Automatic recommendation
Not OK - siRNA is not specific
91 hits were found for GGAAGAGGAAACAGGAGAU (71 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_182608 | ANKRD33 | 1543 | 1561 | a | G | A | A | G | A | G | G | A | A | A | C | A | G | G | A | G | g | a | 90 | 3 | 16 | ac | false | <90% | 1935 | ||
NM_002099 | GYPA | 275 | 293 | a | G | A | A | G | A | G | G | A | A | A | C | c | G | G | A | G | A | a | 82 | 3 | 11 | false | <90% | 2600 | |||
NM_017533 | MYH4 | 2939 | 2957 | a | G | A | A | G | A | G | G | A | A | A | C | u | G | G | A | G | g | a | 79 | 4 | 11 | false | <90% | 6016 | |||
NM_002470 | MYH3 | 2896 | 2914 | a | G | A | A | G | A | G | G | A | A | A | C | u | G | G | A | G | g | a | 79 | 4 | 11 | false | <90% | 6037 | |||
NM_005963 | MYH1 | 2922 | 2940 | a | G | A | A | G | A | G | G | A | A | A | C | u | G | G | A | G | g | a | 79 | 4 | 11 | false | <90% | 6038 | |||
NM_017534 | MYH2 | 2924 | 2942 | a | G | A | A | G | A | G | G | A | A | A | C | u | G | G | A | G | g | a | 79 | 4 | 11 | false | <90% | 6061 | |||
NM_018979 | WNK1 | 1437 | 1455 | c | c | A | A | G | A | G | G | A | A | A | C | A | G | G | A | G | u | a | 78 | 4 | 15 | ac | false | <90% | 7149 | ||
NM_014929 | FASTKD2 | 1031 | 1049 | u | u | A | A | G | A | G | G | A | A | A | C | u | G | G | A | G | A | U | 76 | 3 | 10 | false | <90% | 2908 | |||
NM_000607 | ORM1 | 653 | 671 | a | G | g | A | G | A | G | G | A | A | A | C | A | G | G | A | G | g | a | 70 | 4 | 14 | c | false | <90% | 803 | ||
NM_000608 | ORM2 | 691 | 709 | a | G | g | A | G | A | G | G | A | A | A | C | A | G | G | A | G | g | a | 70 | 4 | 14 | c | false | <90% | 844 | ||
NM_203472 | SELS | 751 | 769 | a | G | g | A | G | A | G | G | A | A | A | C | A | G | G | A | G | c | c | 70 | 4 | 14 | c | false | <90% | 1292 | ||
NM_052828 | TRIM10 | 1715 | 1733 | a | G | A | A | G | A | G | G | A | A | A | C | A | G | c | A | G | A | g | 68 | 3 | 13 | c | false | <90% | 3033 | ||
NM_001034845 | GALNT17 | 659 | 677 | u | G | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 68 | 3 | 13 | c | false | <90% | 3937 | ||
NM_001031723 | DNAJB14 | 738 | 756 | a | G | A | A | G | A | G | G | A | A | A | g | A | G | G | A | G | A | U | 64 | 2 | 10 | false | <90% | 1698 | |||
NM_024920 | DNAJB14 | 2741 | 2759 | a | G | A | A | G | A | G | G | A | A | A | g | A | G | G | A | G | A | U | 64 | 2 | 10 | false | <90% | 4802 | |||
NM_018085 | IPO9 | 7599 | 7617 | a | c | A | A | G | A | G | G | A | A | A | C | A | G | G | A | c | A | U | 63 | 3 | 14 | ac | false | <90% | 11416 | ||
NM_030806 | C1orf21 | 5211 | 5229 | a | G | A | A | G | A | G | G | A | A | A | a | A | G | G | A | G | c | U | 61 | 3 | 10 | false | <90% | 10308 | |||
XR_016467 | LOC127086 | 855 | 873 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 1696 | ||
XR_018426 | LOC648627 | 855 | 873 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 1696 | ||
XR_016349 | LOC442459 | 1031 | 1049 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 1855 | ||
XR_018440 | LOC442459 | 1031 | 1049 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 1855 | ||
XM_372262 | LOC389901 | 1023 | 1041 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 2119 | ||
NM_001469 | XRCC6 | 1060 | 1078 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 2156 | ||
XR_018330 | LOC389901 | 1350 | 1368 | G | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 58 | 3 | 12 | c | false | <90% | 2418 | ||
XR_018635 | LOC387703 | 1020 | 1038 | a | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 56 | 4 | 12 | c | false | <90% | 1882 | ||
XR_016730 | LOC387703 | 1020 | 1038 | a | a | A | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | g | 56 | 4 | 12 | c | false | <90% | 1882 | ||
NM_199351 | C1orf32 | 1909 | 1927 | a | G | A | A | G | A | G | G | A | A | A | a | A | G | G | A | G | c | c | 56 | 4 | 10 | false | <90% | 2572 | |||
NM_020638 | FGF23 | 1312 | 1330 | G | G | A | A | G | A | G | G | A | A | A | u | c | G | G | A | G | A | U | 55 | 2 | 11 | false | <90% | 3018 | |||
NM_001253 | CDC5L | 595 | 613 | u | G | A | A | G | A | G | G | A | A | A | C | A | a | c | A | G | A | U | 53 | 3 | 12 | c | false | <90% | 3012 | ||
NM_153703 | PODN | 1975 | 1993 | G | G | A | A | G | A | G | G | A | A | A | C | A | a | G | A | u | A | g | 51 | 3 | 13 | c | false | <90% | 3019 | ||
NM_014388 | C1orf107 | 595 | 613 | G | G | A | A | G | A | G | G | A | A | A | g | u | G | G | A | G | A | c | 50 | 3 | 11 | false | <90% | 8463 | |||
XM_001129009 | LOC728222 | 109 | 127 | G | G | c | A | G | A | G | G | A | A | A | C | A | G | G | A | u | g | a | 49 | 4 | 13 | c | false | <90% | 545 | ||
NM_001080534 | UNC13C | 1760 | 1778 | G | G | c | A | G | A | G | G | A | A | A | C | A | G | G | A | a | g | g | 49 | 4 | 13 | c | false | <90% | 8140 | ||
XM_941380 | UNC13C | 1760 | 1778 | G | G | c | A | G | A | G | G | A | A | A | C | A | G | G | A | a | g | g | 49 | 4 | 13 | c | false | <90% | 8145 | ||
NM_000748 | CHRNB2 | 5023 | 5041 | G | G | A | A | G | A | G | G | A | A | A | C | A | G | G | g | a | g | g | 42 | 4 | 15 | c | false | <90% | 5731 | ||
NM_144980 | C6orf118 | 1413 | 1431 | a | u | c | A | G | A | G | G | A | A | A | C | A | G | a | A | G | A | U | 42 | 4 | 11 | c | false | <90% | 1844 | ||
NM_006183 | NTS | 320 | 338 | a | G | c | u | G | A | G | G | A | A | A | C | A | G | G | A | G | A | a | 36 | 4 | 14 | bc | false | <90% | 1241 | ||
NM_198291 | SRC | 2241 | 2259 | G | G | A | A | G | A | G | G | A | A | c | C | A | G | G | A | G | A | a | 33 | 2 | 10 | c | false | <90% | 4044 | ||
NM_005417 | SRC | 2342 | 2360 | G | G | A | A | G | A | G | G | A | A | c | C | A | G | G | A | G | A | a | 33 | 2 | 10 | c | false | <90% | 4145 | ||
NM_173549 | C8orf47 | 1228 | 1246 | a | G | A | A | G | A | a | G | A | A | A | C | A | G | G | A | G | A | a | 26 | 3 | 11 | bc | false | <90% | 1550 | ||
NM_015055 | SWAP70 | 971 | 989 | a | G | A | A | G | A | a | G | A | A | A | C | A | G | G | A | G | u | g | 24 | 4 | 10 | c | false | <90% | 4848 | ||
NM_015540 | RPAP1 | 928 | 946 | G | c | A | A | G | A | G | c | A | A | A | C | A | G | G | A | G | A | g | 21 | 3 | 10 | bc | false | <90% | 4698 | ||
NM_174916 | UBR1 | 6981 | 6999 | a | G | A | A | u | A | G | G | A | A | A | C | A | G | a | A | G | A | U | 21 | 3 | 9 | c | false | <90% | 7758 | ||
XM_001126052 | CRSP2 | 905 | 923 | G | G | A | u | a | A | G | G | A | A | A | C | A | G | G | A | G | A | U | 11 | 2 | 14 | bc | false | <90% | 5034 | ||
NM_004229 | CRSP2 | 884 | 902 | G | G | A | u | a | A | G | G | A | A | A | C | A | G | G | A | G | A | U | 11 | 2 | 14 | bc | false | <90% | 7984 | ||
NM_138970 | NRXN3 | 455 | 473 | G | G | A | A | G | u | G | G | A | A | A | C | A | G | G | A | a | A | a | 8 | 3 | 10 | c | false | <90% | 4723 | ||
NM_001017420 | ESCO2 | 103 | 121 | G | G | A | A | G | A | G | G | A | A | g | C | A | G | G | A | u | u | c | 7 | 4 | 10 | c | false | <90% | 3376 | ||
NM_018171 | APPL2 | 2232 | 2250 | G | G | A | A | G | A | G | c | A | A | A | C | A | G | G | A | a | g | g | 6 | 4 | 8 | c | false | <90% | 3289 | ||
NM_004999 | MYO6 | 242 | 260 | G | a | u | A | G | u | G | G | A | A | A | C | A | G | G | A | G | A | U | 5 | 3 | 13 | bc | false | <90% | 8662 | ||
NM_021244 | RRAGD | 1339 | 1357 | G | G | A | A | G | A | G | G | A | A | g | a | A | G | G | A | G | A | U | 4 | 2 | 10 | false | <90% | 1450 | |||
NR_001558 | C20orf56 | 2760 | 2778 | a | G | A | A | G | A | G | G | u | A | A | a | A | G | G | A | G | A | U | 4 | 3 | 7 | false | <90% | 18090 | |||
NM_012099 | CD3EAP | 1006 | 1024 | G | G | A | A | G | A | a | G | A | A | A | a | A | G | G | A | G | A | U | 0 | 2 | 7 | false | <90% | 3286 | |||
NM_152381 | CMYA3 | 5058 | 5076 | G | G | A | A | G | A | u | G | A | A | A | a | A | G | G | A | G | A | U | 0 | 2 | 7 | false | <90% | 12618 | |||
XM_001127536 | LOC730867 | 204 | 222 | G | G | A | A | G | A | G | G | A | A | g | a | A | G | G | A | G | A | a | 0 | 3 | 10 | false | <90% | 465 | |||
XM_001127135 | LOC728306 | 789 | 807 | G | G | A | A | G | A | G | G | A | A | g | a | A | G | G | A | G | A | a | 0 | 3 | 10 | false | <90% | 1050 | |||
NM_170753 | PGBD3 | 369 | 387 | u | G | A | u | G | A | G | G | A | A | u | C | A | G | G | A | G | A | U | 0 | 3 | 8 | c | false | <90% | 2198 | ||
NM_152298 | NASP | 447 | 465 | G | G | A | A | G | A | G | G | A | A | g | a | A | G | G | A | G | A | a | 0 | 3 | 10 | false | <90% | 2306 | |||
NM_002482 | NASP | 447 | 465 | G | G | A | A | G | A | G | G | A | A | g | a | A | G | G | A | G | A | a | 0 | 3 | 10 | false | <90% | 3323 | |||
NM_172164 | NASP | 520 | 538 | G | G | A | A | G | A | G | G | A | A | g | a | A | G | G | A | G | A | a | 0 | 3 | 10 | false | <90% | 3396 | |||
NM_006600 | NUDC | 1033 | 1051 | a | a | c | A | G | A | a | G | A | A | A | C | A | G | G | A | G | A | U | 0 | 4 | 12 | bc | false | <90% | 1397 | ||
NM_001012754 | LOC387921 | 832 | 850 | u | G | u | A | G | A | G | G | A | c | A | C | A | G | G | A | G | A | U | -4 | 3 | 9 | bc | false | <90% | 3572 | ||
NM_144575 | CAPN13 | 2441 | 2459 | G | G | A | A | a | A | G | G | A | A | g | C | A | G | G | A | G | A | U | -12 | 2 | 8 | c | false | <90% | 2690 | ||
NM_005541 | INPP5D | 465 | 483 | G | G | A | A | G | A | G | G | A | c | A | C | A | G | G | c | G | A | c | -13 | 3 | 9 | c | false | <90% | 4925 | ||
NM_001017915 | INPP5D | 465 | 483 | G | G | A | A | G | A | G | G | A | c | A | C | A | G | G | c | G | A | c | -13 | 3 | 9 | c | false | <90% | 4928 | ||
NM_000506 | F2 | 916 | 934 | G | G | A | g | G | A | G | G | A | g | A | C | A | G | G | A | G | A | U | -19 | 2 | 9 | bc | false | <90% | 1997 | ||
NM_152272 | CHMP7 | 2085 | 2103 | G | G | A | A | G | A | G | G | A | g | A | a | A | G | G | A | G | A | a | -21 | 3 | 9 | false | <90% | 3399 | |||
NM_016953 | PDE11A | 401 | 419 | G | G | A | A | G | g | G | G | A | A | g | C | A | G | G | A | G | A | U | -24 | 2 | 8 | c | false | <90% | 9285 | ||
XR_016702 | LOC442664 | 811 | 829 | G | G | A | A | G | A | u | G | A | A | g | C | A | G | G | A | G | A | g | -32 | 3 | 7 | c | false | <90% | 1082 | ||
XR_018452 | LOC442664 | 811 | 829 | G | G | A | A | G | A | u | G | A | A | g | C | A | G | G | A | G | A | g | -32 | 3 | 7 | c | false | <90% | 1082 | ||
XR_018028 | LOC442292 | 811 | 829 | G | G | A | A | G | A | u | G | A | A | g | C | A | G | G | A | G | A | g | -32 | 3 | 7 | c | false | <90% | 1082 | ||
NM_053002 | MED12L | 2356 | 2374 | G | G | A | A | G | A | a | c | A | A | A | C | A | G | G | A | G | A | c | -33 | 3 | 10 | bc | false | <90% | 7694 |
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_024690 | MUC16 | 25039 | 25057 | u | U | C | U | C | C | U | G | U | U | U | C | C | U | C | U | a | C | a | 69 | 3 | 15 | ac | false | <90% | 43816 | ||
NM_207514 | FLJ20186 | 3259 | 3277 | c | U | g | U | C | C | U | G | U | U | U | C | C | c | C | U | U | C | C | 58 | 3 | 10 | c | false | <90% | 3724 | ||
NM_181784 | SPRED2 | 1770 | 1788 | A | U | u | U | C | C | U | G | U | U | U | C | C | U | C | c | U | C | C | 54 | 2 | 12 | c | false | <90% | 4119 | ||
NM_002716 | PPP2R1B | 5381 | 5399 | c | U | C | U | C | C | U | c | U | U | U | C | C | U | C | U | U | C | C | 35 | 2 | 11 | bc | false | <90% | 5605 | ||
NM_001012264 | RNASE13 | 1203 | 1221 | c | U | C | U | C | C | U | G | c | U | U | C | C | U | C | U | U | a | C | 35 | 3 | 8 | c | false | <90% | 1607 | ||
NM_006096 | NDRG1 | 2585 | 2603 | c | U | C | U | C | C | U | G | c | U | U | C | C | U | C | U | U | u | u | 30 | 4 | 8 | c | false | <90% | 3074 | ||
NM_014805 | EPM2AIP1 | 4924 | 4942 | c | U | C | U | C | a | U | G | U | U | U | C | C | U | C | U | U | u | g | 27 | 4 | 11 | c | false | <90% | 5567 | ||
NM_014553 | TFCP2L1 | 3011 | 3029 | g | g | C | U | C | C | U | G | a | U | U | C | C | U | C | U | U | C | C | 26 | 3 | 10 | bc | false | <90% | 4909 | ||
NM_001940 | ATN1 | 1309 | 1327 | g | c | C | U | C | C | U | G | c | U | U | C | C | U | C | U | U | C | u | 21 | 4 | 9 | bc | false | <90% | 4360 | ||
NM_001007026 | ATN1 | 1316 | 1334 | g | c | C | U | C | C | U | G | c | U | U | C | C | U | C | U | U | C | u | 21 | 4 | 9 | bc | false | <90% | 4367 | ||
NM_001031672 | LOC606495 | 1250 | 1268 | g | a | C | U | C | C | U | a | U | U | U | C | C | U | C | U | U | C | u | 19 | 4 | 10 | bc | false | <90% | 3551 | ||
NM_006856 | ATF7 | 2082 | 2100 | g | U | u | U | C | C | U | u | U | U | U | C | C | U | C | U | U | C | C | 16 | 3 | 11 | bc | false | <90% | 2758 | ||
NM_030648 | SETD7 | 3919 | 3937 | c | U | C | U | C | C | U | G | U | U | c | C | C | U | g | U | U | C | C | 11 | 3 | 9 | c | false | <90% | 7012 | ||
NM_001004297 | OR13A1 | 447 | 465 | u | U | C | a | g | C | U | G | U | U | U | C | C | U | C | U | U | C | C | 9 | 3 | 14 | bc | false | <90% | 2078 | ||
NM_182580 | CYB561D1 | 2548 | 2566 | A | U | C | U | C | C | U | c | U | U | U | C | C | U | C | a | U | C | a | 6 | 3 | 7 | c | false | <90% | 3321 | ||
NM_023071 | SPATS2 | 1580 | 1598 | c | U | C | U | g | C | U | G | c | U | U | C | C | U | C | U | U | C | C | -13 | 3 | 10 | bc | false | <90% | 2992 | ||
NM_001148 | ANK2 | 5507 | 5525 | c | U | C | U | a | C | U | c | U | U | U | C | C | U | C | U | U | C | C | -15 | 3 | 11 | bc | false | <90% | 14166 | ||
NM_001018059 | LOC440348 | 720 | 738 | A | U | C | U | C | C | U | G | g | U | c | C | C | U | C | U | U | C | C | -21 | 2 | 8 | c | false | <90% | 1184 | ||
NM_004884 | PUNC | 2210 | 2228 | A | U | C | U | u | C | U | G | U | g | U | C | C | U | C | U | U | C | C | -34 | 2 | 9 | bc | false | <90% | 4491 | ||
NM_020843 | ZNF291 | 3595 | 3613 | c | U | C | U | a | C | U | G | U | g | U | C | C | U | C | U | U | C | C | -36 | 3 | 9 | bc | false | <90% | 4703 |
3 prime UTR Seed matches
Hits to same gene : 0
Hits to other genes : 3576
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