Automatic recommendation
OK - siRNA is specific for both sense and antisense (guide) strands
26 hits were found for GCUAUCAAUGGUGAAGAUA (18 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 | |||||||||||||
| XM_001130106 | LOC646463 | 151 | 169 | c | C | U | c | U | C | A | A | U | G | G | U | G | A | A | G | A | U | g | 56 | 3 | 14 | bc | false | <90% | 342 | ||
| XM_929387 | LOC646463 | 151 | 169 | c | C | U | c | U | C | A | A | U | G | G | U | G | A | A | G | A | U | g | 56 | 3 | 14 | bc | false | <90% | 342 | ||
| NM_006166 | NFYB | 535 | 553 | a | C | a | A | U | C | A | A | U | G | G | a | G | A | A | G | A | U | A | 44 | 3 | 8 | false | <90% | 3482 | |||
| NM_001005745 | NUMB | 1905 | 1923 | G | C | U | u | U | C | A | A | U | G | G | U | G | u | A | G | A | U | g | 38 | 3 | 9 | c | false | <90% | 3470 | ||
| NM_001005744 | NUMB | 1938 | 1956 | G | C | U | u | U | C | A | A | U | G | G | U | G | u | A | G | A | U | g | 38 | 3 | 9 | c | false | <90% | 3503 | ||
| NM_003744 | NUMB | 2049 | 2067 | G | C | U | u | U | C | A | A | U | G | G | U | G | u | A | G | A | U | g | 38 | 3 | 9 | c | false | <90% | 3614 | ||
| NM_001005743 | NUMB | 2082 | 2100 | G | C | U | u | U | C | A | A | U | G | G | U | G | u | A | G | A | U | g | 38 | 3 | 9 | c | false | <90% | 3647 | ||
| NM_020121 | UGCGL2 | 1311 | 1329 | G | g | g | A | U | C | A | A | U | G | G | g | G | A | A | G | A | U | A | 35 | 3 | 8 | false | <90% | 4848 | |||
| NM_004232 | SOCS6 | 479 | 497 | G | a | U | A | U | C | A | A | c | G | G | U | G | A | A | G | A | U | g | 23 | 3 | 9 | bc | false | <90% | 5846 | ||
| NM_015061 | JMJD2C | 961 | 979 | c | C | U | A | U | C | u | A | U | G | G | U | G | c | A | G | A | U | A | 12 | 3 | 6 | c | false | <90% | 4674 | ||
| XM_001132106 | LOC641515 | 1245 | 1263 | u | g | g | A | U | C | A | A | U | G | c | U | G | A | A | G | A | U | A | 5 | 4 | 8 | c | false | <90% | 1300 | ||
| XM_001133017 | LOC641515 | 1245 | 1263 | u | g | g | A | U | C | A | A | U | G | c | U | G | A | A | G | A | U | A | 5 | 4 | 8 | c | false | <90% | 1300 | ||
| NM_177948 | ARMCX3 | 3087 | 3105 | u | a | g | A | U | a | A | A | U | G | G | U | G | A | A | G | A | U | A | 3 | 4 | 13 | bc | false | <90% | 3318 | ||
| NM_177947 | ARMCX3 | 3136 | 3154 | u | a | g | A | U | a | A | A | U | G | G | U | G | A | A | G | A | U | A | 3 | 4 | 13 | bc | false | <90% | 3367 | ||
| NM_016607 | ARMCX3 | 3164 | 3182 | u | a | g | A | U | a | A | A | U | G | G | U | G | A | A | G | A | U | A | 3 | 4 | 13 | bc | false | <90% | 3395 | ||
| NM_015578 | LSM14A | 1068 | 1086 | c | C | U | g | U | a | A | A | U | G | G | U | G | A | A | G | A | U | A | -2 | 3 | 13 | bc | false | <90% | 3389 | ||
| NM_001094 | ACCN1 | 1390 | 1408 | G | C | U | c | U | C | c | A | U | G | G | U | G | A | A | G | A | U | c | -8 | 3 | 11 | bc | false | <90% | 2747 | ||
| NM_183377 | ACCN1 | 2142 | 2160 | G | C | U | c | U | C | c | A | U | G | G | U | G | A | A | G | A | U | c | -8 | 3 | 11 | bc | false | <90% | 3470 | ||
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_020931 | KIAA1586 | 2102 | 2120 | U | A | a | C | U | U | C | A | C | C | A | U | g | G | A | U | A | G | C | 70 | 2 | 9 | false | <90% | 2878 | |||
| NM_173503 | EFCAB3 | 992 | 1010 | c | A | U | C | U | U | C | A | C | C | A | U | U | G | A | U | c | a | a | 66 | 4 | 15 | ac | false | <90% | 1542 | ||
| XR_019300 | LOC391540 | 341 | 359 | g | A | U | a | U | U | C | A | C | C | A | U | U | G | A | U | A | u | u | 53 | 4 | 13 | c | false | <90% | 644 | ||
| XR_017295 | LOC391540 | 341 | 359 | g | A | U | a | U | U | C | A | C | C | A | U | U | G | A | U | A | u | u | 53 | 4 | 13 | c | false | <90% | 644 | ||
| NM_006815 | TMED2 | 426 | 444 | g | A | U | g | U | U | C | A | C | C | A | U | U | G | A | U | A | u | u | 53 | 4 | 13 | c | false | <90% | 2126 | ||
| NM_152383 | DIS3L2 | 1408 | 1426 | U | A | U | C | U | U | C | A | C | C | A | U | U | G | A | c | c | c | a | 42 | 4 | 15 | c | false | <90% | 3508 | ||
| NM_152434 | CWF19L2 | 856 | 874 | c | A | U | C | U | U | C | A | g | C | A | U | U | G | g | U | A | G | C | 13 | 3 | 7 | c | false | <90% | 2920 | ||
| NM_015058 | KIAA0564 | 6906 | 6924 | c | c | U | C | U | U | C | A | C | g | A | U | U | G | A | U | A | G | C | 3 | 3 | 9 | bc | false | <90% | 7169 | ||
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 905
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