Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
31 hits were found for CAAGUUCACCACAGGUGAG (7 guide strand hits and 24 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_021220 | OVOL2 | 561 | 579 | C | A | A | G | U | U | C | A | C | C | A | C | A | G | G | c | a | c | G | 47 | 3 | 15 | c | false | <90% | 1555 | ||
NM_177937 | GOLPH2 | 489 | 507 | u | A | A | c | a | U | C | A | C | C | A | C | A | G | G | U | G | A | G | 9 | 3 | 14 | bc | false | <90% | 3047 | ||
NM_016548 | GOLPH2 | 522 | 540 | u | A | A | c | a | U | C | A | C | C | A | C | A | G | G | U | G | A | G | 9 | 3 | 14 | bc | false | <90% | 3080 | ||
NM_001010888 | ZC3H12B | 6784 | 6802 | a | A | A | G | U | U | a | A | C | C | A | g | A | G | G | U | G | A | G | -2 | 3 | 7 | false | <90% | 7024 | |||
XM_928235 | FLJ12688 | 175 | 193 | C | A | A | G | U | U | C | A | C | u | A | C | A | G | G | U | c | A | c | -11 | 3 | 9 | c | false | <90% | 1839 | ||
XM_940431 | FLJ12688 | 175 | 193 | C | A | A | G | U | U | C | A | C | u | A | C | A | G | G | U | c | A | c | -11 | 3 | 9 | c | false | <90% | 1839 | ||
NM_015994 | ATP6V1D | 392 | 410 | C | A | A | G | U | U | C | A | C | a | g | C | A | G | G | U | G | A | c | -49 | 3 | 9 | c | false | <90% | 1675 |
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_019863 | F8 | 666 | 684 | C | a | C | A | C | C | U | G | U | G | G | U | G | A | A | C | U | c | u | 80 | 3 | 15 | ac | false | <90% | 2617 | ||
NM_000132 | F8 | 7097 | 7115 | C | a | C | A | C | C | U | G | U | G | G | U | G | A | A | C | U | c | u | 80 | 3 | 15 | ac | false | <90% | 9030 | ||
NM_022748 | TNS3 | 5380 | 5398 | C | U | C | A | C | C | U | G | U | G | G | U | G | A | g | C | U | g | G | 72 | 2 | 14 | c | false | <90% | 7697 | ||
XM_001126757 | FLJ26056 | 1145 | 1163 | g | U | C | A | C | C | U | G | U | G | G | U | G | A | A | C | a | g | a | 66 | 4 | 15 | ac | false | <90% | 1870 | ||
NM_172373 | ELF1 | 1823 | 1841 | u | g | C | A | C | C | U | G | U | G | G | U | G | A | c | C | U | U | u | 56 | 4 | 12 | c | false | <90% | 3499 | ||
NM_133378 | TTN | 619 | 637 | u | a | C | A | C | C | U | G | U | G | G | U | G | A | A | g | U | U | c | 55 | 4 | 13 | c | false | <90% | 101519 | ||
NM_133437 | TTN | 619 | 637 | u | a | C | A | C | C | U | G | U | G | G | U | G | A | A | g | U | U | c | 55 | 4 | 13 | c | false | <90% | 82604 | ||
NM_133432 | TTN | 619 | 637 | u | a | C | A | C | C | U | G | U | G | G | U | G | A | A | g | U | U | c | 55 | 4 | 13 | c | false | <90% | 82403 | ||
NM_003319 | TTN | 619 | 637 | u | a | C | A | C | C | U | G | U | G | G | U | G | A | A | g | U | U | c | 55 | 4 | 13 | c | false | <90% | 82028 | ||
NM_133379 | TTN | 619 | 637 | u | a | C | A | C | C | U | G | U | G | G | U | G | A | A | g | U | U | c | 55 | 4 | 13 | c | false | <90% | 17306 | ||
XM_001125098 | LOC730417 | 931 | 949 | C | U | g | A | C | C | U | G | U | G | G | U | G | A | A | C | a | g | G | 54 | 3 | 13 | c | false | <90% | 6329 | ||
NM_207371 | FLJ45187 | 931 | 949 | C | U | g | A | C | C | U | G | U | G | G | U | G | A | A | C | a | g | G | 54 | 3 | 13 | c | false | <90% | 6339 | ||
NM_001032380 | RHOBTB1 | 3320 | 3338 | C | U | C | A | C | C | U | G | U | G | G | c | c | A | A | C | U | U | c | 50 | 3 | 11 | false | <90% | 4381 | |||
NM_198225 | RHOBTB1 | 3321 | 3339 | C | U | C | A | C | C | U | G | U | G | G | c | c | A | A | C | U | U | c | 50 | 3 | 11 | false | <90% | 4382 | |||
NM_014836 | RHOBTB1 | 3410 | 3428 | C | U | C | A | C | C | U | G | U | G | G | c | c | A | A | C | U | U | c | 50 | 3 | 11 | false | <90% | 4471 | |||
NM_206890 | DIP2A | 1248 | 1266 | C | U | C | A | C | C | U | a | U | G | G | U | a | A | A | C | U | U | u | 22 | 3 | 7 | false | <90% | 2859 | |||
NM_206891 | DIP2A | 1248 | 1266 | C | U | C | A | C | C | U | a | U | G | G | U | a | A | A | C | U | U | u | 22 | 3 | 7 | false | <90% | 2909 | |||
NM_206889 | DIP2A | 1248 | 1266 | C | U | C | A | C | C | U | a | U | G | G | U | a | A | A | C | U | U | u | 22 | 3 | 7 | false | <90% | 3042 | |||
NM_015151 | DIP2A | 1248 | 1266 | C | U | C | A | C | C | U | a | U | G | G | U | a | A | A | C | U | U | u | 22 | 3 | 7 | false | <90% | 5936 | |||
XR_017697 | TMEM83 | 72 | 90 | C | U | C | A | C | C | U | G | a | G | G | U | G | A | A | C | c | U | u | 11 | 3 | 8 | c | false | <90% | 1786 | ||
XR_017978 | TMEM83 | 72 | 90 | C | U | C | A | C | C | U | G | a | G | G | U | G | A | A | C | c | U | u | 11 | 3 | 8 | c | false | <90% | 1786 | ||
NM_133510 | RAD51L1 | 611 | 629 | C | U | C | A | C | C | U | G | U | G | a | U | G | A | A | g | U | U | c | 7 | 3 | 10 | c | false | <90% | 1566 | ||
NM_002877 | RAD51L1 | 611 | 629 | C | U | C | A | C | C | U | G | U | G | a | U | G | A | A | g | U | U | c | 7 | 3 | 10 | c | false | <90% | 1875 | ||
NM_133509 | RAD51L1 | 611 | 629 | C | U | C | A | C | C | U | G | U | G | a | U | G | A | A | g | U | U | c | 7 | 3 | 10 | c | false | <90% | 2513 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1653
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