Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
42 hits were found for CUCCAAGCUGUGCCUUGGG (26 guide strand hits and 16 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_152418 | WDR21C | 552 | 570 | C | U | C | C | A | A | G | C | U | G | U | G | C | C | g | U | G | c | u | 67 | 3 | 14 | c | false | <90% | 3320 | ||
NM_012092 | ICOS | 2439 | 2457 | g | U | C | C | A | A | G | C | U | G | U | G | C | C | U | c | G | a | c | 64 | 4 | 14 | c | false | <90% | 2620 | ||
NM_139246 | C9orf97 | 2501 | 2519 | C | U | g | C | A | A | G | C | U | G | U | G | C | a | U | U | G | G | G | 60 | 2 | 10 | c | false | <90% | 4445 | ||
NM_144683 | DHRS13 | 1373 | 1391 | C | c | C | C | A | A | G | C | U | G | U | G | C | C | c | U | G | G | a | 58 | 3 | 12 | c | false | <90% | 1955 | ||
NM_003023 | SH3BP2 | 2210 | 2228 | g | a | C | C | A | A | G | C | U | G | U | G | C | C | U | g | G | G | c | 55 | 4 | 13 | c | false | <90% | 7299 | ||
NM_001015054 | MPG | 722 | 740 | C | U | C | C | A | A | G | C | U | G | U | G | C | C | a | g | G | c | c | 41 | 4 | 14 | c | false | <90% | 1055 | ||
NM_001015052 | MPG | 779 | 797 | C | U | C | C | A | A | G | C | U | G | U | G | C | C | a | g | G | c | c | 41 | 4 | 14 | c | false | <90% | 1112 | ||
NM_002434 | MPG | 972 | 990 | C | U | C | C | A | A | G | C | U | G | U | G | C | C | a | g | G | c | c | 41 | 4 | 14 | c | false | <90% | 1305 | ||
NM_148920 | PIGQ | 1723 | 1741 | C | c | g | C | A | A | G | C | U | G | U | u | C | C | U | U | G | G | G | 35 | 3 | 8 | false | <90% | 2878 | |||
NM_004204 | PIGQ | 1785 | 1803 | C | c | g | C | A | A | G | C | U | G | U | u | C | C | U | U | G | G | G | 35 | 3 | 8 | false | <90% | 2921 | |||
XM_001134414 | C1orf133 | 936 | 954 | C | g | C | C | c | A | G | C | U | G | U | G | C | C | U | U | G | G | c | 32 | 3 | 13 | bc | false | <90% | 2702 | ||
XM_001134416 | C1orf133 | 936 | 954 | C | g | C | C | c | A | G | C | U | G | U | G | C | C | U | U | G | G | c | 32 | 3 | 13 | bc | false | <90% | 2702 | ||
XM_001131633 | LOC732024 | 105 | 123 | u | U | C | C | c | A | G | C | U | G | U | G | C | C | U | U | c | G | G | 23 | 3 | 11 | c | false | <90% | 1104 | ||
NM_153002 | GPR156 | 372 | 390 | g | U | C | C | A | u | G | C | U | G | U | G | C | a | U | U | G | G | G | 15 | 3 | 7 | c | false | <90% | 2445 | ||
XM_927974 | LOC145814 | 233 | 251 | C | U | C | C | A | A | G | C | U | G | g | G | C | C | U | g | G | G | G | 12 | 2 | 10 | c | false | <90% | 995 | ||
XM_941169 | LOC145814 | 233 | 251 | C | U | C | C | A | A | G | C | U | G | g | G | C | C | U | g | G | G | G | 12 | 2 | 10 | c | false | <90% | 995 | ||
XM_001126273 | LOC727773 | 2402 | 2420 | C | U | C | C | A | A | G | C | g | G | U | G | C | C | U | U | c | c | u | 8 | 4 | 8 | c | false | <90% | 5198 | ||
NM_032329 | ING5 | 2402 | 2420 | C | U | C | C | A | A | G | C | g | G | U | G | C | C | U | U | c | c | u | 8 | 4 | 8 | c | false | <90% | 5233 | ||
XM_941026 | ING5 | 2653 | 2671 | C | U | C | C | A | A | G | C | g | G | U | G | C | C | U | U | c | c | u | 8 | 4 | 8 | c | false | <90% | 5449 | ||
NM_173850 | SERPINA12 | 1045 | 1063 | C | U | C | C | A | u | G | C | U | G | U | G | C | C | U | g | G | G | u | 5 | 3 | 9 | c | false | <90% | 2087 | ||
NM_003966 | SEMA5A | 5146 | 5164 | u | U | C | C | A | A | G | a | U | G | U | a | C | C | U | U | G | G | G | 2 | 3 | 7 | false | <90% | 8056 | |||
XR_017955 | LOC221442 | 502 | 520 | C | a | C | C | A | A | G | C | U | c | U | G | C | C | U | U | G | G | u | 0 | 3 | 8 | bc | false | <90% | 3037 | ||
XR_017852 | LOC221442 | 502 | 520 | C | a | C | C | A | A | G | C | U | c | U | G | C | C | U | U | G | G | u | 0 | 3 | 8 | bc | false | <90% | 3037 | ||
NM_021258 | IL22RA1 | 2562 | 2580 | u | U | g | C | A | A | G | C | U | c | U | G | C | C | U | U | G | G | G | -4 | 3 | 9 | bc | false | <90% | 2811 | ||
NM_201441 | TEAD4 | 261 | 279 | C | U | C | C | A | A | G | C | g | G | a | G | C | C | U | U | G | G | a | -26 | 3 | 8 | c | false | <90% | 1651 | ||
NM_003213 | TEAD4 | 261 | 279 | C | U | C | C | A | A | G | C | g | G | a | G | C | C | U | U | G | G | a | -26 | 3 | 8 | c | false | <90% | 1780 |
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 | |||||||||||||
NR_003110 | CCT6AP1 | 1141 | 1159 | g | g | C | A | A | G | G | C | A | C | A | G | C | U | U | G | G | A | G | 86 | 2 | 17 | abc | false | <90% | 1783 | ||
NM_019079 | L1TD1 | 63 | 81 | a | C | C | A | A | G | G | C | A | C | A | G | C | U | U | a | G | A | G | 71 | 2 | 14 | c | false | <90% | 3095 | ||
NM_003737 | DCHS1 | 381 | 399 | C | C | C | A | A | G | G | C | A | C | A | G | C | U | g | G | a | c | u | 44 | 4 | 14 | c | false | <90% | 10759 | ||
XR_019061 | LOC651806 | 1294 | 1312 | g | g | C | A | g | G | G | C | A | C | A | G | C | U | U | G | G | A | G | 35 | 3 | 14 | bc | false | <90% | 1596 | ||
XR_016472 | LOC391739 | 1294 | 1312 | g | g | C | A | g | G | G | C | A | C | A | G | C | U | U | G | G | A | G | 35 | 3 | 14 | bc | false | <90% | 1596 | ||
NM_001009186 | CCT6A | 1323 | 1341 | g | g | C | A | g | G | G | C | A | C | A | G | C | U | U | G | G | A | G | 35 | 3 | 14 | bc | false | <90% | 2547 | ||
NM_001762 | CCT6A | 1458 | 1476 | g | g | C | A | g | G | G | C | A | C | A | G | C | U | U | G | G | A | G | 35 | 3 | 14 | bc | false | <90% | 2682 | ||
XR_018877 | LOC650265 | 988 | 1006 | C | C | C | A | A | G | G | a | A | C | A | G | C | U | U | G | G | A | a | 32 | 2 | 10 | bc | false | <90% | 1401 | ||
XR_016802 | LOC644909 | 988 | 1006 | C | C | C | A | A | G | G | a | A | C | A | G | C | U | U | G | G | A | a | 32 | 2 | 10 | bc | false | <90% | 1401 | ||
NM_019117 | KLHL4 | 3935 | 3953 | g | C | C | A | A | u | G | C | A | C | A | G | C | U | U | G | G | c | c | 27 | 4 | 11 | c | false | <90% | 5762 | ||
NM_033143 | FGF5 | 1607 | 1625 | C | C | a | A | A | G | G | C | u | C | A | G | C | U | U | G | G | A | u | 15 | 3 | 9 | bc | false | <90% | 5295 | ||
NM_004464 | FGF5 | 1711 | 1729 | C | C | a | A | A | G | G | C | u | C | A | G | C | U | U | G | G | A | u | 15 | 3 | 9 | bc | false | <90% | 5399 | ||
NM_004254 | SLC22A8 | 1007 | 1025 | a | g | a | A | A | G | G | C | u | C | A | G | C | U | U | G | G | A | G | 6 | 4 | 10 | bc | false | <90% | 2207 | ||
XM_001129241 | LOC439949 | 967 | 985 | C | a | g | A | A | G | u | C | A | C | A | G | C | U | U | G | G | A | G | 2 | 3 | 12 | bc | false | <90% | 1402 | ||
XM_001128367 | LOC439949 | 967 | 985 | C | a | g | A | A | G | u | C | A | C | A | G | C | U | U | G | G | A | G | 2 | 3 | 12 | bc | false | <90% | 1403 | ||
NM_002518 | NPAS2 | 1044 | 1062 | u | u | C | A | A | G | G | C | A | u | A | G | C | U | U | G | G | A | a | -1 | 4 | 8 | bc | false | <90% | 4004 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2394
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