Automatic recommendation
Warning - siRNA is specific for only the antisense (guide) strand
29 hits were found for GUCCUCUAAUUCCAGGAUC (9 guide strand hits and 20 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_138969 | RDHE2 | 207 | 225 | G | U | u | C | U | C | U | A | A | U | U | C | C | A | G | G | g | U | u | 51 | 3 | 13 | c | false | <90% | 3039 | ||
NM_005373 | MPL | 2322 | 2340 | a | U | C | u | U | C | U | A | A | U | U | C | C | A | a | G | A | U | C | 36 | 3 | 10 | c | false | <90% | 3646 | ||
NM_006575 | MAP4K5 | 3099 | 3117 | G | U | C | C | U | C | U | A | g | U | U | C | C | A | G | G | A | a | a | 32 | 3 | 8 | c | false | <90% | 4373 | ||
NM_198794 | MAP4K5 | 3147 | 3165 | G | U | C | C | U | C | U | A | g | U | U | C | C | A | G | G | A | a | a | 32 | 3 | 8 | c | false | <90% | 4421 | ||
NM_133448 | TMEM132D | 3668 | 3686 | a | g | C | C | U | u | U | A | A | U | U | C | C | A | G | G | A | U | g | 18 | 4 | 12 | bc | false | <90% | 5815 | ||
NM_173598 | KSR2 | 12225 | 12243 | G | U | C | C | U | C | U | A | g | U | U | C | C | A | G | c | A | U | a | 8 | 3 | 8 | c | false | <90% | 16655 | ||
NM_139242 | MTFMT | 925 | 943 | a | g | g | C | U | C | U | u | A | U | U | C | C | A | G | G | A | U | C | 4 | 4 | 11 | bc | false | <90% | 1800 | ||
NM_173653 | SLC9A9 | 2957 | 2975 | G | U | C | C | U | C | c | A | A | U | U | C | C | A | G | c | A | U | u | 2 | 3 | 8 | c | false | <90% | 3568 | ||
NM_000617 | SLC11A2 | 3820 | 3838 | G | U | C | C | U | C | c | A | A | U | U | C | C | A | G | c | A | U | a | 2 | 3 | 8 | c | false | <90% | 4103 |
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_014828 | TOX4 | 3751 | 3769 | a | A | U | C | C | U | G | G | A | A | U | U | A | G | A | G | G | g | u | 90 | 3 | 16 | ac | false | <90% | 4538 | ||
NM_032204 | ASCC2 | 822 | 840 | u | c | U | C | C | U | G | G | A | A | U | U | A | a | A | G | G | A | C | 67 | 3 | 11 | c | false | <90% | 2799 | ||
NM_001002901 | FCRLB | 1170 | 1188 | G | g | U | C | C | U | G | G | A | A | U | U | A | a | A | G | G | A | g | 64 | 3 | 11 | c | false | <90% | 1794 | ||
NM_153633 | HOXC4 | 549 | 567 | a | g | U | C | C | U | G | G | A | A | U | U | A | G | A | G | a | A | a | 58 | 4 | 14 | ac | false | <90% | 1689 | ||
NM_014620 | HOXC4 | 1183 | 1201 | a | g | U | C | C | U | G | G | A | A | U | U | A | G | A | G | a | A | a | 58 | 4 | 14 | ac | false | <90% | 2300 | ||
NM_012174 | FBXW8 | 622 | 640 | c | u | U | C | C | U | G | G | A | A | U | c | A | G | A | G | G | A | C | 52 | 3 | 9 | false | <90% | 4673 | |||
NM_153348 | FBXW8 | 820 | 838 | c | u | U | C | C | U | G | G | A | A | U | c | A | G | A | G | G | A | C | 52 | 3 | 9 | false | <90% | 4871 | |||
NM_005862 | STAG1 | 473 | 491 | G | A | a | g | C | U | G | G | A | A | U | U | A | G | A | G | G | A | g | 38 | 3 | 14 | bc | false | <90% | 5166 | ||
NM_004156 | PPP2CB | 1059 | 1077 | u | A | U | C | a | U | G | G | A | A | U | U | A | G | A | u | G | A | C | 20 | 3 | 10 | c | false | <90% | 1807 | ||
NM_001009552 | PPP2CB | 1239 | 1257 | u | A | U | C | a | U | G | G | A | A | U | U | A | G | A | u | G | A | C | 20 | 3 | 10 | c | false | <90% | 1987 | ||
NM_002078 | GOLGA4 | 4884 | 4902 | a | A | U | u | a | U | G | G | A | A | U | U | A | G | A | G | G | A | C | 9 | 3 | 14 | bc | false | <90% | 7717 | ||
NM_000493 | COL10A1 | 1328 | 1346 | G | A | U | C | C | U | G | G | A | g | U | U | g | G | A | G | G | A | C | 6 | 2 | 9 | false | <90% | 3307 | |||
NM_199242 | UNC13D | 946 | 964 | c | A | U | C | C | U | G | G | A | g | U | U | u | G | A | G | G | A | C | 4 | 3 | 8 | false | <90% | 4406 | |||
NM_001012277 | PRAMEF7 | 1054 | 1072 | G | A | c | C | C | U | G | G | A | c | U | U | A | G | A | G | G | A | C | -2 | 2 | 9 | bc | false | <90% | 1425 | ||
NM_001080830 | PRAMEF12 | 1081 | 1099 | G | A | c | C | C | U | G | G | A | c | U | U | A | G | A | G | G | A | C | -2 | 2 | 9 | bc | false | <90% | 1786 | ||
NM_001012276 | PRAMEF8 | 1137 | 1155 | G | A | c | C | C | U | G | G | A | c | U | U | A | G | A | G | G | A | C | -2 | 2 | 9 | bc | false | <90% | 1844 | ||
XM_001133777 | LOC729516 | 1137 | 1155 | G | A | c | C | C | U | G | G | A | c | U | U | A | G | A | G | G | A | C | -2 | 2 | 9 | bc | false | <90% | 1844 | ||
NM_031457 | MS4A8B | 59 | 77 | c | A | U | C | C | a | G | G | A | A | a | U | A | G | A | G | G | A | C | -26 | 3 | 8 | c | false | <90% | 1369 | ||
NM_020964 | KIAA1632 | 6017 | 6035 | G | A | U | C | C | U | G | G | u | u | U | U | A | G | A | G | G | A | C | -42 | 2 | 9 | bc | false | <90% | 12715 | ||
NM_015345 | DAAM2 | 2082 | 2100 | G | A | U | C | C | U | G | G | A | c | c | U | A | G | A | G | G | A | u | -49 | 3 | 9 | c | false | <90% | 6215 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 2095
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