Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
20 hits were found for ACCCAAAUGUACACCAAUG (4 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 | |||||||||||||
| NR_002712 | IL8RBP | 1552 | 1570 | A | C | C | C | A | A | A | U | G | U | u | C | A | u | C | A | A | U | G | 19 | 2 | 10 | c | false | <90% | 2153 | ||
| NM_001557 | IL8RB | 2286 | 2304 | A | C | C | C | A | A | A | U | G | U | u | C | A | u | C | A | A | U | G | 19 | 2 | 10 | c | false | <90% | 2859 | ||
| XR_017823 | MGC12538 | 112 | 130 | A | C | C | C | A | A | A | U | G | U | c | C | A | u | C | A | A | U | u | 14 | 3 | 10 | c | false | <90% | 2139 | ||
| NR_003090 | MOBP | 1119 | 1137 | A | C | C | a | A | A | A | U | G | U | c | C | A | C | C | A | A | U | a | -3 | 3 | 7 | c | false | <90% | 2689 | ||
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_006924 | SFRS1 | 1745 | 1763 | u | g | U | U | G | G | U | G | U | A | C | A | U | g | U | G | G | G | U | 67 | 3 | 11 | c | false | <90% | 5468 | ||
| NM_001078166 | SFRS1 | 1945 | 1963 | u | g | U | U | G | G | U | G | U | A | C | A | U | g | U | G | G | G | U | 67 | 3 | 11 | c | false | <90% | 5668 | ||
| NM_171982 | TRIM35 | 3645 | 3663 | g | A | U | U | G | G | U | G | g | A | C | A | U | U | U | G | G | a | U | 35 | 3 | 8 | c | false | <90% | 4227 | ||
| NM_030579 | CYB5B | 2518 | 2536 | u | A | U | U | G | G | a | G | U | A | C | A | U | U | g | G | G | G | U | 6 | 3 | 7 | c | false | <90% | 4286 | ||
| NR_002827 | HERC2P4 | 1080 | 1098 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 1176 | ||
| NM_032579 | RETNLB | 1190 | 1208 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 1250 | ||
| NM_020675 | SPC25 | 1266 | 1284 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 1375 | ||
| NM_001011552 | SLC9A4 | 4058 | 4076 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 4162 | ||
| NM_033143 | FGF5 | 5205 | 5223 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 5295 | ||
| NM_004464 | FGF5 | 5309 | 5327 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 5399 | ||
| XR_016124 | LOC646214 | 1547 | 1565 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 6629 | ||
| NM_002547 | OPHN1 | 7238 | 7256 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 7350 | ||
| NM_020297 | ABCC9 | 6853 | 6871 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 8325 | ||
| NR_003366 | ANKRD20B | 23911 | 23929 | C | A | U | U | G | a | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 96524 | ||
| NR_003133 | LOC400759 | 2662 | 2680 | C | A | U | U | G | u | U | G | g | A | C | A | U | U | U | G | G | G | U | -23 | 2 | 10 | bc | false | <90% | 16075 | ||
| NM_003639 | IKBKG | 2030 | 2048 | u | A | U | U | G | a | U | G | g | A | C | A | U | U | U | G | G | G | U | -25 | 3 | 10 | bc | false | <90% | 2120 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2234
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