Automatic recommendation
Not OK - siRNA is not specific
45 hits were found for GGCACUUCAGAGCCCACCA (32 guide strand hits and 13 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_022772 | EPS8L2 | 1662 | 1680 | c | c | C | A | C | U | U | C | A | G | A | G | C | C | C | A | C | C | c | 81 | 3 | 16 | abc | false | <90% | 3181 | ||
XM_001129221 | EPS8L2 | 1615 | 1633 | c | c | C | A | C | U | U | C | A | G | A | G | C | C | C | A | C | C | c | 81 | 3 | 16 | abc | false | <90% | 3203 | ||
NM_005186 | CAPN1 | 2611 | 2629 | c | c | C | A | C | U | U | C | A | G | A | G | g | C | C | A | C | C | c | 71 | 4 | 10 | false | <90% | 3007 | |||
NM_005488 | TOM1 | 1903 | 1921 | a | G | C | c | C | U | U | C | A | G | A | G | C | C | C | A | C | a | c | 53 | 4 | 13 | c | false | <90% | 2310 | ||
NM_031465 | C12orf32 | 573 | 591 | G | G | C | A | C | U | U | C | A | G | A | G | C | u | u | A | C | C | u | 50 | 3 | 13 | c | false | <90% | 1872 | ||
NM_002697 | POU2F1 | 1648 | 1666 | G | G | C | A | C | U | U | C | A | G | A | c | a | C | C | A | C | C | u | 50 | 3 | 11 | false | <90% | 2689 | |||
XR_017584 | LOC653557 | 1409 | 1427 | a | G | C | A | C | U | U | C | A | G | A | G | C | C | a | A | g | C | A | 49 | 3 | 13 | c | false | <90% | 1856 | ||
XR_019024 | LOC653960 | 1409 | 1427 | a | G | C | A | C | U | U | C | A | G | A | G | C | C | a | A | g | C | A | 49 | 3 | 13 | c | false | <90% | 1856 | ||
NM_014753 | BMS1 | 3757 | 3775 | a | G | C | A | C | U | U | C | A | G | A | G | C | C | a | A | g | C | A | 49 | 3 | 13 | c | false | <90% | 4225 | ||
NM_145260 | OSR1 | 1252 | 1270 | G | G | C | A | C | U | U | C | A | G | A | G | C | C | C | c | g | C | c | 45 | 3 | 15 | c | false | <90% | 1911 | ||
NM_032174 | TOMM40L | 1227 | 1245 | c | c | C | u | C | U | U | C | A | G | A | G | C | C | C | A | C | C | u | 44 | 4 | 14 | bc | false | <90% | 2713 | ||
XM_001128636 | LOC644397 | 922 | 940 | a | u | a | A | C | U | U | C | A | G | A | G | C | C | u | A | C | C | A | 42 | 4 | 11 | c | false | <90% | 2718 | ||
XR_019083 | LOC651250 | 712 | 730 | a | u | a | A | C | U | U | C | A | G | A | G | C | C | u | A | C | C | A | 42 | 4 | 11 | c | false | <90% | 5140 | ||
NM_001006607 | LRRC37A2 | 925 | 943 | a | u | a | A | C | U | U | C | A | G | A | G | C | C | u | A | C | C | A | 42 | 4 | 11 | c | false | <90% | 5175 | ||
NM_014834 | LRRC37A | 925 | 943 | a | u | a | A | C | U | U | C | A | G | A | G | C | C | u | A | C | C | A | 42 | 4 | 11 | c | false | <90% | 5177 | ||
NM_199340 | LRRC37A3 | 1453 | 1471 | a | u | a | A | C | U | U | C | A | G | A | G | C | C | u | A | C | C | A | 42 | 4 | 11 | c | false | <90% | 5665 | ||
XR_015906 | FLJ10120 | 980 | 998 | a | u | a | A | C | U | U | C | A | G | A | G | C | C | u | A | C | C | A | 42 | 4 | 11 | c | false | <90% | 7254 | ||
NM_031279 | AGXT2L1 | 526 | 544 | G | G | C | A | g | U | U | C | A | G | A | G | g | C | C | A | C | C | A | 38 | 2 | 7 | false | <90% | 2107 | |||
NM_001001561 | GGA1 | 654 | 672 | G | G | C | u | C | U | U | C | A | G | A | G | C | C | C | A | a | g | A | 37 | 3 | 12 | c | false | <90% | 1723 | ||
NM_021646 | ZNF500 | 1512 | 1530 | c | G | C | A | C | U | U | C | A | G | c | G | C | C | C | A | C | C | g | 31 | 3 | 9 | c | false | <90% | 3252 | ||
NM_017810 | ZNF434 | 2103 | 2121 | c | c | C | A | C | U | U | C | A | G | u | G | C | C | C | A | C | C | g | 20 | 4 | 8 | c | false | <90% | 3044 | ||
NM_015102 | NPHP4 | 4643 | 4661 | u | u | C | A | C | U | U | C | A | G | u | G | C | C | C | A | C | C | u | 20 | 4 | 8 | c | false | <90% | 5020 | ||
NM_024526 | EPS8L3 | 203 | 221 | c | u | C | A | C | c | U | C | A | G | A | G | C | C | C | A | C | C | c | 18 | 4 | 12 | bc | false | <90% | 2166 | ||
NM_133181 | EPS8L3 | 203 | 221 | c | u | C | A | C | c | U | C | A | G | A | G | C | C | C | A | C | C | c | 18 | 4 | 12 | bc | false | <90% | 2256 | ||
NM_139053 | EPS8L3 | 203 | 221 | c | u | C | A | C | c | U | C | A | G | A | G | C | C | C | A | C | C | c | 18 | 4 | 12 | bc | false | <90% | 2259 | ||
NM_001005332 | MAGED1 | 1049 | 1067 | a | G | C | A | C | g | U | C | A | G | A | G | C | C | C | u | C | C | A | 8 | 3 | 9 | c | false | <90% | 2665 | ||
NM_006986 | MAGED1 | 1144 | 1162 | a | G | C | A | C | g | U | C | A | G | A | G | C | C | C | u | C | C | A | 8 | 3 | 9 | c | false | <90% | 2760 | ||
NM_001005333 | MAGED1 | 1312 | 1330 | a | G | C | A | C | g | U | C | A | G | A | G | C | C | C | u | C | C | A | 8 | 3 | 9 | c | false | <90% | 2928 | ||
NM_001031839 | C8orf49 | 413 | 431 | c | G | C | A | C | U | g | C | A | G | A | G | C | C | C | c | C | C | A | 5 | 3 | 8 | c | false | <90% | 1971 | ||
NM_025055 | CCDC33 | 632 | 650 | G | u | g | A | C | c | U | C | A | G | A | G | C | C | C | A | C | C | A | 5 | 3 | 13 | bc | false | <90% | 2784 | ||
NM_016525 | UBAP1 | 1791 | 1809 | G | G | C | c | C | U | g | C | A | G | A | G | C | C | C | A | C | C | u | -8 | 3 | 11 | bc | false | <90% | 2757 | ||
NR_002770 | DIO3OS | 1070 | 1088 | G | G | C | A | C | a | U | C | c | G | A | G | C | C | C | A | C | C | u | -28 | 3 | 9 | bc | false | <90% | 3454 |
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_001005169 | OR52I1 | 630 | 648 | U | G | G | U | G | G | G | C | U | C | U | G | A | u | G | U | G | g | C | 77 | 2 | 13 | c | false | <90% | 975 | ||
NM_001005170 | OR52I2 | 708 | 726 | U | G | G | U | G | G | G | C | U | C | U | G | A | u | G | U | G | g | C | 77 | 2 | 13 | c | false | <90% | 1053 | ||
NM_138360 | C14orf121 | 835 | 853 | g | G | c | U | G | G | G | C | U | C | U | G | A | A | G | U | G | C | u | 73 | 3 | 15 | bc | false | <90% | 4604 | ||
NM_005446 | P2RXL1 | 2586 | 2604 | a | G | G | U | G | G | G | C | U | C | U | G | A | A | G | g | G | C | g | 66 | 3 | 14 | c | false | <90% | 3554 | ||
NM_014905 | GLS | 3359 | 3377 | U | G | G | U | G | G | G | C | U | C | U | G | u | A | G | U | u | u | a | 58 | 4 | 12 | false | <90% | 4799 | |||
XM_001134349 | LOC730176 | 270 | 288 | a | G | G | c | G | G | G | C | U | C | U | G | A | A | G | U | G | a | u | 53 | 4 | 13 | c | false | <90% | 1381 | ||
XM_001126010 | KIAA0146 | 1964 | 1982 | U | G | c | U | G | G | G | C | U | C | U | G | A | A | G | U | c | C | u | 51 | 3 | 13 | c | false | <90% | 3067 | ||
NM_001080394 | KIAA0146 | 2117 | 2135 | U | G | c | U | G | G | G | C | U | C | U | G | A | A | G | U | c | C | u | 51 | 3 | 13 | c | false | <90% | 3220 | ||
NM_138352 | SAMD1 | 1037 | 1055 | c | a | G | a | G | G | G | C | U | C | U | G | A | A | G | U | G | C | C | 49 | 3 | 15 | bc | false | <90% | 1617 | ||
NM_002832 | PTPN7 | 2628 | 2646 | U | G | G | g | G | G | G | C | U | C | U | c | A | A | G | U | G | C | C | 29 | 2 | 7 | false | <90% | 2805 | |||
NM_080588 | PTPN7 | 3086 | 3104 | U | G | G | g | G | G | G | C | U | C | U | c | A | A | G | U | G | C | C | 29 | 2 | 7 | false | <90% | 3263 | |||
NM_000302 | PLOD1 | 1137 | 1155 | U | G | G | U | G | G | G | C | c | C | U | G | A | g | G | U | G | C | g | 15 | 3 | 8 | c | false | <90% | 3004 | ||
NM_181714 | C6orf152 | 265 | 283 | a | G | G | U | G | G | G | C | U | u | U | G | A | A | G | U | G | g | g | 7 | 4 | 8 | c | false | <90% | 4733 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 1719
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