Automatic recommendation
Not OK - siRNA is not specific
54 hits were found for GGAAACACUGGCUUCAUUA (35 guide strand hits and 19 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 | |||||||||||||
XM_001132265 | DHRS8 | 874 | 892 | G | u | A | A | A | C | A | C | U | G | G | C | U | U | C | A | U | c | A | 85 | 2 | 15 | ac | false | <90% | 1870 | ||
NM_016245 | HSD17B11 | 894 | 912 | G | u | A | A | A | C | A | C | U | G | G | C | U | U | C | A | U | c | A | 85 | 2 | 15 | ac | false | <90% | 1892 | ||
NM_019856 | MYOM1 | 3932 | 3950 | c | G | A | A | A | C | A | C | U | G | G | C | a | U | C | A | U | c | g | 79 | 4 | 11 | false | <90% | 5560 | |||
NM_003803 | MYOM1 | 4220 | 4238 | c | G | A | A | A | C | A | C | U | G | G | C | a | U | C | A | U | c | g | 79 | 4 | 11 | false | <90% | 5848 | |||
NM_015994 | ATP6V1D | 949 | 967 | c | c | u | A | A | C | A | C | U | G | G | C | U | U | C | A | U | U | u | 62 | 4 | 15 | bc | false | <90% | 1675 | ||
NM_020449 | THOC2 | 412 | 430 | a | G | A | A | A | C | A | C | U | G | G | a | a | U | C | A | U | U | A | 53 | 3 | 10 | false | <90% | 5618 | |||
NM_001081550 | THOC2 | 419 | 437 | a | G | A | A | A | C | A | C | U | G | G | a | a | U | C | A | U | U | A | 53 | 3 | 10 | false | <90% | 5625 | |||
NM_004719 | SFRS2IP | 503 | 521 | a | G | A | g | A | C | A | C | U | G | G | C | U | U | C | A | U | g | u | 53 | 4 | 13 | c | false | <90% | 7596 | ||
XM_001130601 | LOC731738 | 1291 | 1309 | G | G | c | A | A | C | A | C | U | G | G | C | U | U | C | A | g | a | g | 49 | 4 | 13 | c | false | <90% | 1326 | ||
XM_209423 | LOC284964 | 52 | 70 | G | G | u | A | A | C | A | C | U | G | G | C | U | U | C | A | a | g | g | 49 | 4 | 13 | c | false | <90% | 1518 | ||
NR_002924 | DHX40P | 845 | 863 | a | a | A | A | A | C | A | C | U | G | G | a | U | U | C | A | U | U | g | 47 | 4 | 9 | false | <90% | 931 | |||
XM_942276 | DHX40 | 1817 | 1835 | a | a | A | A | A | C | A | C | U | G | G | a | U | U | C | A | U | U | g | 47 | 4 | 9 | false | <90% | 3058 | |||
NM_024612 | DHX40 | 1868 | 1886 | a | a | A | A | A | C | A | C | U | G | G | a | U | U | C | A | U | U | g | 47 | 4 | 9 | false | <90% | 3656 | |||
NM_000910 | NPY2R | 2722 | 2740 | a | a | A | A | A | C | A | C | U | G | G | a | U | U | C | A | U | U | u | 47 | 4 | 9 | false | <90% | 3747 | |||
NM_178169 | RASSF3 | 352 | 370 | a | u | u | u | A | C | A | C | U | G | G | C | U | U | C | A | U | U | A | 30 | 4 | 15 | bc | false | <90% | 1337 | ||
NM_001042599 | ERBB4 | 9582 | 9600 | u | G | A | A | A | C | A | C | U | G | a | C | U | U | C | A | U | c | u | 29 | 4 | 9 | c | false | <90% | 11893 | ||
NM_005235 | ERBB4 | 9630 | 9648 | u | G | A | A | A | C | A | C | U | G | a | C | U | U | C | A | U | c | u | 29 | 4 | 9 | c | false | <90% | 11941 | ||
NM_001682 | ATP2B1 | 6575 | 6593 | a | a | A | A | A | a | A | C | U | G | G | C | U | U | C | A | U | U | u | 18 | 4 | 12 | bc | false | <90% | 6796 | ||
NM_001001323 | ATP2B1 | 6729 | 6747 | a | a | A | A | A | a | A | C | U | G | G | C | U | U | C | A | U | U | u | 18 | 4 | 12 | bc | false | <90% | 6950 | ||
NM_001042729 | FGR | 579 | 597 | G | G | A | A | A | a | A | C | U | G | G | C | U | g | C | A | U | U | c | 12 | 3 | 7 | c | false | <90% | 2442 | ||
NM_005248 | FGR | 595 | 613 | G | G | A | A | A | a | A | C | U | G | G | C | U | g | C | A | U | U | c | 12 | 3 | 7 | c | false | <90% | 2458 | ||
NM_001042747 | FGR | 638 | 656 | G | G | A | A | A | a | A | C | U | G | G | C | U | g | C | A | U | U | c | 12 | 3 | 7 | c | false | <90% | 2501 | ||
NM_001024936 | WASF1 | 2681 | 2699 | a | G | A | A | A | C | A | C | U | G | c | C | U | U | g | A | U | U | A | 11 | 3 | 9 | c | false | <90% | 2987 | ||
NM_001024935 | WASF1 | 2779 | 2797 | a | G | A | A | A | C | A | C | U | G | c | C | U | U | g | A | U | U | A | 11 | 3 | 9 | c | false | <90% | 3085 | ||
NM_001024934 | WASF1 | 2826 | 2844 | a | G | A | A | A | C | A | C | U | G | c | C | U | U | g | A | U | U | A | 11 | 3 | 9 | c | false | <90% | 3132 | ||
NM_003931 | WASF1 | 2924 | 2942 | a | G | A | A | A | C | A | C | U | G | c | C | U | U | g | A | U | U | A | 11 | 3 | 9 | c | false | <90% | 3230 | ||
NM_183231 | IKZF3 | 1451 | 1469 | G | G | A | A | A | C | A | C | U | G | u | C | U | U | C | c | U | U | c | 7 | 3 | 10 | c | false | <90% | 2152 | ||
NM_183232 | IKZF3 | 1502 | 1520 | G | G | A | A | A | C | A | C | U | G | u | C | U | U | C | c | U | U | c | 7 | 3 | 10 | c | false | <90% | 2203 | ||
NM_183228 | IKZF3 | 1568 | 1586 | G | G | A | A | A | C | A | C | U | G | u | C | U | U | C | c | U | U | c | 7 | 3 | 10 | c | false | <90% | 2269 | ||
NM_183230 | IKZF3 | 1619 | 1637 | G | G | A | A | A | C | A | C | U | G | u | C | U | U | C | c | U | U | c | 7 | 3 | 10 | c | false | <90% | 2320 | ||
NM_183229 | IKZF3 | 1619 | 1637 | G | G | A | A | A | C | A | C | U | G | u | C | U | U | C | c | U | U | c | 7 | 3 | 10 | c | false | <90% | 2320 | ||
NM_012481 | IKZF3 | 1736 | 1754 | G | G | A | A | A | C | A | C | U | G | u | C | U | U | C | c | U | U | c | 7 | 3 | 10 | c | false | <90% | 2437 | ||
NM_014914 | CENTG2 | 3554 | 3572 | G | a | g | A | A | u | A | C | U | G | G | C | U | U | C | A | U | U | A | 5 | 3 | 13 | bc | false | <90% | 4371 | ||
NM_001037131 | CENTG2 | 3713 | 3731 | G | a | g | A | A | u | A | C | U | G | G | C | U | U | C | A | U | U | A | 5 | 3 | 13 | bc | false | <90% | 4530 | ||
NM_012281 | KCND2 | 4715 | 4733 | G | G | A | A | g | a | A | C | U | G | G | C | U | U | C | A | U | U | c | -19 | 3 | 12 | bc | false | <90% | 5333 |
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_001080540 | LOC389293 | 490 | 508 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | U | g | U | u | g | 64 | 4 | 14 | c | false | <90% | 1881 | ||
XM_371741 | LOC389293 | 583 | 601 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | U | g | U | u | g | 64 | 4 | 14 | c | false | <90% | 1974 | ||
XM_942792 | LOC642170 | 668 | 686 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | U | g | U | u | g | 64 | 4 | 14 | c | false | <90% | 2059 | ||
NM_015442 | CNOT10 | 2412 | 2430 | g | A | A | a | G | A | A | G | C | C | A | G | U | G | U | U | U | C | a | 56 | 3 | 14 | bc | false | <90% | 2741 | ||
NM_006267 | RANBP2 | 4982 | 5000 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | c | U | a | C | C | 49 | 3 | 13 | c | false | <90% | 10697 | ||
NM_006267 | RANBP2 | 5159 | 5177 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | c | U | a | C | C | 49 | 3 | 13 | c | false | <90% | 10697 | ||
NM_006267 | RANBP2 | 5336 | 5354 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | c | U | a | C | C | 49 | 3 | 13 | c | false | <90% | 10697 | ||
NM_152757 | FLJ30313 | 1727 | 1745 | U | c | u | U | G | A | A | G | C | C | A | G | U | a | U | U | U | C | C | 49 | 3 | 10 | c | false | <90% | 2585 | ||
NM_020121 | UGCGL2 | 1472 | 1490 | U | u | c | U | G | A | A | G | C | C | A | G | U | a | U | U | U | C | C | 49 | 3 | 10 | c | false | <90% | 4848 | ||
NM_014647 | KIAA0430 | 6880 | 6898 | a | A | A | U | G | A | A | G | C | C | A | G | U | G | a | c | U | C | C | 47 | 3 | 13 | c | false | <90% | 7745 | ||
NM_006100 | ST3GAL6 | 1997 | 2015 | c | A | A | U | G | A | A | G | g | C | A | G | U | G | U | U | U | g | u | 30 | 4 | 8 | c | false | <90% | 2107 | ||
XR_018327 | LOC648343 | 114 | 132 | a | A | g | U | G | c | A | G | C | C | A | G | U | G | U | U | U | C | C | 15 | 3 | 13 | bc | false | <90% | 1456 | ||
NM_014421 | DKK2 | 1673 | 1691 | c | A | g | U | G | c | A | G | C | C | A | G | U | G | U | U | U | C | C | 15 | 3 | 13 | bc | false | <90% | 3659 | ||
NM_000922 | PDE3B | 4108 | 4126 | a | A | A | U | G | A | A | u | C | C | A | G | U | G | U | U | g | C | C | 12 | 3 | 8 | c | false | <90% | 4784 | ||
NM_001369 | DNAH5 | 3255 | 3273 | U | A | A | U | G | A | A | G | a | C | A | G | U | G | a | U | U | C | u | 10 | 3 | 8 | c | false | <90% | 13971 | ||
NM_015271 | TRIM2 | 4335 | 4353 | a | A | A | U | G | A | A | G | a | C | A | c | U | G | U | U | U | C | C | 4 | 3 | 7 | false | <90% | 6734 | |||
NM_001282 | AP2B1 | 4236 | 4254 | a | g | g | U | G | u | A | G | C | C | A | G | U | G | U | U | U | C | C | 3 | 4 | 13 | bc | false | <90% | 5730 | ||
NM_001030006 | AP2B1 | 4278 | 4296 | a | g | g | U | G | u | A | G | C | C | A | G | U | G | U | U | U | C | C | 3 | 4 | 13 | bc | false | <90% | 5772 | ||
NM_018683 | ZNF313 | 1119 | 1137 | c | A | A | U | G | A | A | G | C | a | A | G | U | G | U | c | U | C | C | -10 | 3 | 8 | c | false | <90% | 2478 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 3226
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