Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
48 hits were found for ACUCCAAGCUGCUGAAAUU (29 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 | |||||||||||||
NM_031955 | SPATA16 | 579 | 597 | A | u | g | C | C | A | A | G | C | U | G | C | U | G | A | A | A | U | a | 64 | 3 | 15 | bc | false | <90% | 2066 | ||
XM_941911 | LOC652460 | 2201 | 2219 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 3771 | ||
NM_201378 | PLEC1 | 1760 | 1778 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14626 | ||
NM_201381 | PLEC1 | 1780 | 1798 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14646 | ||
NM_201382 | PLEC1 | 1809 | 1827 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14675 | ||
NM_201383 | PLEC1 | 1823 | 1841 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14689 | ||
NM_201379 | PLEC1 | 1885 | 1903 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14751 | ||
NM_000445 | PLEC1 | 1889 | 1907 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14755 | ||
NM_201384 | PLEC1 | 1931 | 1949 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 14797 | ||
NM_201380 | PLEC1 | 2383 | 2401 | A | C | g | C | C | A | A | G | C | U | G | C | U | G | A | A | c | U | c | 51 | 3 | 13 | c | false | <90% | 15249 | ||
NM_013302 | EEF2K | 1501 | 1519 | A | C | a | C | C | A | A | G | C | U | G | C | U | G | c | A | A | U | c | 50 | 3 | 11 | c | false | <90% | 7412 | ||
NM_182639 | HPS1 | 896 | 914 | A | C | U | C | C | A | A | G | C | U | G | C | U | G | g | c | A | U | U | 49 | 2 | 14 | c | false | <90% | 1625 | ||
NM_000195 | HPS1 | 887 | 905 | A | C | U | C | C | A | A | G | C | U | G | C | U | G | g | c | A | U | U | 49 | 2 | 14 | c | false | <90% | 3714 | ||
NM_198889 | ANKRD17 | 3897 | 3915 | A | C | U | C | C | A | A | G | C | U | G | C | U | c | A | A | g | a | a | 49 | 4 | 13 | c | false | <90% | 8637 | ||
NM_032217 | ANKRD17 | 4650 | 4668 | A | C | U | C | C | A | A | G | C | U | G | C | U | c | A | A | g | a | a | 49 | 4 | 13 | c | false | <90% | 9390 | ||
XM_940960 | LOC651744 | 586 | 604 | A | C | U | C | C | A | A | G | C | U | G | C | U | G | A | g | c | a | c | 42 | 4 | 15 | c | false | <90% | 1496 | ||
XM_928125 | LOC645086 | 586 | 604 | A | C | U | C | C | A | A | G | C | U | G | C | U | G | A | g | c | a | c | 42 | 4 | 15 | c | false | <90% | 1496 | ||
NM_014267 | C11orf58 | 582 | 600 | A | C | U | C | C | A | A | G | C | U | G | C | U | G | A | g | c | a | c | 42 | 4 | 15 | c | false | <90% | 1636 | ||
NM_152755 | MGC40499 | 667 | 685 | g | C | U | C | C | c | A | G | C | U | G | C | U | G | A | A | A | c | U | 32 | 3 | 11 | c | false | <90% | 1547 | ||
NM_004417 | DUSP1 | 1338 | 1356 | u | C | U | C | C | c | A | G | C | U | G | C | U | G | A | A | A | g | g | 27 | 4 | 11 | c | false | <90% | 2015 | ||
NM_018083 | ZNF358 | 826 | 844 | g | C | U | C | C | A | c | G | C | U | G | C | U | G | A | A | A | c | a | 24 | 4 | 10 | c | false | <90% | 2003 | ||
NM_178221 | ATG4C | 1364 | 1382 | u | C | a | C | C | A | A | G | a | U | G | C | U | G | A | A | A | U | U | 18 | 3 | 10 | bc | false | <90% | 1774 | ||
NM_032852 | ATG4C | 1412 | 1430 | u | C | a | C | C | A | A | G | a | U | G | C | U | G | A | A | A | U | U | 18 | 3 | 10 | bc | false | <90% | 1822 | ||
XM_937241 | LOC389137 | 834 | 852 | u | C | U | C | C | c | A | G | C | U | G | C | U | G | A | A | u | U | U | 11 | 3 | 10 | c | false | <90% | 1016 | ||
XM_371655 | LOC389137 | 927 | 945 | u | C | U | C | C | c | A | G | C | U | G | C | U | G | A | A | u | U | U | 11 | 3 | 10 | c | false | <90% | 2069 | ||
NM_147185 | AKAP9 | 8697 | 8715 | A | C | U | a | C | A | u | G | C | U | G | C | U | G | A | A | A | U | U | -3 | 2 | 12 | bc | false | <90% | 12450 | ||
NM_005751 | AKAP9 | 8721 | 8739 | A | C | U | a | C | A | u | G | C | U | G | C | U | G | A | A | A | U | U | -3 | 2 | 12 | bc | false | <90% | 12462 | ||
NM_147171 | AKAP9 | 8757 | 8775 | A | C | U | a | C | A | u | G | C | U | G | C | U | G | A | A | A | U | U | -3 | 2 | 12 | bc | false | <90% | 12474 | ||
NM_201397 | GPX1 | 463 | 481 | g | C | U | C | g | u | A | G | C | U | G | C | U | G | A | A | A | U | U | -16 | 3 | 13 | bc | false | <90% | 1200 |
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_013994 | DDR1 | 1222 | 1240 | A | A | c | U | U | C | A | G | C | A | G | C | U | U | G | G | A | G | c | 75 | 2 | 15 | bc | false | <90% | 3678 | ||
NM_001954 | DDR1 | 1513 | 1531 | A | A | c | U | U | C | A | G | C | A | G | C | U | U | G | G | A | G | c | 75 | 2 | 15 | bc | false | <90% | 3840 | ||
NM_013993 | DDR1 | 1439 | 1457 | A | A | c | U | U | C | A | G | C | A | G | C | U | U | G | G | A | G | c | 75 | 2 | 15 | bc | false | <90% | 3877 | ||
NM_033127 | LZTR2 | 850 | 868 | A | g | c | U | U | C | A | G | C | A | G | C | U | U | G | G | A | G | U | 69 | 2 | 16 | bc | false | <90% | 4024 | ||
NM_015011 | MYO16 | 2086 | 2104 | g | g | c | U | U | C | A | G | C | A | G | C | U | U | G | G | A | G | g | 62 | 4 | 15 | bc | false | <90% | 6874 | ||
XM_942776 | SYNPO2 | 3467 | 3485 | g | g | U | U | U | C | A | G | C | A | G | C | U | c | G | G | A | G | g | 62 | 4 | 11 | c | false | <90% | 6839 | ||
XM_936336 | SYNPO2 | 3678 | 3696 | g | g | U | U | U | C | A | G | C | A | G | C | U | c | G | G | A | G | g | 62 | 4 | 11 | c | false | <90% | 7050 | ||
NM_133477 | SYNPO2 | 3678 | 3696 | g | g | U | U | U | C | A | G | C | A | G | C | U | c | G | G | A | G | g | 62 | 4 | 11 | c | false | <90% | 7318 | ||
NM_020338 | ZMIZ1 | 2202 | 2220 | A | A | U | U | U | C | A | G | C | A | G | C | g | U | G | G | c | u | g | 58 | 4 | 12 | false | <90% | 7041 | |||
NM_003902 | FUBP1 | 1683 | 1701 | A | A | a | U | U | C | A | G | C | A | G | C | U | U | G | G | g | c | U | 54 | 3 | 13 | c | false | <90% | 2884 | ||
NM_170706 | NMNAT2 | 3347 | 3365 | g | A | U | c | U | C | A | G | C | A | G | C | U | U | G | G | A | a | g | 53 | 4 | 13 | c | false | <90% | 5465 | ||
NM_015039 | NMNAT2 | 3562 | 3580 | g | A | U | c | U | C | A | G | C | A | G | C | U | U | G | G | A | a | g | 53 | 4 | 13 | c | false | <90% | 5680 | ||
NM_004488 | GP5 | 1184 | 1202 | A | A | U | c | U | C | A | G | C | A | G | C | c | U | G | G | A | G | a | 47 | 3 | 8 | false | <90% | 3493 | |||
NM_017699 | SIDT1 | 2941 | 2959 | A | A | U | c | U | C | A | G | C | A | G | C | U | g | G | G | A | G | g | 38 | 3 | 9 | c | false | <90% | 5021 | ||
NM_018351 | FGD6 | 2559 | 2577 | A | A | U | U | c | C | A | G | C | A | G | C | a | U | G | G | A | G | g | 33 | 3 | 7 | false | <90% | 4996 | |||
NM_174975 | SEC14L3 | 1778 | 1796 | g | A | U | U | U | C | A | G | C | A | c | C | U | U | G | G | A | c | a | 29 | 4 | 9 | c | false | <90% | 2064 | ||
NM_000477 | ALB | 1294 | 1312 | u | u | U | U | U | g | A | G | C | A | G | C | U | U | G | G | A | G | a | 18 | 4 | 12 | bc | false | <90% | 2215 | ||
NM_020859 | SHROOM3 | 775 | 793 | u | g | g | U | U | C | A | G | C | A | u | C | U | U | G | G | A | G | U | 5 | 4 | 8 | c | false | <90% | 11020 | ||
NM_175056 | ZPLD1 | 437 | 455 | A | A | U | c | U | C | A | G | C | A | c | C | U | U | G | G | A | G | g | -3 | 3 | 7 | c | false | <90% | 3639 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1689
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