Ribonuclease H protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| RBD_RDR6 | PF24572 | 10 - 111 | 9.7e-33 | RNA-dependent RNA polymerase 6, RNA-binding domain |
| RDR6_2nd | PF24577 | 131 - 294 | 7.7e-84 | RNA-dependent RNA polymerase 6 second domain |
| PH_RDR2 | PF24823 | 194 - 289 | 5e-06 | RDR2 PH-like domain |
| RdRP_helical | PF26252 | 318 - 400 | 2.8e-23 | RNA dependent RNA polymerase, helical domain |
| RdRP | PF05183 | 418 - 1000 | 3.2e-194 | RNA dependent RNA polymerase |
| RdRP_head | PF26253 | 1023 - 1185 | 4.8e-45 | RdRP, head domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 2 cut(s) | 2015, 3138 |
| Acc36I | ACCTGC | 1 cut(s) | 2171 |
| Acc65I | GGTACC | 1 cut(s) | 3387 |
| AccB1I | GGYRCC | 1 cut(s) | 3387 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 470 |
| AccBSI | CCGCTC | 1 cut(s) | 3259 |
| AccI | GTMKAC | 5 cut(s) | 90, 1679, 2230, 2357, 2966 |
| AccII | CGCG | 1 cut(s) | 829 |
| AciI | CCGC | 5 cut(s) | 827, 829, 2238, 2800, 3259 |
| AclI | AACGTT | 1 cut(s) | 1638 |
| AclWI | GGATC | 8 cut(s) | 485, 498, 743, 944, 1784, 1823, 3084, 3515 |
| AcoI | YGGCCR | 1 cut(s) | 1886 |
| AcsI | RAATTY | 7 cut(s) | 346, 381, 512, 617, 1381, 1396, 2973 |
| AcuI | CTGAAG | 4 cut(s) | 866, 1254, 1596, 3305 |
| AcyI | GRCGYC | 1 cut(s) | 2701 |
| AdeI | CACNNNGTG | 2 cut(s) | 1838, 2036 |
| AfaI | GTAC | 5 cut(s) | 1517, 2325, 2960, 3389, 3575 |
| AflIII | ACRYGT | 2 cut(s) | 2782, 3205 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 2953 |
| AjuI | GAANNNNNNNTTGG | 6 cut(s) | 93, 125, 317, 349, 1594, 1626 |
| AleI | CACNNNNGTG | 1 cut(s) | 2111 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 411, 443 |
| Alw21I | GWGCWC | 3 cut(s) | 180, 3134, 3283 |
| Alw26I | GTCTC | 3 cut(s) | 165, 2063, 2977 |
| AlwI | GGATC | 8 cut(s) | 485, 498, 743, 944, 1784, 1823, 3084, 3515 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 269, 2098 |
| Ama87I | CYCGRG | 1 cut(s) | 257 |
| ApaI | GGGCCC | 1 cut(s) | 341 |
| ApoI | RAATTY | 7 cut(s) | 346, 381, 512, 617, 1381, 1396, 2973 |
| ArsI | GACNNNNNNTTYG | 4 cut(s) | 1046, 1078, 2594, 2626 |
| AseI | ATTAAT | 1 cut(s) | 1590 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 3293 |
| Asp718I | GGTACC | 1 cut(s) | 3387 |
| AspA2I | CCTAGG | 1 cut(s) | 908 |
| AspLEI | GCGC | 2 cut(s) | 294, 3522 |
| AspS9I | GGNCC | 9 cut(s) | 147, 337, 338, 461, 1476, 1552, 1948, 2602, 3449 |
| AsuC2I | CCSGG | 1 cut(s) | 1136 |
| AsuHPI | GGTGA | 8 cut(s) | 666, 1261, 1771, 1910, 2761, 3406, 3427, 3475 |
| AvaI | CYCGRG | 1 cut(s) | 257 |
| AvaII | GGWCC | 4 cut(s) | 147, 1552, 1948, 2602 |
| AvrII | CCTAGG | 1 cut(s) | 908 |
| BaeGI | GKGCMC | 1 cut(s) | 341 |
| BalI | TGGCCA | 1 cut(s) | 1888 |
| BamHI | GGATCC | 1 cut(s) | 490 |
| BanI | GGYRCC | 1 cut(s) | 3387 |
| BanII | GRGCYC | 2 cut(s) | 180, 341 |
| BbsI | GAAGAC | 2 cut(s) | 1268, 1584 |
| Bbv12I | GWGCWC | 3 cut(s) | 180, 3134, 3283 |
| BceAI | ACGGC | 2 cut(s) | 1072, 3507 |
| BciVI | GTATCC | 1 cut(s) | 3313 |
| BclI | TGATCA | 4 cut(s) | 712, 2404, 3142, 3346 |
| BcnI | CCSGG | 1 cut(s) | 1136 |
| BcoDI | GTCTC | 3 cut(s) | 165, 2063, 2977 |
| BfaI | CTAG | 9 cut(s) | 434, 780, 909, 1656, 1926, 1980, 2397, 2594, 2840 |
| BfmI | CTRYAG | 6 cut(s) | 189, 2160, 2679, 3096, 3149, 3251 |
| BfoI | RGCGCY | 2 cut(s) | 295, 3523 |
| BfuAI | ACCTGC | 1 cut(s) | 2171 |
| BfuI | GTATCC | 1 cut(s) | 3313 |
| BglII | AGATCT | 1 cut(s) | 82 |
| BlnI | CCTAGG | 1 cut(s) | 908 |
| BlpI | GCTNAGC | 2 cut(s) | 840, 2145 |
| BmcAI | AGTACT | 1 cut(s) | 1517 |
| Bme18I | GGWCC | 4 cut(s) | 147, 1552, 1948, 2602 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 2953 |
| BmeT110I | CYCGRG | 1 cut(s) | 257 |
| BmgT120I | GGNCC | 9 cut(s) | 147, 337, 338, 461, 1476, 1552, 1948, 2602, 3449 |
| BmrI | ACTGGG | 2 cut(s) | 2889, 3048 |
| BmsI | GCATC | 7 cut(s) | 1135, 2085, 2144, 2494, 2995, 3103, 3386 |
| BmuI | ACTGGG | 2 cut(s) | 2889, 3048 |
| BpiI | GAAGAC | 2 cut(s) | 1268, 1584 |
| BpmI | CTGGAG | 2 cut(s) | 138, 3101 |
| Bpu1102I | GCTNAGC | 2 cut(s) | 840, 2145 |
| BpuEI | CTTGAG | 4 cut(s) | 24, 293, 431, 2348 |
| BpuMI | CCSGG | 1 cut(s) | 1136 |
| BsaAI | YACGTR | 1 cut(s) | 2645 |
| BsaBI | GATNNNNATC | 5 cut(s) | 711, 2418, 2628, 3075, 3512 |
| BsaHI | GRCGYC | 1 cut(s) | 2701 |
| BsaJI | CCNNGG | 8 cut(s) | 677, 752, 827, 908, 1710, 2510, 2761, 3451 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 3113, 3143, 3447, 3477 |
| Bse1I | ACTGG | 5 cut(s) | 1045, 2338, 2884, 2953, 3054 |
| Bse3DI | GCAATG | 3 cut(s) | 1800, 2018, 2782 |
| Bse8I | GATNNNNATC | 5 cut(s) | 711, 2418, 2628, 3075, 3512 |
| BseDI | CCNNGG | 8 cut(s) | 677, 752, 827, 908, 1710, 2510, 2761, 3451 |
| BseJI | GATNNNNATC | 5 cut(s) | 711, 2418, 2628, 3075, 3512 |
| BseMI | GCAATG | 3 cut(s) | 1800, 2018, 2782 |
| BseMII | CTCAG | 9 cut(s) | 333, 1064, 1175, 1460, 1538, 2136, 2201, 2561, 3027 |
| BseNI | ACTGG | 5 cut(s) | 1045, 2338, 2884, 2953, 3054 |
| BseRI | GAGGAG | 3 cut(s) | 382, 385, 3203 |
| BseSI | GKGCMC | 1 cut(s) | 341 |
| BseYI | CCCAGC | 1 cut(s) | 2655 |
| BsgI | GTGCAG | 1 cut(s) | 2199 |
| Bsh1236I | CGCG | 1 cut(s) | 829 |
| BshNI | GGYRCC | 1 cut(s) | 3387 |
| BsiHKAI | GWGCWC | 3 cut(s) | 180, 3134, 3283 |
| BsiHKCI | CYCGRG | 1 cut(s) | 257 |
| BsiSI | CCGG | 2 cut(s) | 1136, 1909 |
| BslFI | GGGAC | 4 cut(s) | 517, 1565, 2265, 2615 |
| BsmAI | GTCTC | 3 cut(s) | 165, 2063, 2977 |
| BsmFI | GGGAC | 4 cut(s) | 517, 1565, 2265, 2615 |
| BsmI | GAATGC | 3 cut(s) | 286, 1374, 3268 |
| BsoBI | CYCGRG | 1 cut(s) | 257 |
| Bsp120I | GGGCCC | 1 cut(s) | 337 |
| Bsp1286I | GDGCHC | 4 cut(s) | 180, 341, 3134, 3283 |
| Bsp1720I | GCTNAGC | 2 cut(s) | 840, 2145 |
| BspACI | CCGC | 5 cut(s) | 827, 829, 2238, 2800, 3259 |
| BspCNI | CTCAG | 9 cut(s) | 334, 1065, 1176, 1459, 1539, 2137, 2202, 2560, 3028 |
| BspFNI | CGCG | 1 cut(s) | 829 |
| BspMAI | CTGCAG | 5 cut(s) | 193, 2164, 2683, 3100, 3255 |
| BspMI | ACCTGC | 1 cut(s) | 2171 |
| BspPI | GGATC | 8 cut(s) | 485, 498, 743, 944, 1784, 1823, 3084, 3515 |
| BspQI | GCTCTTC | 1 cut(s) | 2645 |
| BspT107I | GGYRCC | 1 cut(s) | 3387 |
| BsrBI | CCGCTC | 1 cut(s) | 3259 |
| BsrDI | GCAATG | 3 cut(s) | 1800, 2018, 2782 |
| BsrI | ACTGG | 5 cut(s) | 1045, 2338, 2884, 2953, 3054 |
| BssECI | CCNNGG | 8 cut(s) | 677, 752, 827, 908, 1710, 2510, 2761, 3451 |
| BssNAI | GTATAC | 1 cut(s) | 2231 |
| BssNI | GRCGYC | 1 cut(s) | 2701 |
| BssT1I | CCWWGG | 3 cut(s) | 677, 752, 908 |
| Bst1107I | GTATAC | 1 cut(s) | 2231 |
| Bst4CI | ACNGT | 6 cut(s) | 31, 1556, 1693, 2378, 3168, 3278 |
| Bst6I | CTCTTC | 5 cut(s) | 168, 520, 2645, 3037, 3180 |
| BstACI | GRCGYC | 1 cut(s) | 2701 |
| BstAPI | GCANNNNNTGC | 4 cut(s) | 1649, 2141, 2504, 3000 |
| BstBAI | YACGTR | 1 cut(s) | 2645 |
| BstC8I | GCNNGC | 1 cut(s) | 666 |
| BstDSI | CCRYGG | 1 cut(s) | 827 |
| BstEII | GGTNACC | 1 cut(s) | 1348 |
| BstENI | CCTNNNNNAGG | 2 cut(s) | 1153, 2550 |
| BstFNI | CGCG | 1 cut(s) | 829 |
| BstH2I | RGCGCY | 2 cut(s) | 295, 3523 |
| BstHHI | GCGC | 2 cut(s) | 294, 3522 |
| BstMAI | GTCTC | 3 cut(s) | 165, 2063, 2977 |
| BstNSI | RCATGY | 6 cut(s) | 236, 510, 2221, 2527, 2786, 3209 |
| BstPI | GGTNACC | 1 cut(s) | 1348 |
| BstSFI | CTRYAG | 6 cut(s) | 189, 2160, 2679, 3096, 3149, 3251 |
| BstSLI | GKGCMC | 1 cut(s) | 341 |
| BstUI | CGCG | 1 cut(s) | 829 |
| BstV2I | GAAGAC | 2 cut(s) | 1268, 1584 |
| BstX2I | RGATCY | 5 cut(s) | 82, 490, 949, 1828, 3076 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1219 |
| BstYI | RGATCY | 5 cut(s) | 82, 490, 949, 1828, 3076 |
| BstZ17I | GTATAC | 1 cut(s) | 2231 |
| BsuI | GTATCC | 1 cut(s) | 3313 |
| BtgI | CCRYGG | 1 cut(s) | 827 |
| BtgZI | GCGATG | 2 cut(s) | 2349, 3018 |
| BtsI | GCAGTG | 2 cut(s) | 2130, 2809 |
| BveI | ACCTGC | 1 cut(s) | 2171 |
| Cac8I | GCNNGC | 1 cut(s) | 666 |
| CaiI | CAGNNNCTG | 2 cut(s) | 269, 2098 |
| CfoI | GCGC | 2 cut(s) | 294, 3522 |
| Cfr13I | GGNCC | 9 cut(s) | 147, 337, 338, 461, 1476, 1552, 1948, 2602, 3449 |
| Cfr42I | CCGCGG | 1 cut(s) | 830 |
| CseI | GACGC | 2 cut(s) | 395, 2690 |
| CsiI | ACCWGGT | 1 cut(s) | 3390 |
| Csp6I | GTAC | 5 cut(s) | 1516, 2324, 2959, 3388, 3574 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 3392, 3427 |
| CviQI | GTAC | 5 cut(s) | 1516, 2324, 2959, 3388, 3574 |
| DraI | TTTAAA | 3 cut(s) | 547, 622, 1035 |
| DraIII | CACNNNGTG | 2 cut(s) | 1838, 2036 |
| DriI | GACNNNNNGTC | 1 cut(s) | 2953 |
| EaeI | YGGCCR | 1 cut(s) | 1886 |
| Eam1104I | CTCTTC | 5 cut(s) | 168, 520, 2645, 3037, 3180 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 2953 |
| EarI | CTCTTC | 5 cut(s) | 168, 520, 2645, 3037, 3180 |
| Ecl136II | GAGCTC | 1 cut(s) | 178 |
| Eco130I | CCWWGG | 3 cut(s) | 677, 752, 908 |
| Eco147I | AGGCCT | 2 cut(s) | 1924, 2563 |
| Eco24I | GRGCYC | 2 cut(s) | 180, 341 |
| Eco47I | GGWCC | 4 cut(s) | 147, 1552, 1948, 2602 |
| Eco53kI | GAGCTC | 1 cut(s) | 178 |
| Eco57I | CTGAAG | 4 cut(s) | 866, 1254, 1596, 3305 |
| Eco88I | CYCGRG | 1 cut(s) | 257 |
| Eco91I | GGTNACC | 1 cut(s) | 1348 |
| EcoICRI | GAGCTC | 1 cut(s) | 178 |
| EcoNI | CCTNNNNNAGG | 2 cut(s) | 1153, 2550 |
| EcoO109I | RGGNCCY | 2 cut(s) | 338, 2602 |
| EcoO65I | GGTNACC | 1 cut(s) | 1348 |
| EcoRI | GAATTC | 2 cut(s) | 346, 1396 |
| EcoT14I | CCWWGG | 3 cut(s) | 677, 752, 908 |
| EcoT22I | ATGCAT | 2 cut(s) | 238, 2529 |
| EcoT38I | GRGCYC | 2 cut(s) | 180, 341 |
| ErhI | CCWWGG | 3 cut(s) | 677, 752, 908 |
| FaqI | GGGAC | 4 cut(s) | 517, 1565, 2265, 2615 |
| FauNDI | CATATG | 1 cut(s) | 1684 |
| FbaI | TGATCA | 4 cut(s) | 712, 2404, 3142, 3346 |
| FblI | GTMKAC | 5 cut(s) | 90, 1679, 2230, 2357, 2966 |
| FriOI | GRGCYC | 2 cut(s) | 180, 341 |
| FspBI | CTAG | 9 cut(s) | 434, 780, 909, 1656, 1926, 1980, 2397, 2594, 2840 |
| GlaI | GCGC | 2 cut(s) | 293, 3521 |
| GsaI | CCCAGC | 1 cut(s) | 2659 |
| GsuI | CTGGAG | 2 cut(s) | 138, 3101 |
| HaeII | RGCGCY | 2 cut(s) | 295, 3523 |
| HapII | CCGG | 2 cut(s) | 1136, 1909 |
| HgaI | GACGC | 2 cut(s) | 395, 2690 |
| HhaI | GCGC | 2 cut(s) | 294, 3522 |
| Hin1I | GRCGYC | 1 cut(s) | 2701 |
| Hin6I | GCGC | 2 cut(s) | 292, 3520 |
| HinP1I | GCGC | 2 cut(s) | 292, 3520 |
| HincII | GTYRAC | 2 cut(s) | 299, 2223 |
| HindII | GTYRAC | 2 cut(s) | 299, 2223 |
| HindIII | AAGCTT | 3 cut(s) | 1196, 2577, 3472 |
| HpaII | CCGG | 2 cut(s) | 1136, 1909 |
| HphI | GGTGA | 8 cut(s) | 666, 1261, 1771, 1910, 2761, 3406, 3427, 3475 |
| Hpy166II | GTNNAC | 8 cut(s) | 91, 299, 1680, 2104, 2223, 2231, 2358, 2967 |
| Hpy8I | GTNNAC | 8 cut(s) | 91, 299, 1680, 2104, 2223, 2231, 2358, 2967 |
| HpyCH4III | ACNGT | 6 cut(s) | 31, 1556, 1693, 2378, 3168, 3278 |
| HpyCH4IV | ACGT | 2 cut(s) | 1638, 2644 |
| HpySE526I | ACGT | 2 cut(s) | 1638, 2644 |
| Hsp92I | GRCGYC | 1 cut(s) | 2701 |
| HspAI | GCGC | 2 cut(s) | 292, 3520 |
| KpnI | GGTACC | 1 cut(s) | 3391 |
| Ksp22I | TGATCA | 4 cut(s) | 712, 2404, 3142, 3346 |
| KspI | CCGCGG | 1 cut(s) | 830 |
| LguI | GCTCTTC | 1 cut(s) | 2645 |
| LmnI | GCTCC | 5 cut(s) | 1414, 2765, 2813, 3247, 3256 |
| LweI | GCATC | 7 cut(s) | 1135, 2085, 2144, 2494, 2995, 3103, 3386 |
| MabI | ACCWGGT | 1 cut(s) | 3390 |
| MaeI | CTAG | 9 cut(s) | 434, 780, 909, 1656, 1926, 1980, 2397, 2594, 2840 |
| MaeII | ACGT | 2 cut(s) | 1638, 2644 |
| MbiI | CCGCTC | 1 cut(s) | 3259 |
| MfeI | CAATTG | 1 cut(s) | 789 |
| MflI | RGATCY | 5 cut(s) | 82, 490, 949, 1828, 3076 |
| MhlI | GDGCHC | 4 cut(s) | 180, 341, 3134, 3283 |
| MlsI | TGGCCA | 1 cut(s) | 1888 |
| MluNI | TGGCCA | 1 cut(s) | 1888 |
| MlyI | GAGTC | 6 cut(s) | 167, 269, 1952, 2979, 3341, 3536 |
| MmeI | TCCRAC | 3 cut(s) | 717, 1323, 1926 |
| Mox20I | TGGCCA | 1 cut(s) | 1888 |
| Mph1103I | ATGCAT | 2 cut(s) | 238, 2529 |
| MroXI | GAANNNNTTC | 1 cut(s) | 3293 |
| MscI | TGGCCA | 1 cut(s) | 1888 |
| MslI | CAYNNNNRTG | 5 cut(s) | 1221, 1484, 2111, 2526, 2571 |
| Msp20I | TGGCCA | 1 cut(s) | 1888 |
| MspA1I | CMGCKG | 2 cut(s) | 829, 3491 |
| MspI | CCGG | 2 cut(s) | 1136, 1909 |
| MunI | CAATTG | 1 cut(s) | 789 |
| Mva1269I | GAATGC | 3 cut(s) | 286, 1374, 3268 |
| MvnI | CGCG | 1 cut(s) | 829 |
| NciI | CCSGG | 1 cut(s) | 1136 |
| NdeI | CATATG | 1 cut(s) | 1684 |
| NmuCI | GTSAC | 9 cut(s) | 265, 2588, 2614, 2707, 3056, 3196, 3333, 3394, 3423 |
| NsiI | ATGCAT | 2 cut(s) | 238, 2529 |
| NspI | RCATGY | 6 cut(s) | 236, 510, 2221, 2527, 2786, 3209 |
| OliI | CACNNNNGTG | 1 cut(s) | 2111 |
| PceI | AGGCCT | 2 cut(s) | 1924, 2563 |
| PciI | ACATGT | 2 cut(s) | 2782, 3205 |
| PciSI | GCTCTTC | 1 cut(s) | 2645 |
| PctI | GAATGC | 3 cut(s) | 286, 1374, 3268 |
| PdmI | GAANNNNTTC | 1 cut(s) | 3293 |
| PfeI | GAWTC | 5 cut(s) | 913, 1207, 1602, 2458, 2488 |
| PflFI | GACNNNGTC | 1 cut(s) | 29 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 470 |
| PfoI | TCCNGGA | 1 cut(s) | 2473 |
| PleI | GAGTC | 6 cut(s) | 166, 268, 1951, 2979, 3340, 3536 |
| PpsI | GAGTC | 6 cut(s) | 166, 268, 1951, 2979, 3340, 3536 |
| Ppu21I | YACGTR | 1 cut(s) | 2645 |
| PpuMI | RGGWCCY | 1 cut(s) | 2602 |
| PscI | ACATGT | 2 cut(s) | 2782, 3205 |
| PshBI | ATTAAT | 1 cut(s) | 1590 |
| PsiI | TTATAA | 2 cut(s) | 2015, 3138 |
| Psp124BI | GAGCTC | 1 cut(s) | 180 |
| Psp1406I | AACGTT | 1 cut(s) | 1638 |
| Psp5II | RGGWCCY | 1 cut(s) | 2602 |
| PspEI | GGTNACC | 1 cut(s) | 1348 |
| PspFI | CCCAGC | 1 cut(s) | 2655 |
| PspOMI | GGGCCC | 1 cut(s) | 337 |
| PspPI | GGNCC | 9 cut(s) | 147, 337, 338, 461, 1476, 1552, 1948, 2602, 3449 |
| PspPPI | RGGWCCY | 1 cut(s) | 2602 |
| PstI | CTGCAG | 5 cut(s) | 193, 2164, 2683, 3100, 3255 |
| PstNI | CAGNNNCTG | 2 cut(s) | 269, 2098 |
| PsuI | RGATCY | 5 cut(s) | 82, 490, 949, 1828, 3076 |
| PsyI | GACNNNGTC | 1 cut(s) | 29 |
| PvuII | CAGCTG | 1 cut(s) | 3491 |
| RsaI | GTAC | 5 cut(s) | 1517, 2325, 2960, 3389, 3575 |
| RsaNI | GTAC | 5 cut(s) | 1516, 2324, 2959, 3388, 3574 |
| RseI | CAYNNNNRTG | 5 cut(s) | 1221, 1484, 2111, 2526, 2571 |
| SacI | GAGCTC | 1 cut(s) | 180 |
| SacII | CCGCGG | 1 cut(s) | 830 |
| SapI | GCTCTTC | 1 cut(s) | 2645 |
| Sau96I | GGNCC | 9 cut(s) | 147, 337, 338, 461, 1476, 1552, 1948, 2602, 3449 |
| ScaI | AGTACT | 1 cut(s) | 1517 |
| SchI | GAGTC | 6 cut(s) | 167, 269, 1952, 2979, 3341, 3536 |
| SduI | GDGCHC | 4 cut(s) | 180, 341, 3134, 3283 |
| SexAI | ACCWGGT | 1 cut(s) | 3390 |
| SfaNI | GCATC | 7 cut(s) | 1135, 2085, 2144, 2494, 2995, 3103, 3386 |
| SfcI | CTRYAG | 6 cut(s) | 189, 2160, 2679, 3096, 3149, 3251 |
| Sfr303I | CCGCGG | 1 cut(s) | 830 |
| SgrBI | CCGCGG | 1 cut(s) | 830 |
| SinI | GGWCC | 4 cut(s) | 147, 1552, 1948, 2602 |
| SmiMI | CAYNNNNRTG | 5 cut(s) | 1221, 1484, 2111, 2526, 2571 |
| SmlI | CTYRAG | 4 cut(s) | 39, 308, 410, 2327 |
| SmoI | CTYRAG | 4 cut(s) | 39, 308, 410, 2327 |
| SseBI | AGGCCT | 2 cut(s) | 1924, 2563 |
| SsiI | CCGC | 5 cut(s) | 827, 829, 2238, 2800, 3259 |
| SspI | AATATT | 3 cut(s) | 982, 2052, 3538 |
| SspMI | CTAG | 9 cut(s) | 434, 780, 909, 1656, 1926, 1980, 2397, 2594, 2840 |
| SstI | GAGCTC | 1 cut(s) | 180 |
| StuI | AGGCCT | 2 cut(s) | 1924, 2563 |
| StyI | CCWWGG | 3 cut(s) | 677, 752, 908 |
| TaaI | ACNGT | 6 cut(s) | 31, 1556, 1693, 2378, 3168, 3278 |
| TaiI | ACGT | 2 cut(s) | 1641, 2647 |
| TaqI | TCGA | 6 cut(s) | 691, 893, 2727, 2820, 3309, 3429 |
| TatI | WGTACW | 1 cut(s) | 1515 |
| TauI | GCSGC | 2 cut(s) | 832, 2240 |
| TfiI | GAWTC | 5 cut(s) | 913, 1207, 1602, 2458, 2488 |
| TseFI | GTSAC | 9 cut(s) | 265, 2588, 2614, 2707, 3056, 3196, 3333, 3394, 3423 |
| Tsp45I | GTSAC | 9 cut(s) | 265, 2588, 2614, 2707, 3056, 3196, 3333, 3394, 3423 |
| TspGWI | ACGGA | 1 cut(s) | 1872 |
| Tth111I | GACNNNGTC | 1 cut(s) | 29 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 470 |
| VpaK11BI | GGWCC | 4 cut(s) | 147, 1552, 1948, 2602 |
| VspI | ATTAAT | 1 cut(s) | 1590 |
| XagI | CCTNNNNNAGG | 2 cut(s) | 1153, 2550 |
| XapI | RAATTY | 7 cut(s) | 346, 381, 512, 617, 1381, 1396, 2973 |
| XceI | RCATGY | 6 cut(s) | 236, 510, 2221, 2527, 2786, 3209 |
| XmaJI | CCTAGG | 1 cut(s) | 908 |
| XmiI | GTMKAC | 5 cut(s) | 90, 1679, 2230, 2357, 2966 |
| XmnI | GAANNNNTTC | 1 cut(s) | 3293 |
| XspI | CTAG | 9 cut(s) | 434, 780, 909, 1656, 1926, 1980, 2397, 2594, 2840 |
| ZrmI | AGTACT | 1 cut(s) | 1517 |
| Zsp2I | ATGCAT | 2 cut(s) | 238, 2529 |