Automatic recommendation
Not OK - siRNA is not specific
61 hits were found for ACCUCAAAGAAAAACCAAA (34 guide strand hits and 27 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_000856 | GUCY1A3 | 697 | 715 | u | C | C | U | C | A | A | A | G | A | A | A | A | A | C | C | A | g | u | 90 | 3 | 16 | ac | false | <90% | 3012 | ||
NR_003506 | PLGLA1 | 14136 | 14154 | A | u | C | U | C | A | A | A | G | A | A | A | A | A | C | C | A | A | A | 88 | 1 | 17 | abc | false | <90% | 22167 | ||
XM_378517 | MGC15885 | 1163 | 1181 | c | u | C | U | C | A | A | A | G | A | A | A | c | A | C | C | A | A | A | 76 | 3 | 10 | false | <90% | 2698 | |||
XM_944564 | MGC15885 | 1163 | 1181 | c | u | C | U | C | A | A | A | G | A | A | A | c | A | C | C | A | A | A | 76 | 3 | 10 | false | <90% | 2698 | |||
NM_018682 | MLL5 | 1768 | 1786 | g | C | C | U | C | A | A | A | G | A | A | A | A | c | C | C | A | g | A | 75 | 3 | 12 | c | false | <90% | 6725 | ||
NM_182931 | MLL5 | 1916 | 1934 | g | C | C | U | C | A | A | A | G | A | A | A | A | c | C | C | A | g | A | 75 | 3 | 12 | c | false | <90% | 6873 | ||
NM_020357 | PCNP | 1213 | 1231 | u | C | u | U | C | A | A | A | G | A | A | A | A | A | C | C | A | u | u | 70 | 4 | 14 | c | false | <90% | 2250 | ||
NM_002334 | LRP4 | 6934 | 6952 | c | u | u | U | C | A | A | A | G | A | A | A | A | A | C | C | A | g | A | 64 | 4 | 14 | c | false | <90% | 8076 | ||
NM_016118 | NUB1 | 616 | 634 | A | a | C | U | C | A | A | A | G | A | A | A | A | A | C | a | A | A | u | 57 | 3 | 13 | c | false | <90% | 3112 | ||
NM_019600 | KIAA1370 | 2605 | 2623 | u | C | C | U | C | A | A | A | G | A | A | A | A | A | C | a | c | A | A | 48 | 3 | 14 | c | false | <90% | 3863 | ||
NM_001304 | CPD | 6251 | 6269 | u | C | C | U | g | A | A | A | G | A | A | A | A | A | C | C | A | A | A | 46 | 2 | 14 | bc | false | <90% | 8025 | ||
XR_016171 | LOC347097 | 2392 | 2410 | A | a | g | U | C | A | A | A | G | A | A | A | A | A | C | C | g | A | A | 45 | 3 | 13 | c | false | <90% | 2860 | ||
XR_018087 | LOC347097 | 2400 | 2418 | A | a | g | U | C | A | A | A | G | A | A | A | A | A | C | C | g | A | A | 45 | 3 | 13 | c | false | <90% | 2868 | ||
NM_001080976 | DSE | 2607 | 2625 | A | a | g | U | C | A | A | A | G | A | A | A | A | A | C | C | g | A | A | 45 | 3 | 13 | c | false | <90% | 4043 | ||
NM_013352 | DSE | 2641 | 2659 | A | a | g | U | C | A | A | A | G | A | A | A | A | A | C | C | g | A | A | 45 | 3 | 13 | c | false | <90% | 4077 | ||
NM_001001675 | ZNF818 | 2228 | 2246 | g | C | C | U | C | A | A | A | a | A | A | A | A | A | C | C | A | A | A | 37 | 2 | 10 | bc | false | <90% | 2376 | ||
NM_002740 | PRKCI | 2881 | 2899 | g | u | C | U | C | A | A | A | c | A | A | A | A | A | C | C | A | A | A | 26 | 3 | 10 | bc | false | <90% | 4884 | ||
NM_001083625 | ANKRD12 | 3184 | 3202 | c | C | C | U | u | A | A | A | G | A | A | A | A | A | a | C | A | A | A | 21 | 3 | 9 | c | false | <90% | 10459 | ||
NM_015208 | ANKRD12 | 3253 | 3271 | c | C | C | U | u | A | A | A | G | A | A | A | A | A | a | C | A | A | A | 21 | 3 | 9 | c | false | <90% | 10528 | ||
NM_007190 | SEC23IP | 2924 | 2942 | u | u | C | U | C | c | A | A | G | A | A | A | A | A | C | C | A | A | u | 18 | 4 | 12 | bc | false | <90% | 4243 | ||
XM_937669 | ZBTB34 | 3348 | 3366 | A | C | C | U | a | A | A | A | G | A | A | A | A | A | C | g | A | A | c | 17 | 3 | 10 | c | false | <90% | 6559 | ||
XM_928961 | ZBTB34 | 3875 | 3893 | A | C | C | U | a | A | A | A | G | A | A | A | A | A | C | g | A | A | c | 17 | 3 | 10 | c | false | <90% | 7086 | ||
NM_001010903 | DKFZp779B1540 | 1064 | 1082 | A | C | C | U | C | A | A | A | G | A | c | A | A | A | C | C | c | c | A | 12 | 3 | 10 | c | false | <90% | 3752 | ||
NM_057096 | CYP3A43 | 882 | 900 | g | C | C | U | C | A | A | A | G | A | u | A | A | A | C | a | A | A | A | 10 | 3 | 9 | c | false | <90% | 2001 | ||
NM_057095 | CYP3A43 | 882 | 900 | g | C | C | U | C | A | A | A | G | A | u | A | A | A | C | a | A | A | A | 10 | 3 | 9 | c | false | <90% | 2164 | ||
NM_022820 | CYP3A43 | 882 | 900 | g | C | C | U | C | A | A | A | G | A | u | A | A | A | C | a | A | A | A | 10 | 3 | 9 | c | false | <90% | 2167 | ||
XR_015789 | LOC146177 | 1904 | 1922 | u | C | C | c | g | A | A | A | G | A | A | A | A | A | C | C | A | A | A | 9 | 3 | 14 | bc | false | <90% | 4216 | ||
XR_015198 | LOC146177 | 1904 | 1922 | u | C | C | c | g | A | A | A | G | A | A | A | A | A | C | C | A | A | A | 9 | 3 | 14 | bc | false | <90% | 4216 | ||
NM_030962 | SBF2 | 5129 | 5147 | A | C | C | U | u | A | A | A | G | A | A | g | A | A | C | C | A | A | g | 9 | 3 | 6 | false | <90% | 7306 | |||
NM_001039703 | NBPF10 | 1550 | 1568 | g | C | C | a | C | A | u | A | G | A | A | A | A | A | C | C | A | A | A | -5 | 3 | 12 | bc | false | <90% | 2701 | ||
XM_001133092 | LOC728912 | 2499 | 2517 | g | C | C | a | C | A | u | A | G | A | A | A | A | A | C | C | A | A | A | -5 | 3 | 12 | bc | false | <90% | 2950 | ||
XM_001133097 | LOC728912 | 2499 | 2517 | g | C | C | a | C | A | u | A | G | A | A | A | A | A | C | C | A | A | A | -5 | 3 | 12 | bc | false | <90% | 3194 | ||
NM_183372 | NBPF11 | 1917 | 1935 | g | C | C | a | C | A | u | A | G | A | A | A | A | A | C | C | A | A | A | -5 | 3 | 12 | bc | false | <90% | 4902 | ||
NM_018451 | CENPJ | 1350 | 1368 | c | a | a | U | C | A | A | A | G | c | A | A | A | A | C | C | A | A | A | -15 | 4 | 9 | bc | false | <90% | 5187 |
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_152356 | ZNF491 | 1999 | 2017 | U | U | U | G | G | U | U | U | U | U | C | U | U | U | a | A | G | u | a | 67 | 3 | 14 | c | false | <90% | 2823 | ||
NM_015296 | DOCK9 | 2937 | 2955 | c | a | U | G | G | U | U | U | U | U | C | U | U | U | G | A | u | G | U | 63 | 3 | 14 | ac | false | <90% | 7522 | ||
NM_021809 | TGIF2 | 1766 | 1784 | U | U | U | G | G | U | U | U | U | U | C | U | U | U | u | A | a | u | U | 49 | 3 | 14 | c | false | <90% | 3406 | ||
NM_145013 | C11orf45 | 1747 | 1765 | U | U | U | G | G | U | U | U | U | U | C | U | U | U | G | c | a | G | a | 45 | 3 | 15 | c | false | <90% | 3648 | ||
NM_001009899 | KIAA2018 | 6596 | 6614 | U | U | U | G | G | U | U | U | U | U | C | U | U | U | u | A | u | u | c | 44 | 4 | 14 | c | false | <90% | 13708 | ||
XM_941693 | GPR178 | 1155 | 1173 | U | c | c | G | G | U | U | U | U | U | C | U | U | U | G | u | G | G | U | 42 | 3 | 12 | c | false | <90% | 5586 | ||
XM_376550 | GPR178 | 1155 | 1173 | U | c | c | G | G | U | U | U | U | U | C | U | U | U | G | u | G | G | U | 42 | 3 | 12 | c | false | <90% | 5590 | ||
NM_005822 | DSCR1L1 | 2619 | 2637 | U | U | U | G | G | U | U | U | U | U | C | a | U | U | G | A | u | G | a | 37 | 3 | 11 | false | <90% | 3318 | |||
NM_133642 | LARGE | 3388 | 3406 | U | U | U | u | G | U | U | U | U | U | C | U | U | U | G | g | G | G | g | 32 | 3 | 11 | c | false | <90% | 4131 | ||
NM_004737 | LARGE | 3451 | 3469 | U | U | U | u | G | U | U | U | U | U | C | U | U | U | G | g | G | G | g | 32 | 3 | 11 | c | false | <90% | 4194 | ||
NM_020642 | C11orf17 | 872 | 890 | g | U | U | G | G | U | U | U | U | U | u | U | U | U | G | A | G | a | c | 29 | 4 | 9 | c | false | <90% | 1308 | ||
NM_182901 | C11orf17 | 991 | 1009 | g | U | U | G | G | U | U | U | U | U | u | U | U | U | G | A | G | a | c | 29 | 4 | 9 | c | false | <90% | 1427 | ||
NM_024315 | C7orf23 | 740 | 758 | U | U | U | G | c | U | U | U | U | U | C | U | U | U | a | A | G | G | a | 18 | 3 | 9 | c | false | <90% | 1083 | ||
NM_001034845 | GALNT17 | 3873 | 3891 | U | U | U | G | G | U | U | U | U | U | g | U | U | U | G | A | a | G | U | 15 | 2 | 10 | c | false | <90% | 3937 | ||
NM_015288 | PHF15 | 5906 | 5924 | U | U | U | G | G | U | U | g | U | U | C | U | U | U | a | A | G | G | c | 8 | 3 | 7 | c | false | <90% | 6463 | ||
NM_021615 | CHST6 | 1536 | 1554 | c | U | U | G | G | U | U | U | U | c | C | U | U | U | G | A | G | u | c | 7 | 4 | 8 | c | false | <90% | 6885 | ||
NR_003255 | TSIX | 35106 | 35124 | U | U | U | G | G | U | U | U | U | U | g | U | U | U | G | A | u | u | g | 7 | 4 | 10 | c | false | <90% | 36861 | ||
NM_001040147 | SERPINB7 | 1818 | 1836 | U | U | U | G | G | U | c | U | U | U | C | U | U | U | G | A | u | a | a | 2 | 4 | 9 | c | false | <90% | 1973 | ||
NM_003784 | SERPINB7 | 2079 | 2097 | U | U | U | G | G | U | c | U | U | U | C | U | U | U | G | A | u | a | a | 2 | 4 | 9 | c | false | <90% | 2235 | ||
NM_021627 | SENP2 | 614 | 632 | U | U | U | G | G | U | U | U | U | a | C | U | U | U | G | A | a | c | U | -8 | 3 | 9 | c | false | <90% | 3207 | ||
NM_020964 | KIAA1632 | 9504 | 9522 | U | U | U | G | u | g | U | U | U | U | C | U | U | U | G | A | G | G | a | -19 | 3 | 12 | bc | false | <90% | 12715 | ||
NM_014309 | RBM9 | 3639 | 3657 | U | U | U | G | c | U | U | U | U | g | C | U | U | U | G | A | G | G | g | -39 | 3 | 8 | bc | false | <90% | 6948 | ||
NM_001082579 | RBM9 | 3645 | 3663 | U | U | U | G | c | U | U | U | U | g | C | U | U | U | G | A | G | G | g | -39 | 3 | 8 | bc | false | <90% | 6954 | ||
NM_001082577 | RBM9 | 3648 | 3666 | U | U | U | G | c | U | U | U | U | g | C | U | U | U | G | A | G | G | g | -39 | 3 | 8 | bc | false | <90% | 6957 | ||
NM_001082578 | RBM9 | 3648 | 3666 | U | U | U | G | c | U | U | U | U | g | C | U | U | U | G | A | G | G | g | -39 | 3 | 8 | bc | false | <90% | 6957 | ||
NM_001082576 | RBM9 | 3676 | 3694 | U | U | U | G | c | U | U | U | U | g | C | U | U | U | G | A | G | G | g | -39 | 3 | 8 | bc | false | <90% | 6985 | ||
NM_001031695 | RBM9 | 3688 | 3706 | U | U | U | G | c | U | U | U | U | g | C | U | U | U | G | A | G | G | g | -39 | 3 | 8 | bc | false | <90% | 6997 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1980
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