transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Ty3_capsid | PF19259 | 178 - 313 | 3e-11 | Ty3 transposon capsid-like protein |
| Retrotrans_gag | PF03732 | 191 - 278 | 2.4e-11 | Retrotransposon gag protein |
| gag-asp_proteas | PF13975 | 453 - 541 | 1.8e-08 | gag-polyprotein putative aspartyl protease |
| Asp_protease_2 | PF13650 | 453 - 536 | 1.7e-06 | Aspartyl protease |
| RVP_2 | PF08284 | 457 - 541 | 4.6e-06 | Retroviral aspartyl protease |
| RVT_1 | PF00078 | 607 - 703 | 4.7e-21 | Reverse transcriptase (RNA-dependent DNA polymerase) |
| RT_RNaseH_2 | PF17919 | 790 - 884 | 2.8e-32 | RNase H-like domain found in reverse transcriptase |
| RT_RNaseH | PF17917 | 815 - 914 | 5.4e-31 | RNase H-like domain found in reverse transcriptase |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 2973 |
| AarI | CACCTGC | 1 cut(s) | 1528 |
| Acc36I | ACCTGC | 3 cut(s) | 113, 282, 1528 |
| Acc65I | GGTACC | 1 cut(s) | 2782 |
| AccB1I | GGYRCC | 1 cut(s) | 2782 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 164 |
| AccI | GTMKAC | 1 cut(s) | 2816 |
| AcoI | YGGCCR | 2 cut(s) | 567, 1174 |
| AcsI | RAATTY | 5 cut(s) | 546, 674, 1305, 2311, 3029 |
| AcuI | CTGAAG | 4 cut(s) | 2141, 2211, 2347, 2463 |
| AfaI | GTAC | 6 cut(s) | 218, 614, 1118, 1550, 2784, 2991 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 164, 642, 1586 |
| AflII | CTTAAG | 1 cut(s) | 1619 |
| AflIII | ACRYGT | 1 cut(s) | 615 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 1787 |
| AhlI | ACTAGT | 1 cut(s) | 1079 |
| AjnI | CCWGG | 5 cut(s) | 84, 784, 959, 1171, 2978 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 1587, 1619 |
| Alw21I | GWGCWC | 1 cut(s) | 784 |
| Alw26I | GTCTC | 4 cut(s) | 1626, 1795, 2203, 2614 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 85 |
| AoxI | GGCC | 7 cut(s) | 223, 567, 597, 962, 1058, 1131, 1174 |
| ApeKI | GCWGC | 5 cut(s) | 14, 391, 707, 1610, 2594 |
| ApoI | RAATTY | 5 cut(s) | 546, 674, 1305, 2311, 3029 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 1501, 1533 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 1599 |
| Asp718I | GGTACC | 1 cut(s) | 2782 |
| AspA2I | CCTAGG | 1 cut(s) | 820 |
| AspS9I | GGNCC | 6 cut(s) | 60, 101, 224, 1131, 1863, 2549 |
| AvaII | GGWCC | 4 cut(s) | 60, 101, 1863, 2549 |
| AvrII | CCTAGG | 1 cut(s) | 820 |
| BaeGI | GKGCMC | 1 cut(s) | 1501 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 2814, 2847 |
| BalI | TGGCCA | 2 cut(s) | 569, 1176 |
| BamHI | GGATCC | 2 cut(s) | 956, 2206 |
| BanI | GGYRCC | 1 cut(s) | 2782 |
| BanII | GRGCYC | 1 cut(s) | 784 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 1877, 1909 |
| BbsI | GAAGAC | 2 cut(s) | 1105, 1290 |
| Bbv12I | GWGCWC | 1 cut(s) | 784 |
| BbvI | GCAGC | 4 cut(s) | 403, 694, 1622, 2606 |
| BciT130I | CCWGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| BciVI | GTATCC | 1 cut(s) | 2842 |
| BclI | TGATCA | 1 cut(s) | 2107 |
| BcoDI | GTCTC | 4 cut(s) | 1626, 1795, 2203, 2614 |
| BcuI | ACTAGT | 1 cut(s) | 1079 |
| BfaI | CTAG | 5 cut(s) | 105, 821, 900, 1080, 3046 |
| BfmI | CTRYAG | 5 cut(s) | 120, 258, 389, 1038, 1183 |
| BfrI | CTTAAG | 1 cut(s) | 1619 |
| BfuAI | ACCTGC | 3 cut(s) | 113, 282, 1528 |
| BfuI | GTATCC | 1 cut(s) | 2842 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 1496 |
| BglII | AGATCT | 1 cut(s) | 1967 |
| BisI | GCNGC | 5 cut(s) | 15, 392, 708, 1611, 2595 |
| BlnI | CCTAGG | 1 cut(s) | 820 |
| BlsI | GCNGC | 5 cut(s) | 16, 393, 709, 1612, 2596 |
| BmcAI | AGTACT | 2 cut(s) | 218, 1550 |
| Bme1390I | CCNGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| Bme18I | GGWCC | 4 cut(s) | 60, 101, 1863, 2549 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 1787 |
| BmgT120I | GGNCC | 6 cut(s) | 60, 101, 224, 1131, 1863, 2549 |
| BmiI | GGNNCC | 4 cut(s) | 958, 2208, 2550, 2784 |
| BmrFI | CCNGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| BmrI | ACTGGG | 1 cut(s) | 1241 |
| BmsI | GCATC | 5 cut(s) | 592, 1038, 2046, 2464, 2779 |
| BmuI | ACTGGG | 1 cut(s) | 1241 |
| BoxI | GACNNNNGTC | 1 cut(s) | 2159 |
| BpiI | GAAGAC | 2 cut(s) | 1105, 1290 |
| BpmI | CTGGAG | 3 cut(s) | 768, 2688, 3028 |
| BpuEI | CTTGAG | 7 cut(s) | 757, 1003, 1053, 2142, 2284, 2333, 2711 |
| Bsa29I | ATCGAT | 1 cut(s) | 1923 |
| BsaI | GGTCTC | 2 cut(s) | 2203, 2614 |
| BsaJI | CCNNGG | 6 cut(s) | 84, 85, 785, 820, 1055, 2979 |
| BsaWI | WCCGGW | 1 cut(s) | 1228 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 1834, 1864 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 164, 642, 1586 |
| Bse1I | ACTGG | 6 cut(s) | 978, 1247, 1491, 1904, 2830, 3011 |
| Bse3DI | GCAATG | 2 cut(s) | 144, 1539 |
| BseBI | CCWGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| BseCI | ATCGAT | 1 cut(s) | 1923 |
| BseDI | CCNNGG | 6 cut(s) | 84, 85, 785, 820, 1055, 2979 |
| BseGI | GGATG | 7 cut(s) | 158, 1595, 1837, 1851, 1918, 2081, 2518 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 164, 642, 1586 |
| BseMI | GCAATG | 2 cut(s) | 144, 1539 |
| BseNI | ACTGG | 6 cut(s) | 978, 1247, 1491, 1904, 2830, 3011 |
| BseRI | GAGGAG | 2 cut(s) | 926, 1280 |
| BseSI | GKGCMC | 1 cut(s) | 1501 |
| BseXI | GCAGC | 4 cut(s) | 403, 694, 1622, 2606 |
| BsgI | GTGCAG | 1 cut(s) | 1295 |
| BshFI | GGCC | 7 cut(s) | 225, 569, 599, 964, 1060, 1133, 1176 |
| BshNI | GGYRCC | 1 cut(s) | 2782 |
| BshVI | ATCGAT | 1 cut(s) | 1923 |
| BsiHKAI | GWGCWC | 1 cut(s) | 784 |
| BsiSI | CCGG | 1 cut(s) | 1229 |
| BslFI | GGGAC | 3 cut(s) | 331, 709, 2649 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 164, 642, 1586 |
| BsmAI | GTCTC | 4 cut(s) | 1626, 1795, 2203, 2614 |
| BsmFI | GGGAC | 3 cut(s) | 331, 709, 2649 |
| BsmI | GAATGC | 1 cut(s) | 2228 |
| BsnI | GGCC | 7 cut(s) | 225, 569, 599, 964, 1060, 1133, 1176 |
| Bso31I | GGTCTC | 2 cut(s) | 2203, 2614 |
| Bsp1286I | GDGCHC | 2 cut(s) | 784, 1501 |
| BspANI | GGCC | 7 cut(s) | 225, 569, 599, 964, 1060, 1133, 1176 |
| BspDI | ATCGAT | 1 cut(s) | 1923 |
| BspHI | TCATGA | 1 cut(s) | 2100 |
| BspLI | GGNNCC | 4 cut(s) | 958, 2208, 2550, 2784 |
| BspMAI | CTGCAG | 3 cut(s) | 124, 393, 1187 |
| BspMI | ACCTGC | 3 cut(s) | 113, 282, 1528 |
| BspT107I | GGYRCC | 1 cut(s) | 2782 |
| BspTI | CTTAAG | 1 cut(s) | 1619 |
| BspTNI | GGTCTC | 2 cut(s) | 2203, 2614 |
| BsrDI | GCAATG | 2 cut(s) | 144, 1539 |
| BsrI | ACTGG | 6 cut(s) | 978, 1247, 1491, 1904, 2830, 3011 |
| BssECI | CCNNGG | 6 cut(s) | 84, 85, 785, 820, 1055, 2979 |
| BssT1I | CCWWGG | 2 cut(s) | 820, 1055 |
| Bst2UI | CCWGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| Bst4CI | ACNGT | 5 cut(s) | 1042, 1289, 1882, 1945, 2967 |
| Bst6I | CTCTTC | 1 cut(s) | 827 |
| BstAFI | CTTAAG | 1 cut(s) | 1619 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 2603 |
| BstC8I | GCNNGC | 2 cut(s) | 1015, 1062 |
| BstF5I | GGATG | 7 cut(s) | 158, 1595, 1837, 1851, 1918, 2081, 2518 |
| BstMAI | GTCTC | 4 cut(s) | 1626, 1795, 2203, 2614 |
| BstMWI | GCNNNNNNNGC | 6 cut(s) | 713, 1057, 1070, 1182, 1496, 2603 |
| BstNI | CCWGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| BstNSI | RCATGY | 5 cut(s) | 116, 619, 891, 1388, 2180 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 2159 |
| BstSCI | CCNGG | 5 cut(s) | 84, 784, 959, 1171, 2978 |
| BstSFI | CTRYAG | 5 cut(s) | 120, 258, 389, 1038, 1183 |
| BstSLI | GKGCMC | 1 cut(s) | 1501 |
| BstV1I | GCAGC | 4 cut(s) | 403, 694, 1622, 2606 |
| BstV2I | GAAGAC | 2 cut(s) | 1105, 1290 |
| BstX2I | RGATCY | 6 cut(s) | 903, 956, 998, 1361, 1967, 2206 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 57 |
| BstYI | RGATCY | 6 cut(s) | 903, 956, 998, 1361, 1967, 2206 |
| Bsu15I | ATCGAT | 1 cut(s) | 1923 |
| BsuI | GTATCC | 1 cut(s) | 2842 |
| BsuRI | GGCC | 7 cut(s) | 225, 569, 599, 964, 1060, 1133, 1176 |
| BsuTUI | ATCGAT | 1 cut(s) | 1923 |
| BtsCI | GGATG | 7 cut(s) | 158, 1595, 1837, 1851, 1918, 2081, 2518 |
| BtsIMutI | CAGTG | 8 cut(s) | 588, 685, 985, 1293, 1498, 1878, 1911, 2208 |
| BveI | ACCTGC | 3 cut(s) | 113, 282, 1528 |
| Cac8I | GCNNGC | 2 cut(s) | 1015, 1062 |
| CaiI | CAGNNNCTG | 1 cut(s) | 85 |
| CciI | TCATGA | 1 cut(s) | 2100 |
| Cfr13I | GGNCC | 6 cut(s) | 60, 101, 224, 1131, 1863, 2549 |
| ClaI | ATCGAT | 1 cut(s) | 1923 |
| Csp6I | GTAC | 6 cut(s) | 217, 613, 1117, 1549, 2783, 2990 |
| CspCI | CAANNNNNGTGG | 4 cut(s) | 52, 87, 2699, 2734 |
| CviQI | GTAC | 6 cut(s) | 217, 613, 1117, 1549, 2783, 2990 |
| DriI | GACNNNNNGTC | 1 cut(s) | 1787 |
| EaeI | YGGCCR | 2 cut(s) | 567, 1174 |
| Eam1104I | CTCTTC | 1 cut(s) | 827 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 1787 |
| EarI | CTCTTC | 1 cut(s) | 827 |
| Ecl136II | GAGCTC | 1 cut(s) | 782 |
| Eco130I | CCWWGG | 2 cut(s) | 820, 1055 |
| Eco147I | AGGCCT | 2 cut(s) | 599, 1060 |
| Eco24I | GRGCYC | 1 cut(s) | 784 |
| Eco31I | GGTCTC | 2 cut(s) | 2203, 2614 |
| Eco32I | GATATC | 1 cut(s) | 1465 |
| Eco47I | GGWCC | 4 cut(s) | 60, 101, 1863, 2549 |
| Eco53kI | GAGCTC | 1 cut(s) | 782 |
| Eco57I | CTGAAG | 4 cut(s) | 2141, 2211, 2347, 2463 |
| EcoICRI | GAGCTC | 1 cut(s) | 782 |
| EcoO109I | RGGNCCY | 2 cut(s) | 224, 1863 |
| EcoRI | GAATTC | 2 cut(s) | 674, 3029 |
| EcoRII | CCWGG | 5 cut(s) | 84, 784, 959, 1171, 2978 |
| EcoRV | GATATC | 1 cut(s) | 1465 |
| EcoT14I | CCWWGG | 2 cut(s) | 820, 1055 |
| EcoT22I | ATGCAT | 3 cut(s) | 585, 2228, 2955 |
| EcoT38I | GRGCYC | 1 cut(s) | 784 |
| ErhI | CCWWGG | 2 cut(s) | 820, 1055 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 1587, 1619, 2345, 2377 |
| FaqI | GGGAC | 3 cut(s) | 331, 709, 2649 |
| FbaI | TGATCA | 1 cut(s) | 2107 |
| FblI | GTMKAC | 1 cut(s) | 2816 |
| Fnu4HI | GCNGC | 5 cut(s) | 15, 392, 708, 1611, 2595 |
| FokI | GGATG | 7 cut(s) | 145, 1602, 1844, 1858, 1925, 2068, 2505 |
| FriOI | GRGCYC | 1 cut(s) | 784 |
| Fsp4HI | GCNGC | 5 cut(s) | 15, 392, 708, 1611, 2595 |
| FspBI | CTAG | 5 cut(s) | 105, 821, 900, 1080, 3046 |
| GluI | GCNGC | 5 cut(s) | 15, 392, 708, 1611, 2595 |
| GsuI | CTGGAG | 3 cut(s) | 768, 2688, 3028 |
| HaeIII | GGCC | 7 cut(s) | 225, 569, 599, 964, 1060, 1133, 1176 |
| HapII | CCGG | 1 cut(s) | 1229 |
| HincII | GTYRAC | 4 cut(s) | 155, 697, 1236, 2070 |
| HindII | GTYRAC | 4 cut(s) | 155, 697, 1236, 2070 |
| HindIII | AAGCTT | 1 cut(s) | 1955 |
| HpaI | GTTAAC | 2 cut(s) | 1236, 2070 |
| HpaII | CCGG | 1 cut(s) | 1229 |
| Hpy188I | TCNGA | 7 cut(s) | 604, 1735, 1965, 1983, 2383, 2482, 2884 |
| HpyCH4III | ACNGT | 5 cut(s) | 1042, 1289, 1882, 1945, 2967 |
| HpyF10VI | GCNNNNNNNGC | 6 cut(s) | 713, 1057, 1070, 1182, 1496, 2603 |
| KpnI | GGTACC | 1 cut(s) | 2786 |
| Ksp22I | TGATCA | 1 cut(s) | 2107 |
| KspAI | GTTAAC | 2 cut(s) | 1236, 2070 |
| LmnI | GCTCC | 8 cut(s) | 178, 335, 418, 754, 787, 1403, 1607, 2495 |
| Lsp1109I | GCAGC | 4 cut(s) | 403, 694, 1622, 2606 |
| LweI | GCATC | 5 cut(s) | 592, 1038, 2046, 2464, 2779 |
| MaeI | CTAG | 5 cut(s) | 105, 821, 900, 1080, 3046 |
| MaeIII | GTNAC | 8 cut(s) | 191, 1154, 1449, 1876, 2152, 2397, 2721, 2913 |
| MboII | GAAGA | 6 cut(s) | 844, 1110, 1235, 1295, 1756, 1837 |
| MfeI | CAATTG | 3 cut(s) | 318, 1196, 2670 |
| MflI | RGATCY | 6 cut(s) | 903, 956, 998, 1361, 1967, 2206 |
| MhlI | GDGCHC | 2 cut(s) | 784, 1501 |
| MlsI | TGGCCA | 2 cut(s) | 569, 1176 |
| MluNI | TGGCCA | 2 cut(s) | 569, 1176 |
| MlyI | GAGTC | 6 cut(s) | 1767, 2149, 2380, 2387, 2900, 2951 |
| MmeI | TCCRAC | 1 cut(s) | 79 |
| Mox20I | TGGCCA | 2 cut(s) | 569, 1176 |
| Mph1103I | ATGCAT | 3 cut(s) | 585, 2228, 2955 |
| MroXI | GAANNNNTTC | 1 cut(s) | 1599 |
| MscI | TGGCCA | 2 cut(s) | 569, 1176 |
| MslI | CAYNNNNRTG | 2 cut(s) | 189, 1661 |
| Msp20I | TGGCCA | 2 cut(s) | 569, 1176 |
| MspCI | CTTAAG | 1 cut(s) | 1619 |
| MspI | CCGG | 1 cut(s) | 1229 |
| MspR9I | CCNGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| MunI | CAATTG | 3 cut(s) | 318, 1196, 2670 |
| Mva1269I | GAATGC | 1 cut(s) | 2228 |
| MvaI | CCWGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| MwoI | GCNNNNNNNGC | 6 cut(s) | 713, 1057, 1070, 1182, 1496, 2603 |
| NlaIV | GGNNCC | 4 cut(s) | 958, 2208, 2550, 2784 |
| NmuCI | GTSAC | 5 cut(s) | 191, 1154, 1449, 1876, 2152 |
| NsiI | ATGCAT | 3 cut(s) | 585, 2228, 2955 |
| NspI | RCATGY | 5 cut(s) | 116, 619, 891, 1388, 2180 |
| PagI | TCATGA | 1 cut(s) | 2100 |
| PaqCI | CACCTGC | 1 cut(s) | 1528 |
| PasI | CCCWGGG | 1 cut(s) | 85 |
| PceI | AGGCCT | 2 cut(s) | 599, 1060 |
| PciI | ACATGT | 1 cut(s) | 615 |
| PctI | GAATGC | 1 cut(s) | 2228 |
| PdmI | GAANNNNTTC | 1 cut(s) | 1599 |
| PfeI | GAWTC | 4 cut(s) | 1241, 1256, 2271, 2694 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 164 |
| PkrI | GCNGC | 5 cut(s) | 16, 393, 709, 1612, 2596 |
| PleI | GAGTC | 6 cut(s) | 1767, 2149, 2379, 2386, 2899, 2951 |
| PpsI | GAGTC | 6 cut(s) | 1767, 2149, 2379, 2386, 2899, 2951 |
| PpuMI | RGGWCCY | 1 cut(s) | 1863 |
| PscI | ACATGT | 1 cut(s) | 615 |
| PshAI | GACNNNNGTC | 1 cut(s) | 2159 |
| PsiI | TTATAA | 1 cut(s) | 2973 |
| Psp124BI | GAGCTC | 1 cut(s) | 784 |
| Psp5II | RGGWCCY | 1 cut(s) | 1863 |
| Psp6I | CCWGG | 5 cut(s) | 84, 784, 959, 1171, 2978 |
| PspGI | CCWGG | 5 cut(s) | 84, 784, 959, 1171, 2978 |
| PspN4I | GGNNCC | 4 cut(s) | 958, 2208, 2550, 2784 |
| PspPI | GGNCC | 6 cut(s) | 60, 101, 224, 1131, 1863, 2549 |
| PspPPI | RGGWCCY | 1 cut(s) | 1863 |
| PstI | CTGCAG | 3 cut(s) | 124, 393, 1187 |
| PstNI | CAGNNNCTG | 1 cut(s) | 85 |
| PsuI | RGATCY | 6 cut(s) | 903, 956, 998, 1361, 1967, 2206 |
| RsaI | GTAC | 6 cut(s) | 218, 614, 1118, 1550, 2784, 2991 |
| RsaNI | GTAC | 6 cut(s) | 217, 613, 1117, 1549, 2783, 2990 |
| RseI | CAYNNNNRTG | 2 cut(s) | 189, 1661 |
| SacI | GAGCTC | 1 cut(s) | 784 |
| SatI | GCNGC | 5 cut(s) | 15, 392, 708, 1611, 2595 |
| Sau96I | GGNCC | 6 cut(s) | 60, 101, 224, 1131, 1863, 2549 |
| ScaI | AGTACT | 2 cut(s) | 218, 1550 |
| SchI | GAGTC | 6 cut(s) | 1767, 2149, 2380, 2387, 2900, 2951 |
| ScrFI | CCNGG | 5 cut(s) | 86, 786, 961, 1173, 2980 |
| SduI | GDGCHC | 2 cut(s) | 784, 1501 |
| SfaNI | GCATC | 5 cut(s) | 592, 1038, 2046, 2464, 2779 |
| SfcI | CTRYAG | 5 cut(s) | 120, 258, 389, 1038, 1183 |
| SinI | GGWCC | 4 cut(s) | 60, 101, 1863, 2549 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 189, 1661 |
| SmlI | CTYRAG | 8 cut(s) | 772, 1018, 1068, 1619, 2157, 2263, 2348, 2726 |
| SmoI | CTYRAG | 8 cut(s) | 772, 1018, 1068, 1619, 2157, 2263, 2348, 2726 |
| SpeI | ACTAGT | 1 cut(s) | 1079 |
| SseBI | AGGCCT | 2 cut(s) | 599, 1060 |
| SspMI | CTAG | 5 cut(s) | 105, 821, 900, 1080, 3046 |
| SstI | GAGCTC | 1 cut(s) | 784 |
| StuI | AGGCCT | 2 cut(s) | 599, 1060 |
| StyD4I | CCNGG | 5 cut(s) | 84, 784, 959, 1171, 2978 |
| StyI | CCWWGG | 2 cut(s) | 820, 1055 |
| TaaI | ACNGT | 5 cut(s) | 1042, 1289, 1882, 1945, 2967 |
| TaqI | TCGA | 3 cut(s) | 1923, 2163, 2995 |
| TatI | WGTACW | 2 cut(s) | 216, 1548 |
| TfiI | GAWTC | 4 cut(s) | 1241, 1256, 2271, 2694 |
| TscAI | CASTG | 8 cut(s) | 595, 685, 985, 1300, 1498, 1885, 1911, 2208 |
| TseFI | GTSAC | 5 cut(s) | 191, 1154, 1449, 1876, 2152 |
| TseI | GCWGC | 5 cut(s) | 14, 391, 707, 1610, 2594 |
| Tsp45I | GTSAC | 5 cut(s) | 191, 1154, 1449, 1876, 2152 |
| TspDTI | ATGAA | 8 cut(s) | 227, 470, 897, 1370, 1673, 1929, 1941, 2117 |
| TspRI | CASTG | 8 cut(s) | 595, 685, 985, 1300, 1498, 1885, 1911, 2208 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 164 |
| Vha464I | CTTAAG | 1 cut(s) | 1619 |
| VpaK11BI | GGWCC | 4 cut(s) | 60, 101, 1863, 2549 |
| XapI | RAATTY | 5 cut(s) | 546, 674, 1305, 2311, 3029 |
| XceI | RCATGY | 5 cut(s) | 116, 619, 891, 1388, 2180 |
| XmaJI | CCTAGG | 1 cut(s) | 820 |
| XmiI | GTMKAC | 1 cut(s) | 2816 |
| XmnI | GAANNNNTTC | 1 cut(s) | 1599 |
| XspI | CTAG | 5 cut(s) | 105, 821, 900, 1080, 3046 |
| ZrmI | AGTACT | 2 cut(s) | 218, 1550 |
| Zsp2I | ATGCAT | 3 cut(s) | 585, 2228, 2955 |