Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
52 hits were found for GGAAGCAGUUCCUCUGGAA (17 guide strand hits and 35 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_001005207 | TRIM37 | 2004 | 2022 | G | G | c | A | G | C | A | G | U | U | C | C | U | C | U | G | c | u | A | 54 | 3 | 13 | c | false | <90% | 3588 | ||
NM_015294 | TRIM37 | 2004 | 2022 | G | G | c | A | G | C | A | G | U | U | C | C | U | C | U | G | c | u | A | 54 | 3 | 13 | c | false | <90% | 4488 | ||
NM_003204 | NFE2L1 | 73 | 91 | c | u | A | A | G | C | A | G | U | U | u | C | U | C | U | G | G | A | A | 25 | 3 | 8 | c | false | <90% | 4760 | ||
XM_927190 | LOC643036 | 372 | 390 | G | G | A | A | G | C | A | G | U | U | u | C | g | C | U | G | G | A | c | 23 | 3 | 10 | false | <90% | 751 | |||
XM_940958 | LOC643036 | 372 | 390 | G | G | A | A | G | C | A | G | U | U | u | C | g | C | U | G | G | A | c | 23 | 3 | 10 | false | <90% | 751 | |||
NM_004758 | BZRAP1 | 5938 | 5956 | G | G | A | A | G | C | A | G | c | U | C | C | U | C | a | G | G | A | g | 10 | 3 | 8 | c | false | <90% | 7033 | ||
NM_018335 | C14orf131 | 1581 | 1599 | a | G | A | A | G | g | A | G | U | U | C | C | U | C | U | a | G | A | A | 8 | 3 | 9 | c | false | <90% | 1794 | ||
NM_007268 | VSIG4 | 1188 | 1206 | G | G | A | c | a | C | A | G | U | U | C | C | U | C | U | G | G | A | u | 6 | 3 | 13 | bc | false | <90% | 1787 | ||
NM_032980 | DTNA | 2974 | 2992 | a | u | u | A | G | C | A | G | U | U | u | C | U | C | U | G | G | A | A | 5 | 4 | 8 | c | false | <90% | 5221 | ||
NM_032975 | DTNA | 3825 | 3843 | a | u | u | A | G | C | A | G | U | U | u | C | U | C | U | G | G | A | A | 5 | 4 | 8 | c | false | <90% | 6072 | ||
NM_001390 | DTNA | 3919 | 3937 | a | u | u | A | G | C | A | G | U | U | u | C | U | C | U | G | G | A | A | 5 | 4 | 8 | c | false | <90% | 6166 | ||
XM_928399 | LOC347119 | 1361 | 1379 | G | G | A | A | G | C | A | G | U | a | C | C | U | C | U | G | c | A | A | -6 | 2 | 9 | c | false | <90% | 1404 | ||
XM_937489 | LOC347119 | 1361 | 1379 | G | G | A | A | G | C | A | G | U | a | C | C | U | C | U | G | c | A | A | -6 | 2 | 9 | c | false | <90% | 1404 | ||
NM_033067 | DMRTB1 | 150 | 168 | G | G | A | A | G | C | A | G | U | g | C | C | U | C | U | G | c | g | A | -8 | 3 | 9 | c | false | <90% | 1907 | ||
NM_178426 | ARNT | 1717 | 1735 | G | u | g | A | G | C | A | G | U | c | C | C | U | C | U | G | G | A | A | -13 | 3 | 9 | bc | false | <90% | 3563 | ||
NM_178427 | ARNT | 2955 | 2973 | G | u | g | A | G | C | A | G | U | c | C | C | U | C | U | G | G | A | A | -13 | 3 | 9 | bc | false | <90% | 4801 | ||
NM_001668 | ARNT | 3000 | 3018 | G | u | g | A | G | C | A | G | U | c | C | C | U | C | U | G | G | A | A | -13 | 3 | 9 | bc | false | <90% | 4846 |
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_152596 | EXDL1 | 1090 | 1108 | U | g | C | C | A | G | A | G | G | A | A | C | U | G | C | U | U | C | a | 83 | 2 | 16 | abc | false | <90% | 2949 | ||
NM_005029 | PITX3 | 396 | 414 | U | U | C | C | A | G | A | G | G | A | A | C | c | G | C | U | a | C | C | 66 | 2 | 12 | false | <90% | 1407 | |||
NM_153427 | PITX2 | 755 | 773 | U | U | C | C | A | G | A | G | G | A | A | C | c | G | C | U | a | C | C | 66 | 2 | 12 | false | <90% | 2122 | |||
NM_153426 | PITX2 | 893 | 911 | U | U | C | C | A | G | A | G | G | A | A | C | c | G | C | U | a | C | C | 66 | 2 | 12 | false | <90% | 2250 | |||
NM_000325 | PITX2 | 969 | 987 | U | U | C | C | A | G | A | G | G | A | A | C | c | G | C | U | a | C | C | 66 | 2 | 12 | false | <90% | 2336 | |||
NM_002653 | PITX1 | 740 | 758 | U | U | C | C | A | G | A | G | G | A | A | C | c | G | C | U | a | C | C | 66 | 2 | 12 | false | <90% | 2373 | |||
NM_013453 | SPANXA1 | 223 | 241 | c | U | C | C | A | G | A | G | G | A | A | C | U | G | C | U | g | a | a | 66 | 4 | 15 | ac | false | <90% | 384 | ||
NM_145662 | SPANXA2 | 247 | 265 | c | U | C | C | A | G | A | G | G | A | A | C | U | G | C | U | g | a | a | 66 | 4 | 15 | ac | false | <90% | 420 | ||
NM_022661 | SPANXC | 243 | 261 | c | U | C | C | A | G | A | G | G | A | A | C | U | G | C | U | g | a | a | 66 | 4 | 15 | ac | false | <90% | 425 | ||
NM_016577 | RAB6B | 1683 | 1701 | c | c | C | C | A | G | A | G | G | A | A | C | U | G | C | U | c | C | C | 63 | 3 | 14 | ac | false | <90% | 5561 | ||
XR_016635 | LOC390569 | 1287 | 1305 | a | g | C | C | A | G | A | G | G | A | A | C | U | G | C | g | U | C | u | 55 | 4 | 13 | c | false | <90% | 3941 | ||
NM_024675 | PALB2 | 2165 | 2183 | U | U | C | C | A | G | A | G | G | A | A | C | U | G | a | g | U | C | C | 49 | 2 | 14 | c | false | <90% | 4069 | ||
NM_080645 | COL12A1 | 2327 | 2345 | g | U | C | C | A | G | A | G | G | A | A | C | U | G | g | U | a | C | C | 49 | 3 | 13 | c | false | <90% | 8087 | ||
NM_004370 | COL12A1 | 5819 | 5837 | g | U | C | C | A | G | A | G | G | A | A | C | U | G | g | U | a | C | C | 49 | 3 | 13 | c | false | <90% | 11579 | ||
NM_002077 | GOLGA1 | 3445 | 3463 | g | U | C | C | A | G | A | G | G | A | A | a | U | u | C | U | U | C | C | 44 | 3 | 10 | false | <90% | 4805 | |||
NM_182520 | C22orf15 | 944 | 962 | U | U | C | C | A | G | A | G | G | A | A | C | U | G | C | g | c | a | g | 42 | 4 | 15 | c | false | <90% | 2020 | ||
XM_940318 | FLJ40411 | 3646 | 3664 | g | a | C | C | A | G | A | G | G | A | u | C | U | G | C | U | U | C | u | 20 | 4 | 8 | c | false | <90% | 3761 | ||
NM_001080504 | FLJ40411 | 3646 | 3664 | g | a | C | C | A | G | A | G | G | A | u | C | U | G | C | U | U | C | u | 20 | 4 | 8 | c | false | <90% | 3761 | ||
NM_144691 | CAPN12 | 1671 | 1689 | U | U | C | C | A | G | A | G | G | A | g | C | U | G | C | U | g | g | g | 7 | 4 | 10 | c | false | <90% | 3129 | ||
NM_006750 | SNTB2 | 4691 | 4709 | a | U | u | C | A | G | A | G | G | g | A | C | U | G | C | U | U | C | C | -4 | 3 | 9 | bc | false | <90% | 9771 | ||
XM_944280 | SETD5 | 2219 | 2237 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 5170 | ||
XM_931417 | SETD5 | 2219 | 2237 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 5170 | ||
XM_944303 | SETD5 | 3933 | 3951 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6306 | ||
XM_931455 | SETD5 | 3933 | 3951 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6306 | ||
XM_931478 | SETD5 | 3605 | 3623 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6556 | ||
XM_944276 | SETD5 | 3606 | 3624 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6557 | ||
XM_944298 | SETD5 | 3876 | 3894 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6575 | ||
XM_931447 | SETD5 | 3876 | 3894 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6575 | ||
NM_001080517 | SETD5 | 3876 | 3894 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6827 | ||
XM_939712 | SETD5 | 3876 | 3894 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 6827 | ||
XM_944295 | SETD5 | 3876 | 3894 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 7060 | ||
XM_931444 | SETD5 | 3876 | 3894 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 7060 | ||
XM_944260 | SETD5 | 4120 | 4138 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 7071 | ||
XM_931376 | SETD5 | 4159 | 4177 | U | U | C | C | A | G | A | G | G | c | A | C | U | u | C | U | U | C | a | -7 | 3 | 9 | c | false | <90% | 7110 | ||
NM_173728 | ARHGEF15 | 3862 | 3880 | a | U | C | C | A | G | A | G | c | A | u | C | U | G | C | U | U | C | C | -23 | 3 | 8 | c | false | <90% | 4261 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2772
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