DNA-directed 5'-3' RNA polymerase activity
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| PPR | PF01535 | 394 - 423 | 5.9e-06 | PPR repeat |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccB1I | GGYRCC | 1 cut(s) | 816 |
| AccBSI | CCGCTC | 1 cut(s) | 532 |
| AccI | GTMKAC | 1 cut(s) | 687 |
| AccII | CGCG | 2 cut(s) | 103, 837 |
| AclWI | GGATC | 2 cut(s) | 677, 1299 |
| AcuI | CTGAAG | 1 cut(s) | 1009 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 87, 751, 873 |
| AflII | CTTAAG | 1 cut(s) | 1235 |
| AgsI | TTSAA | 1 cut(s) | 544 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 397 |
| AjiI | CACGTC | 2 cut(s) | 481, 922 |
| AjnI | CCWGG | 2 cut(s) | 263, 548 |
| AluBI | AGCT | 5 cut(s) | 53, 108, 332, 386, 827 |
| AluI | AGCT | 5 cut(s) | 53, 108, 332, 386, 827 |
| Alw21I | GWGCWC | 2 cut(s) | 41, 1089 |
| Alw44I | GTGCAC | 1 cut(s) | 1085 |
| AlwI | GGATC | 2 cut(s) | 677, 1299 |
| AoxI | GGCC | 4 cut(s) | 424, 552, 597, 879 |
| ApaLI | GTGCAC | 1 cut(s) | 1085 |
| AspLEI | GCGC | 4 cut(s) | 105, 383, 839, 1313 |
| AspS9I | GGNCC | 4 cut(s) | 261, 424, 552, 1322 |
| AsuC2I | CCSGG | 1 cut(s) | 593 |
| AsuHPI | GGTGA | 1 cut(s) | 500 |
| AvaII | GGWCC | 2 cut(s) | 261, 1322 |
| AxyI | CCTNAGG | 1 cut(s) | 992 |
| BaeGI | GKGCMC | 1 cut(s) | 1089 |
| BanI | GGYRCC | 1 cut(s) | 816 |
| BanII | GRGCYC | 1 cut(s) | 306 |
| Bbv12I | GWGCWC | 2 cut(s) | 41, 1089 |
| BccI | CCATC | 6 cut(s) | 289, 293, 700, 1013, 1061, 1256 |
| BceAI | ACGGC | 4 cut(s) | 414, 751, 820, 894 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 677, 711 |
| BciT130I | CCWGG | 2 cut(s) | 265, 550 |
| BclI | TGATCA | 2 cut(s) | 792, 924 |
| BcnI | CCSGG | 1 cut(s) | 593 |
| BfaI | CTAG | 5 cut(s) | 42, 411, 900, 1005, 1314 |
| BfmI | CTRYAG | 1 cut(s) | 9 |
| BfrI | CTTAAG | 1 cut(s) | 1235 |
| Bme1390I | CCNGG | 3 cut(s) | 265, 550, 593 |
| Bme18I | GGWCC | 2 cut(s) | 261, 1322 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 397 |
| BmgBI | CACGTC | 2 cut(s) | 481, 922 |
| BmgT120I | GGNCC | 4 cut(s) | 261, 424, 552, 1322 |
| BmiI | GGNNCC | 3 cut(s) | 262, 305, 818 |
| BmrFI | CCNGG | 3 cut(s) | 265, 550, 593 |
| BmsI | GCATC | 3 cut(s) | 984, 999, 1123 |
| BpuEI | CTTGAG | 3 cut(s) | 518, 622, 1260 |
| BpuMI | CCSGG | 1 cut(s) | 593 |
| BsaJI | CCNNGG | 3 cut(s) | 549, 665, 733 |
| BsaWI | WCCGGW | 1 cut(s) | 192 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 142, 145, 172, 175, 530, 560 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 87, 751, 873 |
| Bse1I | ACTGG | 2 cut(s) | 34, 1146 |
| Bse21I | CCTNAGG | 1 cut(s) | 992 |
| BseBI | CCWGG | 2 cut(s) | 265, 550 |
| BseDI | CCNNGG | 3 cut(s) | 549, 665, 733 |
| BseGI | GGATG | 3 cut(s) | 260, 304, 1014 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 87, 751, 873 |
| BseMII | CTCAG | 2 cut(s) | 63, 1006 |
| BseNI | ACTGG | 2 cut(s) | 34, 1146 |
| BseRI | GAGGAG | 2 cut(s) | 150, 918 |
| BseSI | GKGCMC | 1 cut(s) | 1089 |
| BseYI | CCCAGC | 2 cut(s) | 328, 953 |
| BsgI | GTGCAG | 4 cut(s) | 289, 608, 685, 813 |
| Bsh1236I | CGCG | 2 cut(s) | 103, 837 |
| BshFI | GGCC | 4 cut(s) | 426, 554, 599, 881 |
| BshNI | GGYRCC | 1 cut(s) | 816 |
| BsiHKAI | GWGCWC | 2 cut(s) | 41, 1089 |
| BsiSI | CCGG | 3 cut(s) | 193, 378, 593 |
| BslFI | GGGAC | 2 cut(s) | 296, 385 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 87, 751, 873 |
| BsmFI | GGGAC | 2 cut(s) | 296, 385 |
| BsmI | GAATGC | 1 cut(s) | 1192 |
| BsnI | GGCC | 4 cut(s) | 426, 554, 599, 881 |
| Bsp1286I | GDGCHC | 3 cut(s) | 41, 306, 1089 |
| Bsp143I | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| Bsp19I | CCATGG | 1 cut(s) | 665 |
| BspANI | GGCC | 4 cut(s) | 426, 554, 599, 881 |
| BspCNI | CTCAG | 2 cut(s) | 62, 1005 |
| BspFNI | CGCG | 2 cut(s) | 103, 837 |
| BspHI | TCATGA | 1 cut(s) | 766 |
| BspLI | GGNNCC | 3 cut(s) | 262, 305, 818 |
| BspMAI | CTGCAG | 1 cut(s) | 13 |
| BspPI | GGATC | 2 cut(s) | 677, 1299 |
| BspT107I | GGYRCC | 1 cut(s) | 816 |
| BspTI | CTTAAG | 1 cut(s) | 1235 |
| BsrBI | CCGCTC | 1 cut(s) | 532 |
| BsrI | ACTGG | 2 cut(s) | 34, 1146 |
| BssECI | CCNNGG | 3 cut(s) | 549, 665, 733 |
| BssMI | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| BssT1I | CCWWGG | 1 cut(s) | 665 |
| Bst2UI | CCWGG | 2 cut(s) | 265, 550 |
| Bst4CI | ACNGT | 4 cut(s) | 399, 491, 1091, 1156 |
| BstAFI | CTTAAG | 1 cut(s) | 1235 |
| BstC8I | GCNNGC | 4 cut(s) | 467, 679, 700, 1309 |
| BstDEI | CTNAG | 3 cut(s) | 49, 992, 1127 |
| BstDSI | CCRYGG | 2 cut(s) | 665, 733 |
| BstEII | GGTNACC | 1 cut(s) | 90 |
| BstF5I | GGATG | 3 cut(s) | 260, 304, 1014 |
| BstFNI | CGCG | 2 cut(s) | 103, 837 |
| BstHHI | GCGC | 4 cut(s) | 105, 383, 839, 1313 |
| BstKTI | GATC | 4 cut(s) | 672, 795, 927, 1294 |
| BstMBI | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 329, 581, 628, 836, 1029 |
| BstNI | CCWGG | 2 cut(s) | 265, 550 |
| BstNSI | RCATGY | 1 cut(s) | 346 |
| BstPI | GGTNACC | 1 cut(s) | 90 |
| BstSCI | CCNGG | 3 cut(s) | 263, 548, 591 |
| BstSFI | CTRYAG | 1 cut(s) | 9 |
| BstSLI | GKGCMC | 1 cut(s) | 1089 |
| BstUI | CGCG | 2 cut(s) | 103, 837 |
| Bsu36I | CCTNAGG | 1 cut(s) | 992 |
| BsuRI | GGCC | 4 cut(s) | 426, 554, 599, 881 |
| BtgI | CCRYGG | 2 cut(s) | 665, 733 |
| BtrI | CACGTC | 2 cut(s) | 481, 922 |
| BtsCI | GGATG | 3 cut(s) | 260, 304, 1014 |
| BtsIMutI | CAGTG | 3 cut(s) | 41, 934, 1087 |
| Cac8I | GCNNGC | 4 cut(s) | 467, 679, 700, 1309 |
| CciI | TCATGA | 1 cut(s) | 766 |
| CfoI | GCGC | 4 cut(s) | 105, 383, 839, 1313 |
| Cfr13I | GGNCC | 4 cut(s) | 261, 424, 552, 1322 |
| CseI | GACGC | 1 cut(s) | 698 |
| DdeI | CTNAG | 3 cut(s) | 49, 992, 1127 |
| DpnI | GATC | 4 cut(s) | 671, 794, 926, 1293 |
| DpnII | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| DriI | GACNNNNNGTC | 1 cut(s) | 397 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 397 |
| EciI | GGCGGA | 1 cut(s) | 464 |
| Eco130I | CCWWGG | 1 cut(s) | 665 |
| Eco147I | AGGCCT | 1 cut(s) | 599 |
| Eco24I | GRGCYC | 1 cut(s) | 306 |
| Eco47I | GGWCC | 2 cut(s) | 261, 1322 |
| Eco57I | CTGAAG | 1 cut(s) | 1009 |
| Eco81I | CCTNAGG | 1 cut(s) | 992 |
| Eco91I | GGTNACC | 1 cut(s) | 90 |
| EcoO65I | GGTNACC | 1 cut(s) | 90 |
| EcoRII | CCWGG | 2 cut(s) | 263, 548 |
| EcoT14I | CCWWGG | 1 cut(s) | 665 |
| EcoT22I | ATGCAT | 1 cut(s) | 1014 |
| EcoT38I | GRGCYC | 1 cut(s) | 306 |
| ErhI | CCWWGG | 1 cut(s) | 665 |
| FaqI | GGGAC | 2 cut(s) | 296, 385 |
| FauI | CCCGC | 1 cut(s) | 108 |
| FbaI | TGATCA | 2 cut(s) | 792, 924 |
| FblI | GTMKAC | 1 cut(s) | 687 |
| FokI | GGATG | 3 cut(s) | 267, 311, 1021 |
| FriOI | GRGCYC | 1 cut(s) | 306 |
| FspBI | CTAG | 5 cut(s) | 42, 411, 900, 1005, 1314 |
| GlaI | GCGC | 4 cut(s) | 104, 382, 838, 1312 |
| GsaI | CCCAGC | 2 cut(s) | 332, 957 |
| HaeIII | GGCC | 4 cut(s) | 426, 554, 599, 881 |
| HapII | CCGG | 3 cut(s) | 193, 378, 593 |
| HgaI | GACGC | 1 cut(s) | 698 |
| HhaI | GCGC | 4 cut(s) | 105, 383, 839, 1313 |
| Hin6I | GCGC | 4 cut(s) | 103, 381, 837, 1311 |
| HinP1I | GCGC | 4 cut(s) | 103, 381, 837, 1311 |
| HincII | GTYRAC | 2 cut(s) | 688, 1159 |
| HindII | GTYRAC | 2 cut(s) | 688, 1159 |
| HinfI | GANTC | 5 cut(s) | 45, 309, 374, 849, 1070 |
| HpaII | CCGG | 3 cut(s) | 193, 378, 593 |
| HphI | GGTGA | 1 cut(s) | 500 |
| Hpy166II | GTNNAC | 3 cut(s) | 688, 1087, 1159 |
| Hpy188I | TCNGA | 6 cut(s) | 280, 308, 373, 615, 1152, 1251 |
| Hpy188III | TCNNGA | 5 cut(s) | 42, 389, 767, 900, 1277 |
| Hpy8I | GTNNAC | 3 cut(s) | 688, 1087, 1159 |
| Hpy99I | CGWCG | 2 cut(s) | 692, 923 |
| HpyAV | CCTTC | 3 cut(s) | 220, 415, 1249 |
| HpyCH4III | ACNGT | 4 cut(s) | 399, 491, 1091, 1156 |
| HpyCH4IV | ACGT | 2 cut(s) | 480, 921 |
| HpyCH4V | TGCA | 9 cut(s) | 11, 270, 625, 702, 830, 975, 1012, 1087, 1270 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 329, 581, 628, 836, 1029 |
| HpyF3I | CTNAG | 3 cut(s) | 49, 992, 1127 |
| HpySE526I | ACGT | 2 cut(s) | 480, 921 |
| HspAI | GCGC | 4 cut(s) | 103, 381, 837, 1311 |
| Ksp22I | TGATCA | 2 cut(s) | 792, 924 |
| Kzo9I | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| LmnI | GCTCC | 2 cut(s) | 309, 724 |
| LweI | GCATC | 3 cut(s) | 984, 999, 1123 |
| MaeI | CTAG | 5 cut(s) | 42, 411, 900, 1005, 1314 |
| MaeII | ACGT | 2 cut(s) | 480, 921 |
| MaeIII | GTNAC | 6 cut(s) | 90, 431, 481, 929, 1202, 1218 |
| MalI | GATC | 4 cut(s) | 671, 794, 926, 1293 |
| MbiI | CCGCTC | 1 cut(s) | 532 |
| MboI | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| MboII | GAAGA | 8 cut(s) | 244, 247, 250, 253, 256, 259, 976, 1125 |
| MhlI | GDGCHC | 3 cut(s) | 41, 306, 1089 |
| MluCI | AATT | 1 cut(s) | 165 |
| MlyI | GAGTC | 3 cut(s) | 318, 368, 843 |
| MmeI | TCCRAC | 4 cut(s) | 81, 168, 194, 1163 |
| Mph1103I | ATGCAT | 1 cut(s) | 1014 |
| MseI | TTAA | 4 cut(s) | 183, 884, 936, 1236 |
| MslI | CAYNNNNRTG | 3 cut(s) | 34, 1017, 1047 |
| MspA1I | CMGCKG | 3 cut(s) | 178, 332, 1029 |
| MspCI | CTTAAG | 1 cut(s) | 1235 |
| MspI | CCGG | 3 cut(s) | 193, 378, 593 |
| MspR9I | CCNGG | 3 cut(s) | 265, 550, 593 |
| Mva1269I | GAATGC | 1 cut(s) | 1192 |
| MvaI | CCWGG | 2 cut(s) | 265, 550 |
| MvnI | CGCG | 2 cut(s) | 103, 837 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 329, 581, 628, 836, 1029 |
| NciI | CCSGG | 1 cut(s) | 593 |
| NcoI | CCATGG | 1 cut(s) | 665 |
| NdeII | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| NlaIV | GGNNCC | 3 cut(s) | 262, 305, 818 |
| NmuCI | GTSAC | 2 cut(s) | 481, 929 |
| NsiI | ATGCAT | 1 cut(s) | 1014 |
| NspI | RCATGY | 1 cut(s) | 346 |
| PagI | TCATGA | 1 cut(s) | 766 |
| PceI | AGGCCT | 1 cut(s) | 599 |
| PctI | GAATGC | 1 cut(s) | 1192 |
| PfeI | GAWTC | 2 cut(s) | 45, 1070 |
| PleI | GAGTC | 3 cut(s) | 317, 368, 843 |
| PpsI | GAGTC | 3 cut(s) | 317, 368, 843 |
| Psp6I | CCWGG | 2 cut(s) | 263, 548 |
| PspEI | GGTNACC | 1 cut(s) | 90 |
| PspFI | CCCAGC | 2 cut(s) | 328, 953 |
| PspGI | CCWGG | 2 cut(s) | 263, 548 |
| PspN4I | GGNNCC | 3 cut(s) | 262, 305, 818 |
| PspPI | GGNCC | 4 cut(s) | 261, 424, 552, 1322 |
| PstI | CTGCAG | 1 cut(s) | 13 |
| PvuII | CAGCTG | 1 cut(s) | 332 |
| RseI | CAYNNNNRTG | 3 cut(s) | 34, 1017, 1047 |
| SalI | GTCGAC | 1 cut(s) | 686 |
| SaqAI | TTAA | 4 cut(s) | 183, 884, 936, 1236 |
| Sau3AI | GATC | 4 cut(s) | 669, 792, 924, 1291 |
| Sau96I | GGNCC | 4 cut(s) | 261, 424, 552, 1322 |
| SchI | GAGTC | 3 cut(s) | 318, 368, 843 |
| ScrFI | CCNGG | 3 cut(s) | 265, 550, 593 |
| SduI | GDGCHC | 3 cut(s) | 41, 306, 1089 |
| SfaNI | GCATC | 3 cut(s) | 984, 999, 1123 |
| SfcI | CTRYAG | 1 cut(s) | 9 |
| SinI | GGWCC | 2 cut(s) | 261, 1322 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 34, 1017, 1047 |
| SmlI | CTYRAG | 4 cut(s) | 533, 601, 1235, 1275 |
| SmoI | CTYRAG | 4 cut(s) | 533, 601, 1235, 1275 |
| Sse9I | AATT | 1 cut(s) | 165 |
| SseBI | AGGCCT | 1 cut(s) | 599 |
| SspMI | CTAG | 5 cut(s) | 42, 411, 900, 1005, 1314 |
| StuI | AGGCCT | 1 cut(s) | 599 |
| StyD4I | CCNGG | 3 cut(s) | 263, 548, 591 |
| StyI | CCWWGG | 1 cut(s) | 665 |
| TaaI | ACNGT | 4 cut(s) | 399, 491, 1091, 1156 |
| TaiI | ACGT | 2 cut(s) | 483, 924 |
| TaqI | TCGA | 6 cut(s) | 390, 519, 645, 687, 918, 1227 |
| TasI | AATT | 1 cut(s) | 165 |
| TauI | GCSGC | 4 cut(s) | 292, 429, 532, 1032 |
| TfiI | GAWTC | 2 cut(s) | 45, 1070 |
| Tru1I | TTAA | 4 cut(s) | 183, 884, 936, 1236 |
| Tru9I | TTAA | 4 cut(s) | 183, 884, 936, 1236 |
| TscAI | CASTG | 3 cut(s) | 41, 934, 1094 |
| TseFI | GTSAC | 2 cut(s) | 481, 929 |
| Tsp45I | GTSAC | 2 cut(s) | 481, 929 |
| TspDTI | ATGAA | 3 cut(s) | 537, 1031, 1268 |
| TspRI | CASTG | 3 cut(s) | 41, 934, 1094 |
| Vha464I | CTTAAG | 1 cut(s) | 1235 |
| VneI | GTGCAC | 1 cut(s) | 1085 |
| VpaK11BI | GGWCC | 2 cut(s) | 261, 1322 |
| XbaI | TCTAGA | 2 cut(s) | 41, 899 |
| XceI | RCATGY | 1 cut(s) | 346 |
| XmiI | GTMKAC | 1 cut(s) | 687 |
| XspI | CTAG | 5 cut(s) | 42, 411, 900, 1005, 1314 |
| Zsp2I | ATGCAT | 1 cut(s) | 1014 |