Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
23 hits were found for GCAGGCAAACCAUUUGAAU (12 guide strand hits and 11 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 | |||||||||||||
XM_086001 | LOC148003 | 293 | 311 | G | a | u | G | G | C | A | A | A | C | C | A | U | U | U | G | A | c | U | 66 | 3 | 14 | c | false | <90% | 596 | ||
XM_942526 | LOC651102 | 293 | 311 | G | a | u | G | G | C | A | A | A | C | C | A | U | U | U | G | A | c | U | 66 | 3 | 14 | c | false | <90% | 596 | ||
NM_020129 | LGALS14 | 476 | 494 | G | a | u | G | G | C | A | A | A | C | C | A | U | U | U | G | A | g | c | 61 | 4 | 14 | c | false | <90% | 794 | ||
NM_203471 | LGALS14 | 781 | 799 | G | a | u | G | G | C | A | A | A | C | C | A | U | U | U | G | A | g | c | 61 | 4 | 14 | c | false | <90% | 1099 | ||
NM_001012751 | ABI1 | 3286 | 3304 | c | a | A | G | a | C | A | A | A | C | C | A | U | U | U | G | A | A | U | 35 | 3 | 14 | bc | false | <90% | 3500 | ||
NM_001012752 | ABI1 | 3358 | 3376 | c | a | A | G | a | C | A | A | A | C | C | A | U | U | U | G | A | A | U | 35 | 3 | 14 | bc | false | <90% | 3572 | ||
NM_001012750 | ABI1 | 3373 | 3391 | c | a | A | G | a | C | A | A | A | C | C | A | U | U | U | G | A | A | U | 35 | 3 | 14 | bc | false | <90% | 3587 | ||
NM_005470 | ABI1 | 3454 | 3472 | c | a | A | G | a | C | A | A | A | C | C | A | U | U | U | G | A | A | U | 35 | 3 | 14 | bc | false | <90% | 3668 | ||
XM_032945 | C21orf25 | 2957 | 2975 | c | C | u | G | G | C | A | c | A | C | C | A | U | U | U | G | A | A | U | 16 | 3 | 11 | bc | false | <90% | 4783 | ||
NM_199050 | C21orf25 | 2957 | 2975 | c | C | u | G | G | C | A | c | A | C | C | A | U | U | U | G | A | A | U | 16 | 3 | 11 | bc | false | <90% | 5848 | ||
NM_015500 | C21orf25 | 3458 | 3476 | c | C | u | G | G | C | A | c | A | C | C | A | U | U | U | G | A | A | U | 16 | 3 | 11 | bc | false | <90% | 6349 | ||
NM_032859 | ABHD13 | 4025 | 4043 | u | C | A | u | G | C | A | A | A | a | C | A | U | U | U | G | A | A | U | -21 | 3 | 9 | bc | false | <90% | 5316 |
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_001013415 | FBXW7 | 3279 | 3297 | A | g | U | C | A | A | A | U | G | G | U | U | U | G | C | C | U | c | a | 80 | 3 | 15 | ac | false | <90% | 3570 | ||
NM_018315 | FBXW7 | 3444 | 3462 | A | g | U | C | A | A | A | U | G | G | U | U | U | G | C | C | U | c | a | 80 | 3 | 15 | ac | false | <90% | 3751 | ||
NM_033632 | FBXW7 | 3605 | 3623 | A | g | U | C | A | A | A | U | G | G | U | U | U | G | C | C | U | c | a | 80 | 3 | 15 | ac | false | <90% | 3896 | ||
NM_015011 | MYO16 | 5377 | 5395 | u | c | U | C | A | A | A | U | G | G | U | U | U | a | C | C | U | G | a | 62 | 4 | 11 | c | false | <90% | 6874 | ||
NM_022484 | TMEM168 | 3717 | 3735 | g | U | U | u | A | A | A | U | G | G | U | U | U | G | C | C | U | u | C | 58 | 3 | 13 | c | false | <90% | 3951 | ||
NM_080927 | DCBLD2 | 4942 | 4960 | A | U | U | C | A | A | A | U | G | G | U | U | U | u | u | C | U | G | C | 55 | 2 | 13 | c | false | <90% | 6093 | ||
NM_145169 | SFT2D1 | 127 | 145 | A | U | U | g | A | A | A | U | G | G | U | U | U | G | C | C | a | u | C | 37 | 3 | 12 | c | false | <90% | 717 | ||
NM_014432 | IL20RA | 3307 | 3325 | c | U | U | C | A | u | A | U | G | G | U | U | U | G | C | C | U | u | a | 27 | 4 | 11 | c | false | <90% | 3682 | ||
NM_001214 | C16orf3 | 950 | 968 | c | U | g | C | c | A | A | U | G | G | U | U | U | G | C | C | U | G | C | 26 | 3 | 14 | bc | false | <90% | 1000 | ||
NM_006379 | SEMA3C | 4547 | 4565 | A | U | U | a | u | A | A | U | G | G | U | U | U | G | C | C | U | G | C | 11 | 2 | 14 | bc | false | <90% | 5189 | ||
NM_014954 | RPH3A | 1471 | 1489 | A | U | U | C | A | A | A | U | G | G | c | U | U | G | g | C | U | G | a | 9 | 3 | 10 | c | false | <90% | 2963 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2451
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