DNA RNA polymerases superfamily protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Pol_BBD | PF22936 | 3 - 47 | 1.9e-07 | Pol polyprotein, beta-barrel domain |
| gag_pre-integrs | PF13976 | 106 - 157 | 3.4e-14 | GAG-pre-integrase domain |
| rve | PF00665 | 173 - 279 | 9.1e-13 | Integrase core domain |
| SH3_retrovirus | PF25597 | 352 - 413 | 2.1e-12 | Retroviral polymerase SH3-like domain |
| RVT_2 | PF07727 | 547 - 792 | 1.2e-75 | Reverse transcriptase (RNA-dependent DNA polymerase) |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccB1I | GGYRCC | 1 cut(s) | 203 |
| AccI | GTMKAC | 2 cut(s) | 2085, 2443 |
| AccIII | TCCGGA | 1 cut(s) | 2683 |
| AciI | CCGC | 1 cut(s) | 2912 |
| AclWI | GGATC | 4 cut(s) | 34, 55, 1484, 3044 |
| AcoI | YGGCCR | 1 cut(s) | 2328 |
| AcsI | RAATTY | 9 cut(s) | 55, 103, 181, 734, 1208, 1246, 2119, 2577, 2950 |
| AcuI | CTGAAG | 3 cut(s) | 1499, 1965, 2030 |
| AfaI | GTAC | 8 cut(s) | 87, 904, 1383, 1443, 2141, 2491, 2621, 2654 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 99, 828 |
| AflIII | ACRYGT | 2 cut(s) | 367, 3091 |
| AhlI | ACTAGT | 1 cut(s) | 1450 |
| AjnI | CCWGG | 3 cut(s) | 826, 2545, 2741 |
| Alw21I | GWGCWC | 1 cut(s) | 973 |
| Alw26I | GTCTC | 3 cut(s) | 121, 352, 1187 |
| AlwI | GGATC | 4 cut(s) | 34, 55, 1484, 3044 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 1391, 2764 |
| Aor13HI | TCCGGA | 1 cut(s) | 2683 |
| AoxI | GGCC | 3 cut(s) | 1569, 2328, 2495 |
| ApeKI | GCWGC | 5 cut(s) | 341, 1342, 1345, 2466, 3077 |
| ApoI | RAATTY | 9 cut(s) | 55, 103, 181, 734, 1208, 1246, 2119, 2577, 2950 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 757, 789 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 1766 |
| AspA2I | CCTAGG | 1 cut(s) | 917 |
| AspS9I | GGNCC | 3 cut(s) | 542, 773, 1367 |
| AsuHPI | GGTGA | 6 cut(s) | 452, 577, 944, 1163, 2246, 2393 |
| AvaII | GGWCC | 3 cut(s) | 542, 773, 1367 |
| AvrII | CCTAGG | 1 cut(s) | 917 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 1425, 1458 |
| BalI | TGGCCA | 1 cut(s) | 2330 |
| BanI | GGYRCC | 1 cut(s) | 203 |
| Bbv12I | GWGCWC | 1 cut(s) | 973 |
| BbvCI | CCTCAGC | 1 cut(s) | 1062 |
| BbvI | GCAGC | 5 cut(s) | 353, 1354, 1357, 2478, 3089 |
| BccI | CCATC | 5 cut(s) | 569, 1426, 1718, 1876, 2716 |
| BceAI | ACGGC | 1 cut(s) | 1911 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 320, 354 |
| BciT130I | CCWGG | 3 cut(s) | 828, 2547, 2743 |
| BciVI | GTATCC | 1 cut(s) | 1143 |
| BcoDI | GTCTC | 3 cut(s) | 121, 352, 1187 |
| BcuI | ACTAGT | 1 cut(s) | 1450 |
| BfmI | CTRYAG | 6 cut(s) | 339, 1278, 1329, 1683, 2109, 3120 |
| BfuI | GTATCC | 1 cut(s) | 1143 |
| BglII | AGATCT | 1 cut(s) | 663 |
| BisI | GCNGC | 6 cut(s) | 342, 1343, 1346, 2467, 2913, 3078 |
| BlnI | CCTAGG | 1 cut(s) | 917 |
| BlsI | GCNGC | 6 cut(s) | 343, 1344, 1347, 2468, 2914, 3079 |
| Bme1390I | CCNGG | 3 cut(s) | 828, 2547, 2743 |
| Bme18I | GGWCC | 3 cut(s) | 542, 773, 1367 |
| BmgT120I | GGNCC | 3 cut(s) | 542, 773, 1367 |
| BmiI | GGNNCC | 4 cut(s) | 205, 1368, 1521, 2534 |
| BmrFI | CCNGG | 3 cut(s) | 828, 2547, 2743 |
| BmsI | GCATC | 5 cut(s) | 1816, 1945, 2027, 2838, 3115 |
| Bpu10I | CCTNAGC | 5 cut(s) | 1062, 1068, 1413, 2481, 2834 |
| BpuEI | CTTGAG | 1 cut(s) | 627 |
| BsaI | GGTCTC | 1 cut(s) | 1187 |
| BsaJI | CCNNGG | 5 cut(s) | 827, 917, 2230, 2376, 2408 |
| BsaWI | WCCGGW | 3 cut(s) | 835, 1810, 2683 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 1308, 1338, 1604, 1634, 1792, 1822 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 99, 828 |
| Bse1I | ACTGG | 2 cut(s) | 2536, 2868 |
| Bse3DI | GCAATG | 2 cut(s) | 1614, 2796 |
| BseAI | TCCGGA | 1 cut(s) | 2683 |
| BseBI | CCWGG | 3 cut(s) | 828, 2547, 2743 |
| BseDI | CCNNGG | 5 cut(s) | 827, 917, 2230, 2376, 2408 |
| BseGI | GGATG | 3 cut(s) | 522, 1891, 2526 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 99, 828 |
| BseMI | GCAATG | 2 cut(s) | 1614, 2796 |
| BseNI | ACTGG | 2 cut(s) | 2536, 2868 |
| BseXI | GCAGC | 5 cut(s) | 353, 1354, 1357, 2478, 3089 |
| BseYI | CCCAGC | 1 cut(s) | 2290 |
| BsgI | GTGCAG | 1 cut(s) | 693 |
| BshFI | GGCC | 3 cut(s) | 1571, 2330, 2497 |
| BshNI | GGYRCC | 1 cut(s) | 203 |
| BsiHKAI | GWGCWC | 1 cut(s) | 973 |
| BsiSI | CCGG | 3 cut(s) | 836, 1811, 2684 |
| BslFI | GGGAC | 2 cut(s) | 844, 1380 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 99, 828 |
| BsmAI | GTCTC | 3 cut(s) | 121, 352, 1187 |
| BsmFI | GGGAC | 2 cut(s) | 844, 1380 |
| BsmI | GAATGC | 3 cut(s) | 458, 1118, 1723 |
| BsnI | GGCC | 3 cut(s) | 1571, 2330, 2497 |
| Bso31I | GGTCTC | 1 cut(s) | 1187 |
| Bsp1286I | GDGCHC | 1 cut(s) | 973 |
| Bsp13I | TCCGGA | 1 cut(s) | 2683 |
| Bsp1407I | TGTACA | 2 cut(s) | 2489, 2619 |
| Bsp143I | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| BspACI | CCGC | 1 cut(s) | 2912 |
| BspANI | GGCC | 3 cut(s) | 1571, 2330, 2497 |
| BspEI | TCCGGA | 1 cut(s) | 2683 |
| BspLI | GGNNCC | 4 cut(s) | 205, 1368, 1521, 2534 |
| BspMAI | CTGCAG | 2 cut(s) | 343, 1282 |
| BspPI | GGATC | 4 cut(s) | 34, 55, 1484, 3044 |
| BspT107I | GGYRCC | 1 cut(s) | 203 |
| BspTNI | GGTCTC | 1 cut(s) | 1187 |
| BsrDI | GCAATG | 2 cut(s) | 1614, 2796 |
| BsrGI | TGTACA | 2 cut(s) | 2489, 2619 |
| BsrI | ACTGG | 2 cut(s) | 2536, 2868 |
| BssECI | CCNNGG | 5 cut(s) | 827, 917, 2230, 2376, 2408 |
| BssMI | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| BssT1I | CCWWGG | 4 cut(s) | 917, 2230, 2376, 2408 |
| Bst2UI | CCWGG | 3 cut(s) | 828, 2547, 2743 |
| Bst4CI | ACNGT | 2 cut(s) | 1303, 2110 |
| BstAPI | GCANNNNNTGC | 3 cut(s) | 453, 1630, 2732 |
| BstAUI | TGTACA | 2 cut(s) | 2489, 2619 |
| BstC8I | GCNNGC | 3 cut(s) | 2016, 2164, 2787 |
| BstEII | GGTNACC | 1 cut(s) | 2053 |
| BstF5I | GGATG | 3 cut(s) | 522, 1891, 2526 |
| BstKTI | GATC | 9 cut(s) | 29, 50, 666, 1463, 1492, 2275, 2968, 3027, 3052 |
| BstMAI | GTCTC | 3 cut(s) | 121, 352, 1187 |
| BstMBI | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| BstMWI | GCNNNNNNNGC | 8 cut(s) | 17, 203, 453, 1613, 1630, 1853, 2732, 3125 |
| BstNI | CCWGG | 3 cut(s) | 828, 2547, 2743 |
| BstNSI | RCATGY | 2 cut(s) | 371, 3095 |
| BstPI | GGTNACC | 1 cut(s) | 2053 |
| BstSCI | CCNGG | 3 cut(s) | 826, 2545, 2741 |
| BstSFI | CTRYAG | 6 cut(s) | 339, 1278, 1329, 1683, 2109, 3120 |
| BstV1I | GCAGC | 5 cut(s) | 353, 1354, 1357, 2478, 3089 |
| BstX2I | RGATCY | 3 cut(s) | 26, 47, 663 |
| BstYI | RGATCY | 3 cut(s) | 26, 47, 663 |
| BsuI | GTATCC | 1 cut(s) | 1143 |
| BsuRI | GGCC | 3 cut(s) | 1571, 2330, 2497 |
| BtsCI | GGATG | 3 cut(s) | 522, 1891, 2526 |
| BtsI | GCAGTG | 4 cut(s) | 1735, 1972, 2033, 2173 |
| BtsIMutI | CAGTG | 9 cut(s) | 1572, 1735, 1794, 1972, 2033, 2070, 2173, 2408, 2655 |
| Cac8I | GCNNGC | 3 cut(s) | 2016, 2164, 2787 |
| CaiI | CAGNNNCTG | 2 cut(s) | 1391, 2764 |
| Cfr13I | GGNCC | 3 cut(s) | 542, 773, 1367 |
| CseI | GACGC | 1 cut(s) | 2770 |
| Csp6I | GTAC | 8 cut(s) | 86, 903, 1382, 1442, 2140, 2490, 2620, 2653 |
| CviQI | GTAC | 8 cut(s) | 86, 903, 1382, 1442, 2140, 2490, 2620, 2653 |
| DpnI | GATC | 9 cut(s) | 28, 49, 665, 1462, 1491, 2274, 2967, 3026, 3051 |
| DpnII | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| EaeI | YGGCCR | 1 cut(s) | 2328 |
| Eco130I | CCWWGG | 4 cut(s) | 917, 2230, 2376, 2408 |
| Eco31I | GGTCTC | 1 cut(s) | 1187 |
| Eco47I | GGWCC | 3 cut(s) | 542, 773, 1367 |
| Eco57I | CTGAAG | 3 cut(s) | 1499, 1965, 2030 |
| Eco91I | GGTNACC | 1 cut(s) | 2053 |
| EcoO109I | RGGNCCY | 2 cut(s) | 773, 1367 |
| EcoO65I | GGTNACC | 1 cut(s) | 2053 |
| EcoRI | GAATTC | 2 cut(s) | 734, 2950 |
| EcoRII | CCWGG | 3 cut(s) | 826, 2545, 2741 |
| EcoT14I | CCWWGG | 4 cut(s) | 917, 2230, 2376, 2408 |
| EcoT22I | ATGCAT | 3 cut(s) | 458, 1635, 1938 |
| ErhI | CCWWGG | 4 cut(s) | 917, 2230, 2376, 2408 |
| FalI | AAGNNNNNCTT | 6 cut(s) | 169, 201, 1013, 1045, 1497, 1529 |
| FaqI | GGGAC | 2 cut(s) | 844, 1380 |
| FauNDI | CATATG | 2 cut(s) | 536, 2610 |
| FblI | GTMKAC | 2 cut(s) | 2085, 2443 |
| Fnu4HI | GCNGC | 6 cut(s) | 342, 1343, 1346, 2467, 2913, 3078 |
| FokI | GGATG | 3 cut(s) | 509, 1898, 2533 |
| Fsp4HI | GCNGC | 6 cut(s) | 342, 1343, 1346, 2467, 2913, 3078 |
| GluI | GCNGC | 6 cut(s) | 342, 1343, 1346, 2467, 2913, 3078 |
| GsaI | CCCAGC | 1 cut(s) | 2294 |
| HaeIII | GGCC | 3 cut(s) | 1571, 2330, 2497 |
| HapII | CCGG | 3 cut(s) | 836, 1811, 2684 |
| HgaI | GACGC | 1 cut(s) | 2770 |
| HincII | GTYRAC | 3 cut(s) | 2086, 2303, 2946 |
| HindII | GTYRAC | 3 cut(s) | 2086, 2303, 2946 |
| HindIII | AAGCTT | 1 cut(s) | 1027 |
| HinfI | GANTC | 8 cut(s) | 391, 1087, 1185, 1253, 2067, 2660, 2687, 2867 |
| HpaII | CCGG | 3 cut(s) | 836, 1811, 2684 |
| HphI | GGTGA | 6 cut(s) | 452, 577, 944, 1163, 2246, 2393 |
| Hpy188I | TCNGA | 9 cut(s) | 634, 721, 890, 1086, 1092, 1258, 2665, 2847, 3087 |
| Hpy188III | TCNNGA | 9 cut(s) | 51, 177, 480, 791, 909, 1136, 1192, 1517, 2684 |
| Hpy99I | CGWCG | 1 cut(s) | 2090 |
| HpyAV | CCTTC | 8 cut(s) | 93, 99, 598, 1141, 1329, 1940, 2627, 2804 |
| HpyCH4III | ACNGT | 2 cut(s) | 1303, 2110 |
| HpyCH4IV | ACGT | 1 cut(s) | 2142 |
| HpyF10VI | GCNNNNNNNGC | 8 cut(s) | 17, 203, 453, 1613, 1630, 1853, 2732, 3125 |
| HpySE526I | ACGT | 1 cut(s) | 2142 |
| Kpn2I | TCCGGA | 1 cut(s) | 2683 |
| Kzo9I | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| Lsp1109I | GCAGC | 5 cut(s) | 353, 1354, 1357, 2478, 3089 |
| LweI | GCATC | 5 cut(s) | 1816, 1945, 2027, 2838, 3115 |
| MaeII | ACGT | 1 cut(s) | 2142 |
| MaeIII | GTNAC | 5 cut(s) | 440, 1297, 2053, 2168, 2859 |
| MalI | GATC | 9 cut(s) | 28, 49, 665, 1462, 1491, 2274, 2967, 3026, 3051 |
| MboI | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| MboII | GAAGA | 9 cut(s) | 874, 1114, 1277, 1470, 1505, 1553, 1931, 2584, 3104 |
| MfeI | CAATTG | 3 cut(s) | 227, 689, 2736 |
| MflI | RGATCY | 3 cut(s) | 26, 47, 663 |
| MhlI | GDGCHC | 1 cut(s) | 973 |
| MlsI | TGGCCA | 1 cut(s) | 2330 |
| MluNI | TGGCCA | 1 cut(s) | 2330 |
| MmeI | TCCRAC | 1 cut(s) | 1517 |
| Mox20I | TGGCCA | 1 cut(s) | 2330 |
| Mph1103I | ATGCAT | 3 cut(s) | 458, 1635, 1938 |
| MroI | TCCGGA | 1 cut(s) | 2683 |
| MroXI | GAANNNNTTC | 1 cut(s) | 1766 |
| MscI | TGGCCA | 1 cut(s) | 2330 |
| MslI | CAYNNNNRTG | 3 cut(s) | 1041, 1638, 1931 |
| Msp20I | TGGCCA | 1 cut(s) | 2330 |
| MspI | CCGG | 3 cut(s) | 836, 1811, 2684 |
| MspR9I | CCNGG | 3 cut(s) | 828, 2547, 2743 |
| MunI | CAATTG | 3 cut(s) | 227, 689, 2736 |
| Mva1269I | GAATGC | 3 cut(s) | 458, 1118, 1723 |
| MvaI | CCWGG | 3 cut(s) | 828, 2547, 2743 |
| MwoI | GCNNNNNNNGC | 8 cut(s) | 17, 203, 453, 1613, 1630, 1853, 2732, 3125 |
| NdeI | CATATG | 2 cut(s) | 536, 2610 |
| NdeII | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| NlaIV | GGNNCC | 4 cut(s) | 205, 1368, 1521, 2534 |
| NmuCI | GTSAC | 2 cut(s) | 440, 2168 |
| NsiI | ATGCAT | 3 cut(s) | 458, 1635, 1938 |
| NspI | RCATGY | 2 cut(s) | 371, 3095 |
| PciI | ACATGT | 2 cut(s) | 367, 3091 |
| PctI | GAATGC | 3 cut(s) | 458, 1118, 1723 |
| PdmI | GAANNNNTTC | 1 cut(s) | 1766 |
| PfeI | GAWTC | 8 cut(s) | 391, 1087, 1185, 1253, 2067, 2660, 2687, 2867 |
| PfoI | TCCNGGA | 1 cut(s) | 2545 |
| PkrI | GCNGC | 6 cut(s) | 343, 1344, 1347, 2468, 2914, 3079 |
| PpuMI | RGGWCCY | 2 cut(s) | 773, 1367 |
| PscI | ACATGT | 2 cut(s) | 367, 3091 |
| Psp5II | RGGWCCY | 2 cut(s) | 773, 1367 |
| Psp6I | CCWGG | 3 cut(s) | 826, 2545, 2741 |
| PspEI | GGTNACC | 1 cut(s) | 2053 |
| PspFI | CCCAGC | 1 cut(s) | 2290 |
| PspGI | CCWGG | 3 cut(s) | 826, 2545, 2741 |
| PspN4I | GGNNCC | 4 cut(s) | 205, 1368, 1521, 2534 |
| PspPI | GGNCC | 3 cut(s) | 542, 773, 1367 |
| PspPPI | RGGWCCY | 2 cut(s) | 773, 1367 |
| PsrI | GAACNNNNNNTAC | 2 cut(s) | 2024, 2056 |
| PstI | CTGCAG | 2 cut(s) | 343, 1282 |
| PstNI | CAGNNNCTG | 2 cut(s) | 1391, 2764 |
| PsuI | RGATCY | 3 cut(s) | 26, 47, 663 |
| RsaI | GTAC | 8 cut(s) | 87, 904, 1383, 1443, 2141, 2491, 2621, 2654 |
| RsaNI | GTAC | 8 cut(s) | 86, 903, 1382, 1442, 2140, 2490, 2620, 2653 |
| RseI | CAYNNNNRTG | 3 cut(s) | 1041, 1638, 1931 |
| SalI | GTCGAC | 1 cut(s) | 2084 |
| SatI | GCNGC | 6 cut(s) | 342, 1343, 1346, 2467, 2913, 3078 |
| Sau3AI | GATC | 9 cut(s) | 26, 47, 663, 1460, 1489, 2272, 2965, 3024, 3049 |
| Sau96I | GGNCC | 3 cut(s) | 542, 773, 1367 |
| ScrFI | CCNGG | 3 cut(s) | 828, 2547, 2743 |
| SduI | GDGCHC | 1 cut(s) | 973 |
| SfaNI | GCATC | 5 cut(s) | 1816, 1945, 2027, 2838, 3115 |
| SfcI | CTRYAG | 6 cut(s) | 339, 1278, 1329, 1683, 2109, 3120 |
| SinI | GGWCC | 3 cut(s) | 542, 773, 1367 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 1041, 1638, 1931 |
| SmlI | CTYRAG | 1 cut(s) | 642 |
| SmoI | CTYRAG | 1 cut(s) | 642 |
| SpeI | ACTAGT | 1 cut(s) | 1450 |
| SsiI | CCGC | 1 cut(s) | 2912 |
| SspI | AATATT | 1 cut(s) | 2975 |
| StyD4I | CCNGG | 3 cut(s) | 826, 2545, 2741 |
| StyI | CCWWGG | 4 cut(s) | 917, 2230, 2376, 2408 |
| TaaI | ACNGT | 2 cut(s) | 1303, 2110 |
| TaiI | ACGT | 1 cut(s) | 2145 |
| TaqI | TCGA | 9 cut(s) | 264, 374, 651, 1145, 1191, 1659, 2043, 2085, 2275 |
| TatI | WGTACW | 3 cut(s) | 902, 2489, 2619 |
| TauI | GCSGC | 1 cut(s) | 2915 |
| TfiI | GAWTC | 8 cut(s) | 391, 1087, 1185, 1253, 2067, 2660, 2687, 2867 |
| TscAI | CASTG | 9 cut(s) | 1579, 1735, 1801, 1972, 2033, 2077, 2173, 2408, 2662 |
| TseFI | GTSAC | 2 cut(s) | 440, 2168 |
| TseI | GCWGC | 5 cut(s) | 341, 1342, 1345, 2466, 3077 |
| Tsp45I | GTSAC | 2 cut(s) | 440, 2168 |
| TspGWI | ACGGA | 1 cut(s) | 756 |
| TspRI | CASTG | 9 cut(s) | 1579, 1735, 1801, 1972, 2033, 2077, 2173, 2408, 2662 |
| VpaK11BI | GGWCC | 3 cut(s) | 542, 773, 1367 |
| XapI | RAATTY | 9 cut(s) | 55, 103, 181, 734, 1208, 1246, 2119, 2577, 2950 |
| XbaI | TCTAGA | 1 cut(s) | 479 |
| XceI | RCATGY | 2 cut(s) | 371, 3095 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 563, 2543 |
| XmaJI | CCTAGG | 1 cut(s) | 917 |
| XmiI | GTMKAC | 2 cut(s) | 2085, 2443 |
| XmnI | GAANNNNTTC | 1 cut(s) | 1766 |
| Zsp2I | ATGCAT | 3 cut(s) | 458, 1635, 1938 |