Predicted Off-targets for siRNA "cgagcauaaggguacaaua" Using siRNA SpecificityServer

Specificity Server [Result page v1.0]


SpecificityServer - An siRNA design program for determining siRNA specificity

Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands

No (unfiltered) hits were found for :CGAGCAUAAGGGUACAAUA


3 prime UTR Seed matches

Hits to same gene : 0
Hits to other genes : 316
View matched accessions

3 prime seed match details

AccessionGene nameHits to this gene
NM_001010000ARHGAP282
NM_015246MGRN12
NM_030648SETD72
NM_001106ACVR2B2
NM_017759FLJ203091
NM_006464TGOLN21
NM_003724JRK1
NM_000332ATXN11
NM_002340LSS1
NM_001042444CAST1
NM_001042440CAST1
NM_001042446CAST1
NM_001042441CAST1
NM_001750CAST1
NM_173063CAST1
NM_001042443CAST1
NM_001042442CAST1
NM_173060CAST1
NM_173061CAST1
NM_001042445CAST1
NM_207645LOC3999471
NM_020954KIAA16181
NM_012219MRAS1
NM_0010850491
NM_013381TRHDE1
NM_152437ZNF6641
NM_014674EDEM11
NM_080821C20orf1081
NM_000208INSR1
NM_001079817INSR1
NM_018658KCNJ161
NM_170742KCNJ161
NM_170741KCNJ161
NM_017617NOTCH11
NM_001029976ZNF161
NM_006958ZNF161
NM_0011001591
NM_014760TATDN21
NM_052839PANX21
NM_138415PHF21B1
NM_030798WBSCR161
NM_153021PLB11
NM_053055THEM41
NM_023037FRY1
NM_001007070SDCBP1
NM_001007067SDCBP1
NM_005625SDCBP1
NM_001007069SDCBP1
NM_001007068SDCBP1
NM_139074DEFB1271
XM_931376SETD51
XM_944260SETD51
XM_931478SETD51
XM_944280SETD51
XM_931417SETD51
XM_944276SETD51
XM_939712SETD51
NM_001080517SETD51
XM_944303SETD51
XM_931455SETD51
XM_931447SETD51
XM_944298SETD51
XM_944295SETD51
XM_931444SETD51
NM_003478CUL51
NM_005509DMXL11
NM_001040441ZBTB81
XM_001124597LOC7304111
NM_134445CD99L21
NM_134446CD99L21
NM_031462CD99L21
NM_005370RAB8A1
NM_019089HES21
NM_001455FOXO3A1
NM_201559FOXO3A1
NM_014630ZNF5921
NM_001009877BRD91
NM_023924BRD91
NM_030640DUSP161
NM_001558IL10RA1
XM_001126273LOC7277731
NM_032329ING51
XM_941026ING51
NM_016652CRNKL11
NM_020248CTNNBIP11
NM_001012329CTNNBIP11
NM_080605B3GALT61
NM_017629EIF2C41
NM_003946NOL31
NM_025196GRPEL11
NM_001852COL9A21
NM_198174GRHL31
NM_021180GRHL31
NM_198173GRHL31
NM_015235CSTF2T1
NM_0245621
XM_001128324LOC7280461
NM_001042682RERE1
NM_012102RERE1
NM_001042681RERE1
NM_175922MGC353081
NM_015396ARMC81
XM_001129280LOC7290861
XM_938287LOC6539301
NM_030796ECOP1
NM_001101ACTB1
NM_182744NBL11
NM_005380NBL11
NM_032561C22orf231
NM_003108SOX111
NM_003045SLC7A11
NM_0209111
XM_001126688LOC7306521
XM_001127390LOC7283971
NM_173623TTLL61
NM_006336ZER11
NM_018667SMPD31
NM_000230LEP1
NM_000457HNF4A1
NM_178849HNF4A1
NM_019107C19orf101
NM_006999POLS1
NM_014647KIAA04301
NM_152529GPR1551
NM_001033045GPR1551
XM_001129063LOC7290131
XM_001131845LOC7320981
XM_292785LOC3428651
XM_939057LOC3428651
NM_015471NSL11
NM_001042549NSL11
NM_014587SOX81
NM_013433TNPO21
NM_017456PSCD11
NM_004762PSCD11
NM_177967UBAC21
NM_139056ADAMTS161
NM_001259CDK61
NM_138342LOC899441
NM_152376UBXD31
NM_001012423GOLGA8E1
NM_001012420GOLGA8G1
NM_006161NEUROG11
NM_032664FUT101
NM_133330WHSC11
NM_001042424WHSC11
NM_133331WHSC11
NM_133335WHSC11
NM_006106YAP11
NM_213604ADAMTSL51
NM_007087CALB21
NM_033254BOC1
NM_173851SLC30A81
NM_020762SRGAP11
NM_017931FLJ206991
NM_004722AP4M11
NM_004571PKNOX11
NM_014772KIAA04271
NM_000428LTBP21
NM_016474C3orf191
NM_006480RGS141
NM_152280SYT111
NM_052924RHPN11
NM_000498CYP11B21
NM_001026213CYP11B11
NM_000497CYP11B11
NM_173478CNTD11
NM_002996CX3CL11
NM_018982YIPF11
NM_005187CBFA2T31
NM_175931CBFA2T31
XM_001131009LOC7296801
XM_001130398LOC7316661
NM_0146431
NM_005158ABL21
NM_007314ABL21
NM_0011001081
NM_201520SLC25A351
NM_000679ADRA1B1
NM_012174FBXW81
NM_153348FBXW81
NM_199289NEK51
NM_005631SMO1
NM_014910ZNF5071
XM_001129309RNF1871
NM_014924KIAA08311
NM_001012418LOC3401561
NM_001905CTPS1
NM_004915ABCG11
NM_207628ABCG11
NM_207174ABCG11
NM_207629ABCG11
NM_207627ABCG11
NM_016818ABCG11
NM_024815NUDT181
NM_032189ATP11A1
NM_015205ATP11A1
XM_936538FAT31
NM_0010087811
XM_926199FAT31
XM_001133503LOC6450271
NM_032207C19orf441
NM_003486SLC7A51
NM_172000TEDDM11
XM_939005LOC6499261
XM_371106LOC3884581
NM_015264C22orf91
NM_001009880C22orf91
NM_052928SMYD41
NM_015989CSAD1
NM_001008212OPTN1
NM_001008213OPTN1
NM_021980OPTN1
NM_001008211OPTN1
NM_138292ATM1
NM_000051ATM1
NM_0011003891
NM_019067GNL3L1
NM_001013406KRIT11
NM_004912KRIT11
NM_194454KRIT11
NM_194456KRIT11
NM_194455KRIT11
NM_133444ZNF5261
NM_001077418FLJ221671
NM_001077416FLJ221671
NM_001077419FLJ221671
NM_031215CABLES21
NM_017592IXL1
NM_001720BMP8B1
NM_018488TBX41
NM_152289ZNF5611
NM_017656ZNF5621
NM_005779LHFPL21
NM_005239ETS21
NM_012121CDC42EP41
NM_015353KCTD21
NM_003597KLF111
XM_001129527KLF111
NM_021117CRY21
NM_004516ILF31
NM_153464ILF31
NM_138621BCL2L111
NM_006538BCL2L111
NM_138554TLR41
NM_001044387ZNF5571
NM_024341ZNF5571
NM_001044388ZNF5571
NM_001303COX101
NM_002086GRB21
NM_203506GRB21
NM_003966SEMA5A1
NM_148964CTSE1
NM_001910CTSE1
NM_001018065NTRK21
NM_001018066NTRK21
NM_031912SYT151
NM_001032380RHOBTB11
NM_198225RHOBTB11
NM_014836RHOBTB11
NM_207373C10orf991
XM_928075LOC6432871
XM_932585LOC6432871
XM_941283LOC6432871
XM_945078LOC6432871
NM_0010992851
NM_002823PTMA1
XM_001132359LOC7300911
XM_001132046LOC7321641
NM_020373TMEM16B1
NM_052909KIAA19091
NM_178830C19orf471
NM_000724CACNB21
NM_201596CACNB21
NM_201571CACNB21
NM_201593CACNB21
NM_201590CACNB21
NM_201572CACNB21
NM_201597CACNB21
NM_201570CACNB21
NM_0133181
NM_007249KLF121
NM_153645NUP501
NM_007172NUP501
NM_138285NUP351
NM_022755IPPK1
NM_020699GATAD2B1
NM_012288TRAM21
NM_0010400611
NM_024871MAP6D11
NM_152835PDIK1L1
NM_001626AKT21
NM_002847PTPRN21
NM_130843PTPRN21
NM_130842PTPRN21
XM_001133026LOC7313861
XM_001133204LOC7291201
XM_001134215PDPR1
NM_005814GPA331
NM_003034ST8SIA11
NM_014961RUFY31
NM_013290PSMC3IP1
NM_016556PSMC3IP1
NM_000448RAG11
XM_001134327LOC7323241
XM_001134208LOC7299751
NM_032933C18orf451
NM_0207801
NM_014323PATZ11
NM_032052PATZ11
NM_032050PATZ11
NM_021705NFYA1
NM_002505NFYA1
NM_173832ZFP411
NM_001005339RGS101
NM_002925RGS101

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

ParameterSpec. Score cut-offColourComment
Hit to same geneColourHits 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≥80ColourHits are very likely to cause an off-target effect
Medium scoring hit<80¸≥40ColourHits with a small chance of causing an off target effect.
Low scoring hitColourHits very unlikely to cause an off-target effect

The mismatches are colour coded based on the weighting of that position.

Cut-offColour
MatchColour
Wobble base pairs (G-U)Colour
Critical bases (none)Colour
0.6 bitsColour
0.4 bitsColour
0.2 bitsColour

About SpecificityServer

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


For more details about the algorithm "siRNA specificity searching incorporating mismatch tolerance data" Bioinformatics (2008) 24 (10): 1316-1317