Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
40 hits were found for UGCUUGCUGCUGUCUACAG (25 guide strand hits and 15 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_000149 | FUT3 | 2409 | 2427 | a | a | a | U | U | G | C | U | G | C | U | G | U | C | U | A | C | A | a | 62 | 4 | 15 | bc | false | <90% | 2581 | ||
NM_015720 | PODXL2 | 744 | 762 | a | G | C | U | U | G | C | U | G | C | U | G | c | C | U | u | C | A | G | 61 | 3 | 11 | false | <90% | 2269 | |||
NM_001498 | GCLC | 3160 | 3178 | U | G | a | U | U | G | C | U | G | C | U | G | U | a | U | A | C | A | G | 60 | 2 | 10 | c | false | <90% | 3717 | ||
NM_183376 | ARRDC4 | 2359 | 2377 | g | a | g | U | U | G | C | U | G | C | U | G | U | u | U | A | C | A | G | 47 | 4 | 10 | c | false | <90% | 4071 | ||
NM_032168 | WDR75 | 2320 | 2338 | U | c | a | U | U | G | C | U | G | C | U | G | U | C | U | A | a | A | G | 45 | 3 | 13 | c | false | <90% | 2777 | ||
NM_032299 | DCUN1D5 | 163 | 181 | c | G | C | U | U | G | C | U | G | C | U | G | U | C | U | c | u | g | G | 45 | 4 | 14 | c | false | <90% | 1277 | ||
NM_184041 | ALDOA | 852 | 870 | U | G | C | U | g | G | C | U | G | C | U | G | U | C | U | A | C | A | a | 43 | 2 | 13 | bc | false | <90% | 1572 | ||
NM_184043 | ALDOA | 874 | 892 | U | G | C | U | g | G | C | U | G | C | U | G | U | C | U | A | C | A | a | 43 | 2 | 13 | bc | false | <90% | 1594 | ||
NM_000034 | ALDOA | 1633 | 1651 | U | G | C | U | g | G | C | U | G | C | U | G | U | C | U | A | C | A | a | 43 | 2 | 13 | bc | false | <90% | 2353 | ||
NM_012228 | MSRB2 | 762 | 780 | a | a | u | U | U | G | C | U | G | C | U | G | U | C | U | c | C | A | G | 40 | 4 | 12 | c | false | <90% | 1811 | ||
NM_000035 | ALDOB | 751 | 769 | U | c | C | U | g | G | C | U | G | C | U | G | U | C | U | A | C | A | a | 32 | 3 | 13 | bc | false | <90% | 1669 | ||
NM_182538 | SPNS3 | 321 | 339 | U | G | C | c | U | G | C | U | G | C | U | G | U | C | U | g | C | A | c | 32 | 3 | 11 | c | false | <90% | 1915 | ||
XM_939083 | TTC28 | 2396 | 2414 | a | c | C | U | g | G | C | U | G | C | U | G | U | C | U | A | C | A | u | 30 | 4 | 13 | bc | false | <90% | 11652 | ||
XM_929318 | TTC28 | 2396 | 2414 | a | c | C | U | g | G | C | U | G | C | U | G | U | C | U | A | C | A | u | 30 | 4 | 13 | bc | false | <90% | 11653 | ||
NR_003256 | ABCD4 | 717 | 735 | a | G | C | c | U | G | C | U | G | C | U | u | U | C | U | A | C | A | G | 27 | 3 | 7 | false | <90% | 3021 | |||
NM_005050 | ABCD4 | 845 | 863 | a | G | C | c | U | G | C | U | G | C | U | u | U | C | U | A | C | A | G | 27 | 3 | 7 | false | <90% | 3149 | |||
NM_032777 | GPR124 | 5451 | 5469 | U | G | C | U | g | G | C | U | G | C | U | G | U | u | U | A | C | A | c | 24 | 3 | 8 | c | false | <90% | 5680 | ||
XR_019303 | LOC391600 | 727 | 745 | U | G | C | U | g | G | C | U | G | C | U | G | U | C | U | A | u | g | G | 22 | 3 | 11 | c | false | <90% | 887 | ||
XR_017479 | LOC391600 | 727 | 745 | U | G | C | U | g | G | C | U | G | C | U | G | U | C | U | A | u | g | G | 22 | 3 | 11 | c | false | <90% | 887 | ||
XM_941132 | KIAA1549 | 5510 | 5528 | g | G | u | U | U | G | C | U | G | C | a | G | U | C | U | A | C | A | G | 17 | 3 | 8 | c | false | <90% | 6801 | ||
XM_379932 | KIAA1549 | 5510 | 5528 | g | G | u | U | U | G | C | U | G | C | a | G | U | C | U | A | C | A | G | 17 | 3 | 8 | c | false | <90% | 6801 | ||
XM_371956 | KIAA1549 | 5510 | 5528 | g | G | u | U | U | G | C | U | G | C | a | G | U | C | U | A | C | A | G | 17 | 3 | 8 | c | false | <90% | 6801 | ||
NM_018000 | MREG | 2472 | 2490 | a | G | C | U | U | G | C | U | u | C | U | c | U | C | U | A | C | A | G | 4 | 3 | 7 | false | <90% | 3213 | |||
NM_016018 | PHF20L1 | 2646 | 2664 | U | G | C | U | U | G | C | U | G | a | U | G | U | C | U | A | u | g | G | -8 | 3 | 9 | c | false | <90% | 6263 | ||
NM_014264 | PLK4 | 310 | 328 | c | a | u | U | U | G | C | U | G | g | U | G | U | C | U | A | C | A | G | -15 | 4 | 9 | bc | false | <90% | 3830 |
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_000059 | BRCA2 | 3754 | 3772 | a | g | G | U | A | G | A | C | A | G | C | A | G | C | A | A | G | C | A | 86 | 2 | 17 | abc | false | <90% | 11386 | ||
NM_018708 | FEM1A | 3523 | 3541 | g | c | G | U | A | G | A | C | A | G | C | A | G | C | A | A | a | C | A | 63 | 3 | 14 | ac | false | <90% | 3844 | ||
NM_018396 | METTL2B | 1803 | 1821 | C | U | G | U | A | G | A | C | A | G | C | A | u | C | A | A | a | a | u | 58 | 4 | 12 | false | <90% | 2192 | |||
NM_001938 | DR1 | 1113 | 1131 | a | g | c | U | A | G | A | C | A | G | C | A | a | C | A | A | G | C | A | 56 | 4 | 9 | false | <90% | 3222 | |||
NM_001013742 | DGKK | 2270 | 2288 | a | U | G | c | A | G | A | C | A | G | C | A | G | C | A | A | G | g | c | 53 | 4 | 13 | c | false | <90% | 3918 | ||
XR_015195 | LOC730584 | 706 | 724 | g | g | G | g | A | G | A | C | A | G | C | A | G | C | A | A | G | C | u | 44 | 4 | 14 | bc | false | <90% | 1279 | ||
XR_015573 | LOC729522 | 1060 | 1078 | g | g | G | g | A | G | A | C | A | G | C | A | G | C | A | A | G | C | u | 44 | 4 | 14 | bc | false | <90% | 1633 | ||
XR_016171 | LOC347097 | 1722 | 1740 | C | U | G | g | A | G | A | C | A | G | C | A | G | C | g | A | G | C | u | 33 | 3 | 10 | c | false | <90% | 2860 | ||
XR_018087 | LOC347097 | 1730 | 1748 | C | U | G | g | A | G | A | C | A | G | C | A | G | C | g | A | G | C | u | 33 | 3 | 10 | c | false | <90% | 2868 | ||
NM_015690 | STK36 | 2291 | 2309 | C | U | G | a | A | G | A | C | A | G | C | A | G | C | c | A | G | C | u | 33 | 3 | 10 | c | false | <90% | 4887 | ||
NM_001219 | CALU | 3076 | 3094 | g | c | a | a | A | G | A | C | A | G | C | A | G | C | A | A | G | C | A | 30 | 4 | 15 | bc | false | <90% | 3320 | ||
NM_020678 | LRTM1 | 234 | 252 | u | U | G | U | A | G | A | C | u | G | C | A | G | C | c | A | G | C | A | 13 | 3 | 7 | c | false | <90% | 1309 | ||
NM_020662 | MRS2L | 796 | 814 | C | U | G | U | A | G | A | C | A | G | a | A | G | C | A | A | a | C | u | 10 | 3 | 10 | c | false | <90% | 3348 | ||
NR_002188 | GBAP | 3359 | 3377 | u | U | G | U | A | G | A | C | A | u | C | A | c | C | A | A | G | C | A | 4 | 3 | 8 | false | <90% | 4649 | |||
NM_030917 | FIP1L1 | 1476 | 1494 | u | U | G | U | g | G | A | C | A | c | C | A | G | C | A | A | G | C | A | -36 | 3 | 9 | bc | false | <90% | 2154 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1886
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