G | G | g | 46 | 3 | 14 | bc | false | <90% | 5087 | ||
NM_016190 | CRNN | 1397 | 1415 | G | A | G | A | C | A | G | U | g | A | U | C | C | U | C | A | G | G | C | 39 | 1 | 10 | bc | false | <90% | 1891 | ||
NM_003253 | TIAM1 | 4973 | 4991 | G | A | G | A | C | A | G | a | C | A | U | C | C | U | C | A | G | u | g | 30 | 3 | 9 | c | false | <90% | 7218 | ||
NM_003170 | SUPT6H | 53 | 71 | c | A | G | A | C | A | G | U | u | A | U | C | u | U | C | A | G | G | C | 27 | 3 | 7 | false | <90% | 5896 | |||
NM_004984 | KIF5A | 463 | 481 | u | g | G | A | C | A | G | a | C | A | U | C | C | U | C | A | G | G | g | 19 | 4 | 10 | bc | false | <90% | 3897 | ||
XR_015221 | FLJ41352 | 2389 | 2407 | a | A | c | A | C | g | G | U | C | A | U | C | C | U | C | A | G | G | C | 15 | 3 | 13 | bc | false | <90% | 3460 | ||
XR_015765 | FLJ41352 | 2771 | 2789 | a | A | c | A | C | g | G | U | C | A | U | C | C | U | C | A | G | G | C | 15 | 3 | 13 | bc | false | <90% | 3842 | ||
NM_002338 | LSAMP | 639 | 657 | G | A | c | A | C | A | G | c | C | A | U | C | C | U | C | A | G | G | u | 13 | 3 | 10 | bc | false | <90% | 1640 | ||
XR_016999 | LOC645348 | 3 | 21 | G | A | G | A | C | u | G | U | C | A | U | C | C | a | C | A | G | G | g | 12 | 3 | 7 | c | false | <90% | 1503 | ||
XR_018773 | LOC649017 | 3 | 21 | G | A | G | A | C | u | G | U | C | A | U | C | C | a | C | A | G | G | g | 12 | 3 | 7 | c | false | <90% | 1503 | ||
XR_016931 | LOC645486 | 286 | 304 | G | A | G | A | C | A | G | U | C | g | U | C | C | U | C | A | c | u | g | -13 | 4 | 9 | c | false | <90% | 1422 | ||
XR_018847 | LOC645486 | 286 | 304 | G | A | G | A | C | A | G | U | C | g | U | C | C | U | C | A | c | u | g | -13 | 4 | 9 | c | false | <90% | 1422 | ||
NM_019077 | UGT1A7 | 136 | 154 | G | A | G | A | a | A | c | U | C | A | U | C | C | U | C | A | G | G | g | -22 | 3 | 11 | bc | false | <90% | 2333 | ||
NM_002023 | FMOD | 1985 | 2003 | G | A | G | A | C | A | G | c | C | A | a | C | C | U | C | A | G | G | C | -23 | 2 | 8 | c | false | <90% | 3005 |
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_936226 | LOC653879 | 542 | 560 | c | u | C | U | G | A | G | G | A | U | G | A | C | U | G | U | C | U | a | 81 | 3 | 16 | abc | false | <90% | 1173 | ||
NM_000064 | C3 | 4423 | 4441 | c | u | C | U | G | A | G | G | A | U | G | A | C | U | G | U | C | U | a | 81 | 3 | 16 | abc | false | <90% | 5101 | ||
NM_001148 | ANK2 | 7565 | 7583 | u | g | C | U | G | A | G | G | A | U | G | A | C | a | G | U | C | U | u | 62 | 4 | 11 | c | false | <90% | 14166 | ||
NM_000212 | ITGB3 | 2076 | 2094 | G | a | a | U | G | A | G | G | A | U | G | A | C | U | G | U | g | U | C | 45 | 3 | 13 | c | false | <90% | 4894 | ||
XM_938097 | DKFZP686C2281 | 850 | 868 | c | C | C | c | G | A | G | G | A | U | G | A | C | U | G | U | u | U | C | 37 | 3 | 12 | c | false | <90% | 3930 | ||
XM_927469 | DKFZP686C2281 | 850 | 868 | c | C | C | c | G | A | G | G | A | U | G | A | C | U | G | U | u | U | C | 37 | 3 | 12 | c | false | <90% | 3930 | ||
NM_001506 | GPR32 | 193 | 211 | u | g | C | U | G | u | G | G | A | U | G | A | C | U | G | U | C | U | u | 18 | 4 | 12 | bc | false | <90% | 1071 | ||
NM_001001732 | C10orf130 | 181 | 199 | a | C | a | U | G | A | G | G | A | U | c | A | C | U | G | U | C | U | C | 17 | 3 | 8 | c | false | <90% | 1890 | ||
XR_016586 | LOC644588 | 984 | 1002 | G | C | C | U | G | A | G | a | A | U | G | A | C | U | u | U | C | U | C | 13 | 2 | 7 | c | false | <90% | 1193 | ||
XR_018209 | LOC647907 | 984 | 1002 | G | C | C | U | G | A | G | a | A | U | G | A | C | U | u | U | C | U | C | 13 | 2 | 7 | c | false | <90% | 1193 | ||
NM_176782 | C1orf179 | 1132 | 1150 | G | C | C | U | G | g | G | G | A | U | G | A | C | g | G | U | C | U | g | 12 | 3 | 7 | c | false | <90% | 2004 | ||
NM_031476 | CRISPLD2 | 741 | 759 | G | C | C | g | G | A | a | G | A | U | G | A | C | U | G | U | C | U | g | -8 | 3 | 11 | bc | false | <90% | 4572 | ||
XM_001128887 | LOC731228 | 136 | 154 | c | C | C | U | G | g | G | u | A | U | G | A | C | U | G | U | C | U | C | -27 | 3 | 11 | bc | false | <90% | 720 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 3253
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