Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
17 hits were found for CAGGCAGCGUGGUCAUUGU (9 guide strand hits and 8 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_015020 | PHLPPL | 7158 | 7176 | g | g | a | G | C | A | G | C | G | U | G | G | U | C | A | U | U | G | c | 62 | 4 | 15 | bc | false | <90% | 7919 | ||
| NR_003366 | ANKRD20B | 55652 | 55670 | C | A | G | G | C | A | G | C | G | U | G | a | a | C | A | U | U | G | a | 50 | 3 | 11 | false | <90% | 96524 | |||
| XM_001130818 | LOC731789 | 225 | 243 | C | A | G | G | C | A | G | C | G | U | G | G | U | C | u | U | c | c | c | 44 | 4 | 14 | c | false | <90% | 457 | ||
| NM_016204 | GDF2 | 663 | 681 | a | A | G | G | a | A | G | C | G | U | G | G | U | C | A | U | U | u | a | 38 | 4 | 12 | c | false | <90% | 1942 | ||
| NM_145185 | MAP2K7 | 1888 | 1906 | C | A | G | G | C | A | G | u | G | U | G | G | g | C | A | U | U | G | c | 22 | 3 | 7 | false | <90% | 3386 | |||
| NM_022058 | SLC4A10 | 278 | 296 | C | A | G | G | C | A | u | C | G | U | G | G | U | C | A | U | a | a | a | 2 | 4 | 9 | c | false | <90% | 3929 | ||
| NM_000418 | IL4R | 3224 | 3242 | C | A | G | G | g | A | G | g | G | U | G | G | U | C | A | U | U | G | c | -18 | 3 | 10 | bc | false | <90% | 3678 | ||
| NM_001002254 | DGAT2L4 | 533 | 551 | C | A | G | G | C | A | a | C | a | U | G | G | U | C | A | U | U | G | U | -26 | 2 | 10 | bc | false | <90% | 2124 | ||
| NM_001447 | FAT2 | 4209 | 4227 | C | A | G | G | C | A | G | C | a | U | c | G | U | C | A | U | U | G | c | -26 | 3 | 8 | c | false | <90% | 14536 | ||
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_015470 | RAB11FIP5 | 2665 | 2683 | A | C | A | A | U | G | A | C | C | A | C | G | C | U | G | C | C | U | G | 100 | 0 | 19 | abc | false | <90% | 4362 | ||
| NM_002218 | ITIH4 | 2738 | 2756 | g | C | A | A | U | G | A | C | C | A | C | u | C | U | G | C | C | a | c | 56 | 4 | 10 | false | <90% | 3260 | |||
| NM_017600 | GOLGA2L1 | 524 | 542 | g | C | A | A | U | G | A | C | C | A | C | c | a | U | G | C | C | U | G | 53 | 3 | 10 | false | <90% | 2279 | |||
| NM_001037333 | CYFIP2 | 683 | 701 | A | g | A | A | U | G | A | C | C | A | C | u | C | U | G | C | C | U | a | 49 | 3 | 9 | false | <90% | 6498 | |||
| NM_014376 | CYFIP2 | 800 | 818 | A | g | A | A | U | G | A | C | C | A | C | u | C | U | G | C | C | U | a | 49 | 3 | 9 | false | <90% | 6615 | |||
| NM_001037332 | CYFIP2 | 976 | 994 | A | g | A | A | U | G | A | C | C | A | C | u | C | U | G | C | C | U | a | 49 | 3 | 9 | false | <90% | 6791 | |||
| NM_033180 | OR51B2 | 269 | 287 | A | C | A | u | U | G | A | C | C | A | C | G | a | U | G | C | C | U | a | 47 | 3 | 8 | false | <90% | 1055 | |||
| NM_173822 | FAM126B | 3015 | 3033 | A | C | A | A | g | G | A | C | C | A | C | a | C | U | G | C | C | U | u | 9 | 3 | 6 | false | <90% | 4001 | |||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 3668
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