DNA-directed RNA polymerases I, II, and III subunit
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| DUF3537 | PF12056 | 34 - 417 | 1.9e-143 | Protein of unknown function (DUF3537) |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 860 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 796 |
| AciI | CCGC | 2 cut(s) | 109, 340 |
| AcoI | YGGCCR | 1 cut(s) | 385 |
| AcuI | CTGAAG | 2 cut(s) | 148, 497 |
| AcvI | CACGTG | 1 cut(s) | 978 |
| AfaI | GTAC | 1 cut(s) | 1104 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 126, 193, 796, 1195 |
| AflIII | ACRYGT | 1 cut(s) | 1137 |
| AgsI | TTSAA | 4 cut(s) | 233, 579, 613, 767 |
| AhlI | ACTAGT | 1 cut(s) | 775 |
| Alw21I | GWGCWC | 3 cut(s) | 815, 934, 1260 |
| Alw26I | GTCTC | 5 cut(s) | 110, 173, 300, 846, 868 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1079 |
| Ama87I | CYCGRG | 1 cut(s) | 498 |
| AoxI | GGCC | 1 cut(s) | 385 |
| ApeKI | GCWGC | 4 cut(s) | 305, 908, 911, 981 |
| AseI | ATTAAT | 1 cut(s) | 1236 |
| AsuC2I | CCSGG | 1 cut(s) | 1191 |
| AsuHPI | GGTGA | 2 cut(s) | 1001, 1291 |
| AsuNHI | GCTAGC | 2 cut(s) | 785, 953 |
| AvaI | CYCGRG | 1 cut(s) | 498 |
| BaeGI | GKGCMC | 1 cut(s) | 1231 |
| BalI | TGGCCA | 1 cut(s) | 387 |
| BanII | GRGCYC | 2 cut(s) | 934, 1260 |
| BauI | CACGAG | 2 cut(s) | 191, 486 |
| BbrPI | CACGTG | 1 cut(s) | 978 |
| BbsI | GAAGAC | 2 cut(s) | 485, 1292 |
| Bbv12I | GWGCWC | 3 cut(s) | 815, 934, 1260 |
| BbvI | GCAGC | 4 cut(s) | 292, 898, 920, 993 |
| BccI | CCATC | 3 cut(s) | 96, 954, 1206 |
| BclI | TGATCA | 2 cut(s) | 94, 972 |
| BcnI | CCSGG | 1 cut(s) | 1191 |
| BcoDI | GTCTC | 5 cut(s) | 110, 173, 300, 846, 868 |
| BcuI | ACTAGT | 1 cut(s) | 775 |
| BfaI | CTAG | 4 cut(s) | 776, 786, 954, 1127 |
| BglII | AGATCT | 1 cut(s) | 225 |
| BisI | GCNGC | 4 cut(s) | 306, 909, 912, 982 |
| BlsI | GCNGC | 4 cut(s) | 307, 910, 913, 983 |
| Bme1390I | CCNGG | 1 cut(s) | 1191 |
| BmeT110I | CYCGRG | 1 cut(s) | 498 |
| BmrFI | CCNGG | 1 cut(s) | 1191 |
| BmsI | GCATC | 2 cut(s) | 953, 982 |
| BmtI | GCTAGC | 2 cut(s) | 789, 957 |
| BpiI | GAAGAC | 2 cut(s) | 485, 1292 |
| BpuEI | CTTGAG | 3 cut(s) | 296, 501, 918 |
| BpuMI | CCSGG | 1 cut(s) | 1191 |
| BsaAI | YACGTR | 1 cut(s) | 978 |
| BsaBI | GATNNNNATC | 3 cut(s) | 87, 252, 378 |
| BsaI | GGTCTC | 1 cut(s) | 110 |
| BsaJI | CCNNGG | 1 cut(s) | 1189 |
| BsaWI | WCCGGW | 1 cut(s) | 986 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 151, 181, 843, 873 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 126, 193, 796, 1195 |
| Bse1I | ACTGG | 4 cut(s) | 145, 209, 790, 1106 |
| Bse3DI | GCAATG | 1 cut(s) | 1055 |
| Bse8I | GATNNNNATC | 3 cut(s) | 87, 252, 378 |
| BseDI | CCNNGG | 1 cut(s) | 1189 |
| BseGI | GGATG | 2 cut(s) | 576, 1217 |
| BseJI | GATNNNNATC | 3 cut(s) | 87, 252, 378 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 126, 193, 796, 1195 |
| BseMI | GCAATG | 1 cut(s) | 1055 |
| BseMII | CTCAG | 3 cut(s) | 139, 410, 1086 |
| BseNI | ACTGG | 4 cut(s) | 145, 209, 790, 1106 |
| BseRI | GAGGAG | 2 cut(s) | 856, 864 |
| BseSI | GKGCMC | 1 cut(s) | 1231 |
| BseXI | GCAGC | 4 cut(s) | 292, 898, 920, 993 |
| BsgI | GTGCAG | 1 cut(s) | 1000 |
| BshFI | GGCC | 1 cut(s) | 387 |
| BsiHKAI | GWGCWC | 3 cut(s) | 815, 934, 1260 |
| BsiHKCI | CYCGRG | 1 cut(s) | 498 |
| BsiSI | CCGG | 2 cut(s) | 987, 1191 |
| BslFI | GGGAC | 1 cut(s) | 497 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 126, 193, 796, 1195 |
| BsmAI | GTCTC | 5 cut(s) | 110, 173, 300, 846, 868 |
| BsmFI | GGGAC | 1 cut(s) | 497 |
| BsmI | GAATGC | 1 cut(s) | 182 |
| BsnI | GGCC | 1 cut(s) | 387 |
| Bso31I | GGTCTC | 1 cut(s) | 110 |
| BsoBI | CYCGRG | 1 cut(s) | 498 |
| Bsp1286I | GDGCHC | 4 cut(s) | 815, 934, 1231, 1260 |
| Bsp143I | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| BspACI | CCGC | 2 cut(s) | 109, 340 |
| BspANI | GGCC | 1 cut(s) | 387 |
| BspCNI | CTCAG | 3 cut(s) | 138, 409, 1085 |
| BspOI | GCTAGC | 2 cut(s) | 789, 957 |
| BspTNI | GGTCTC | 1 cut(s) | 110 |
| BsrDI | GCAATG | 1 cut(s) | 1055 |
| BsrI | ACTGG | 4 cut(s) | 145, 209, 790, 1106 |
| BssECI | CCNNGG | 1 cut(s) | 1189 |
| BssMI | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| BssSI | CACGAG | 2 cut(s) | 191, 486 |
| Bst2BI | CACGAG | 2 cut(s) | 191, 486 |
| BstBAI | YACGTR | 1 cut(s) | 978 |
| BstC8I | GCNNGC | 6 cut(s) | 180, 443, 787, 942, 955, 966 |
| BstDEI | CTNAG | 4 cut(s) | 125, 396, 664, 1072 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 124 |
| BstF5I | GGATG | 2 cut(s) | 576, 1217 |
| BstKTI | GATC | 7 cut(s) | 97, 228, 261, 426, 975, 1084, 1225 |
| BstMAI | GTCTC | 5 cut(s) | 110, 173, 300, 846, 868 |
| BstMBI | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 950 |
| BstNSI | RCATGY | 1 cut(s) | 1141 |
| BstSCI | CCNGG | 1 cut(s) | 1189 |
| BstSLI | GKGCMC | 1 cut(s) | 1231 |
| BstV1I | GCAGC | 4 cut(s) | 292, 898, 920, 993 |
| BstV2I | GAAGAC | 2 cut(s) | 485, 1292 |
| BstX2I | RGATCY | 1 cut(s) | 225 |
| BstYI | RGATCY | 1 cut(s) | 225 |
| BsuRI | GGCC | 1 cut(s) | 387 |
| BtsCI | GGATG | 2 cut(s) | 576, 1217 |
| BtsI | GCAGTG | 1 cut(s) | 203 |
| BtsIMutI | CAGTG | 7 cut(s) | 35, 203, 216, 456, 813, 1113, 1229 |
| Cac8I | GCNNGC | 6 cut(s) | 180, 443, 787, 942, 955, 966 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1079 |
| Csp6I | GTAC | 1 cut(s) | 1103 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 1174, 1209 |
| CviAII | CATG | 4 cut(s) | 174, 383, 404, 1138 |
| CviQI | GTAC | 1 cut(s) | 1103 |
| DdeI | CTNAG | 4 cut(s) | 125, 396, 664, 1072 |
| DpnI | GATC | 7 cut(s) | 96, 227, 260, 425, 974, 1083, 1224 |
| DpnII | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 860 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 860 |
| EaeI | YGGCCR | 1 cut(s) | 385 |
| Ecl136II | GAGCTC | 2 cut(s) | 932, 1258 |
| Eco24I | GRGCYC | 2 cut(s) | 934, 1260 |
| Eco31I | GGTCTC | 1 cut(s) | 110 |
| Eco53kI | GAGCTC | 2 cut(s) | 932, 1258 |
| Eco57I | CTGAAG | 2 cut(s) | 148, 497 |
| Eco72I | CACGTG | 1 cut(s) | 978 |
| Eco88I | CYCGRG | 1 cut(s) | 498 |
| EcoICRI | GAGCTC | 2 cut(s) | 932, 1258 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 124 |
| EcoT38I | GRGCYC | 2 cut(s) | 934, 1260 |
| FaeI | CATG | 4 cut(s) | 177, 386, 407, 1141 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 1147, 1179 |
| FaqI | GGGAC | 1 cut(s) | 497 |
| FatI | CATG | 4 cut(s) | 173, 382, 403, 1137 |
| FauNDI | CATATG | 2 cut(s) | 390, 896 |
| FbaI | TGATCA | 2 cut(s) | 94, 972 |
| Fnu4HI | GCNGC | 4 cut(s) | 306, 909, 912, 982 |
| FokI | GGATG | 2 cut(s) | 583, 1224 |
| FriOI | GRGCYC | 2 cut(s) | 934, 1260 |
| Fsp4HI | GCNGC | 4 cut(s) | 306, 909, 912, 982 |
| FspBI | CTAG | 4 cut(s) | 776, 786, 954, 1127 |
| GluI | GCNGC | 4 cut(s) | 306, 909, 912, 982 |
| HaeIII | GGCC | 1 cut(s) | 387 |
| HapII | CCGG | 2 cut(s) | 987, 1191 |
| Hin1II | CATG | 4 cut(s) | 177, 386, 407, 1141 |
| HindIII | AAGCTT | 1 cut(s) | 1161 |
| HinfI | GANTC | 9 cut(s) | 14, 280, 293, 394, 501, 521, 744, 750, 1088 |
| HpaII | CCGG | 2 cut(s) | 987, 1191 |
| HphI | GGTGA | 2 cut(s) | 1001, 1291 |
| Hpy188I | TCNGA | 5 cut(s) | 52, 258, 477, 749, 1075 |
| Hpy188III | TCNNGA | 4 cut(s) | 92, 488, 518, 1085 |
| HpyAV | CCTTC | 4 cut(s) | 197, 351, 482, 1306 |
| HpyCH4IV | ACGT | 2 cut(s) | 693, 977 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 950 |
| HpyF3I | CTNAG | 4 cut(s) | 125, 396, 664, 1072 |
| HpySE526I | ACGT | 2 cut(s) | 693, 977 |
| Hsp92II | CATG | 4 cut(s) | 177, 386, 407, 1141 |
| Ksp22I | TGATCA | 2 cut(s) | 94, 972 |
| Kzo9I | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| LmnI | GCTCC | 2 cut(s) | 159, 989 |
| Lsp1109I | GCAGC | 4 cut(s) | 292, 898, 920, 993 |
| LweI | GCATC | 2 cut(s) | 953, 982 |
| MaeI | CTAG | 4 cut(s) | 776, 786, 954, 1127 |
| MaeII | ACGT | 2 cut(s) | 693, 977 |
| MaeIII | GTNAC | 2 cut(s) | 778, 1168 |
| MalI | GATC | 7 cut(s) | 96, 227, 260, 425, 974, 1083, 1224 |
| MboI | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| MboII | GAAGA | 6 cut(s) | 490, 749, 752, 755, 1237, 1297 |
| MfeI | CAATTG | 2 cut(s) | 241, 1001 |
| MflI | RGATCY | 1 cut(s) | 225 |
| MhlI | GDGCHC | 4 cut(s) | 815, 934, 1231, 1260 |
| MlsI | TGGCCA | 1 cut(s) | 387 |
| MluCI | AATT | 5 cut(s) | 241, 613, 625, 1001, 1008 |
| MluNI | TGGCCA | 1 cut(s) | 387 |
| MlyI | GAGTC | 3 cut(s) | 302, 388, 510 |
| MmeI | TCCRAC | 2 cut(s) | 865, 1209 |
| MnlI | CCTC | 6 cut(s) | 347, 525, 691, 842, 877, 1209 |
| Mox20I | TGGCCA | 1 cut(s) | 387 |
| MscI | TGGCCA | 1 cut(s) | 387 |
| MseI | TTAA | 1 cut(s) | 1236 |
| MslI | CAYNNNNRTG | 1 cut(s) | 1175 |
| Msp20I | TGGCCA | 1 cut(s) | 387 |
| MspA1I | CMGCKG | 2 cut(s) | 911, 1049 |
| MspI | CCGG | 2 cut(s) | 987, 1191 |
| MspR9I | CCNGG | 1 cut(s) | 1191 |
| MunI | CAATTG | 2 cut(s) | 241, 1001 |
| Mva1269I | GAATGC | 1 cut(s) | 182 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 950 |
| NciI | CCSGG | 1 cut(s) | 1191 |
| NdeI | CATATG | 2 cut(s) | 390, 896 |
| NdeII | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| NheI | GCTAGC | 2 cut(s) | 785, 953 |
| NlaIII | CATG | 4 cut(s) | 177, 386, 407, 1141 |
| NmuCI | GTSAC | 2 cut(s) | 778, 1168 |
| NspI | RCATGY | 1 cut(s) | 1141 |
| PaeR7I | CTCGAG | 1 cut(s) | 498 |
| PciI | ACATGT | 1 cut(s) | 1137 |
| PctI | GAATGC | 1 cut(s) | 182 |
| PfeI | GAWTC | 6 cut(s) | 14, 280, 521, 744, 750, 1088 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 796 |
| PkrI | GCNGC | 4 cut(s) | 307, 910, 913, 983 |
| PleI | GAGTC | 3 cut(s) | 301, 388, 509 |
| PmaCI | CACGTG | 1 cut(s) | 978 |
| PmlI | CACGTG | 1 cut(s) | 978 |
| PpsI | GAGTC | 3 cut(s) | 301, 388, 509 |
| Ppu21I | YACGTR | 1 cut(s) | 978 |
| PscI | ACATGT | 1 cut(s) | 1137 |
| PshBI | ATTAAT | 1 cut(s) | 1236 |
| Psp124BI | GAGCTC | 2 cut(s) | 934, 1260 |
| PspCI | CACGTG | 1 cut(s) | 978 |
| PspXI | VCTCGAGB | 1 cut(s) | 498 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1079 |
| PsuI | RGATCY | 1 cut(s) | 225 |
| PvuII | CAGCTG | 2 cut(s) | 911, 1049 |
| RsaI | GTAC | 1 cut(s) | 1104 |
| RsaNI | GTAC | 1 cut(s) | 1103 |
| RseI | CAYNNNNRTG | 1 cut(s) | 1175 |
| SacI | GAGCTC | 2 cut(s) | 934, 1260 |
| SaqAI | TTAA | 1 cut(s) | 1236 |
| SatI | GCNGC | 4 cut(s) | 306, 909, 912, 982 |
| Sau3AI | GATC | 7 cut(s) | 94, 225, 258, 423, 972, 1081, 1222 |
| SchI | GAGTC | 3 cut(s) | 302, 388, 510 |
| ScrFI | CCNGG | 1 cut(s) | 1191 |
| SduI | GDGCHC | 4 cut(s) | 815, 934, 1231, 1260 |
| SfaNI | GCATC | 2 cut(s) | 953, 982 |
| Sfr274I | CTCGAG | 1 cut(s) | 498 |
| SlaI | CTCGAG | 1 cut(s) | 498 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 1175 |
| SmlI | CTYRAG | 4 cut(s) | 275, 498, 516, 933 |
| SmoI | CTYRAG | 4 cut(s) | 275, 498, 516, 933 |
| SpeI | ACTAGT | 1 cut(s) | 775 |
| Sse9I | AATT | 5 cut(s) | 241, 613, 625, 1001, 1008 |
| SsiI | CCGC | 2 cut(s) | 109, 340 |
| SspI | AATATT | 1 cut(s) | 588 |
| SspMI | CTAG | 4 cut(s) | 776, 786, 954, 1127 |
| SstI | GAGCTC | 2 cut(s) | 934, 1260 |
| StyD4I | CCNGG | 1 cut(s) | 1189 |
| TaiI | ACGT | 2 cut(s) | 696, 980 |
| TaqI | TCGA | 1 cut(s) | 499 |
| TasI | AATT | 5 cut(s) | 241, 613, 625, 1001, 1008 |
| TfiI | GAWTC | 6 cut(s) | 14, 280, 521, 744, 750, 1088 |
| Tru1I | TTAA | 1 cut(s) | 1236 |
| Tru9I | TTAA | 1 cut(s) | 1236 |
| TscAI | CASTG | 7 cut(s) | 42, 210, 216, 456, 820, 1113, 1236 |
| TseFI | GTSAC | 2 cut(s) | 778, 1168 |
| TseI | GCWGC | 4 cut(s) | 305, 908, 911, 981 |
| Tsp45I | GTSAC | 2 cut(s) | 778, 1168 |
| TspDTI | ATGAA | 4 cut(s) | 423, 513, 1044, 1122 |
| TspGWI | ACGGA | 1 cut(s) | 1224 |
| TspRI | CASTG | 7 cut(s) | 42, 210, 216, 456, 820, 1113, 1236 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 796 |
| VspI | ATTAAT | 1 cut(s) | 1236 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 124 |
| XceI | RCATGY | 1 cut(s) | 1141 |
| XhoI | CTCGAG | 1 cut(s) | 498 |
| XspI | CTAG | 4 cut(s) | 776, 786, 954, 1127 |