Enzymatic polyprotein-like
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Peptidase_A3 | PF02160 | 123 - 301 | 1.3e-16 | Cauliflower mosaic virus peptidase (A3) |
| RVT_1 | PF00078 | 375 - 479 | 4e-22 | Reverse transcriptase (RNA-dependent DNA polymerase) |
| RT_RNaseH_2 | PF17919 | 543 - 630 | 1.5e-15 | RNase H-like domain found in reverse transcriptase |
| RT_RNaseH | PF17917 | 570 - 629 | 3.9e-09 | RNase H-like domain found in reverse transcriptase |
Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 2 cut(s) | 986, 1298 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 1345 |
| AccI | GTMKAC | 1 cut(s) | 1281 |
| AciI | CCGC | 1 cut(s) | 1265 |
| AclWI | GGATC | 1 cut(s) | 442 |
| AcuI | CTGAAG | 4 cut(s) | 72, 636, 682, 906 |
| AcyI | GRCGYC | 1 cut(s) | 342 |
| AfaI | GTAC | 1 cut(s) | 1940 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 1154, 1342, 1345 |
| AhlI | ACTAGT | 2 cut(s) | 905, 923 |
| AjnI | CCWGG | 2 cut(s) | 760, 1777 |
| AluBI | AGCT | 6 cut(s) | 50, 311, 967, 1217, 1354, 1901 |
| AluI | AGCT | 6 cut(s) | 50, 311, 967, 1217, 1354, 1901 |
| Alw26I | GTCTC | 1 cut(s) | 349 |
| AlwI | GGATC | 1 cut(s) | 442 |
| AoxI | GGCC | 3 cut(s) | 76, 619, 1174 |
| AseI | ATTAAT | 1 cut(s) | 1079 |
| Asp700I | GAANNNNTTC | 3 cut(s) | 270, 1040, 1394 |
| AspA2I | CCTAGG | 2 cut(s) | 1378, 1423 |
| AspS9I | GGNCC | 2 cut(s) | 758, 1752 |
| AsuHPI | GGTGA | 4 cut(s) | 529, 562, 815, 1394 |
| AvaII | GGWCC | 2 cut(s) | 758, 1752 |
| AvrII | CCTAGG | 2 cut(s) | 1378, 1423 |
| BbsI | GAAGAC | 1 cut(s) | 1294 |
| BccI | CCATC | 6 cut(s) | 202, 230, 518, 540, 1234, 1436 |
| BciT130I | CCWGG | 2 cut(s) | 762, 1779 |
| BclI | TGATCA | 1 cut(s) | 394 |
| BcoDI | GTCTC | 1 cut(s) | 349 |
| BcuI | ACTAGT | 2 cut(s) | 905, 923 |
| BfaI | CTAG | 7 cut(s) | 263, 906, 924, 1095, 1379, 1424, 1520 |
| BfmI | CTRYAG | 2 cut(s) | 1724, 1830 |
| BglII | AGATCT | 3 cut(s) | 1060, 1479, 1797 |
| BlnI | CCTAGG | 2 cut(s) | 1378, 1423 |
| Bme1390I | CCNGG | 2 cut(s) | 762, 1779 |
| Bme18I | GGWCC | 2 cut(s) | 758, 1752 |
| BmgT120I | GGNCC | 2 cut(s) | 758, 1752 |
| BmiI | GGNNCC | 1 cut(s) | 183 |
| BmrFI | CCNGG | 2 cut(s) | 762, 1779 |
| BmsI | GCATC | 5 cut(s) | 1119, 1141, 1284, 1498, 1723 |
| BpiI | GAAGAC | 1 cut(s) | 1294 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 1132, 1164 |
| BpmI | CTGGAG | 2 cut(s) | 1095, 1881 |
| BpuEI | CTTGAG | 2 cut(s) | 932, 1493 |
| Bsa29I | ATCGAT | 1 cut(s) | 225 |
| BsaHI | GRCGYC | 1 cut(s) | 342 |
| BsaJI | CCNNGG | 3 cut(s) | 1378, 1423, 1531 |
| BsaWI | WCCGGW | 1 cut(s) | 1754 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 573, 603 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 1154, 1342, 1345 |
| Bse1I | ACTGG | 4 cut(s) | 255, 351, 514, 1159 |
| Bse3DI | GCAATG | 1 cut(s) | 1593 |
| BseBI | CCWGG | 2 cut(s) | 762, 1779 |
| BseCI | ATCGAT | 1 cut(s) | 225 |
| BseDI | CCNNGG | 3 cut(s) | 1378, 1423, 1531 |
| BseGI | GGATG | 6 cut(s) | 594, 685, 930, 1132, 1374, 1447 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 1154, 1342, 1345 |
| BseMI | GCAATG | 1 cut(s) | 1593 |
| BseMII | CTCAG | 3 cut(s) | 788, 1128, 1587 |
| BseNI | ACTGG | 4 cut(s) | 255, 351, 514, 1159 |
| BseRI | GAGGAG | 2 cut(s) | 180, 1677 |
| BshFI | GGCC | 3 cut(s) | 78, 621, 1176 |
| BshVI | ATCGAT | 1 cut(s) | 225 |
| BsiSI | CCGG | 1 cut(s) | 1755 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 1154, 1342, 1345 |
| BsmAI | GTCTC | 1 cut(s) | 349 |
| BsmBI | CGTCTC | 1 cut(s) | 349 |
| BsmI | GAATGC | 3 cut(s) | 44, 287, 1115 |
| BsnI | GGCC | 3 cut(s) | 78, 621, 1176 |
| Bsp143I | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| BspACI | CCGC | 1 cut(s) | 1265 |
| BspANI | GGCC | 3 cut(s) | 78, 621, 1176 |
| BspCNI | CTCAG | 3 cut(s) | 787, 1129, 1586 |
| BspDI | ATCGAT | 1 cut(s) | 225 |
| BspLI | GGNNCC | 1 cut(s) | 183 |
| BspMAI | CTGCAG | 2 cut(s) | 1728, 1834 |
| BspPI | GGATC | 1 cut(s) | 442 |
| BsrDI | GCAATG | 1 cut(s) | 1593 |
| BsrI | ACTGG | 4 cut(s) | 255, 351, 514, 1159 |
| BssECI | CCNNGG | 3 cut(s) | 1378, 1423, 1531 |
| BssMI | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| BssNI | GRCGYC | 1 cut(s) | 342 |
| BssT1I | CCWWGG | 3 cut(s) | 1378, 1423, 1531 |
| Bst2UI | CCWGG | 2 cut(s) | 762, 1779 |
| Bst4CI | ACNGT | 3 cut(s) | 448, 589, 1925 |
| Bst6I | CTCTTC | 4 cut(s) | 6, 449, 1695, 1698 |
| BstACI | GRCGYC | 1 cut(s) | 342 |
| BstDEI | CTNAG | 5 cut(s) | 69, 774, 1137, 1512, 1573 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1340 |
| BstF5I | GGATG | 6 cut(s) | 594, 685, 930, 1132, 1374, 1447 |
| BstKTI | GATC | 8 cut(s) | 397, 437, 629, 808, 1033, 1063, 1482, 1800 |
| BstMAI | GTCTC | 1 cut(s) | 349 |
| BstMBI | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 84, 1824 |
| BstNI | CCWGG | 2 cut(s) | 762, 1779 |
| BstNSI | RCATGY | 2 cut(s) | 419, 1262 |
| BstSCI | CCNGG | 2 cut(s) | 760, 1777 |
| BstSFI | CTRYAG | 2 cut(s) | 1724, 1830 |
| BstV2I | GAAGAC | 1 cut(s) | 1294 |
| BstX2I | RGATCY | 3 cut(s) | 1060, 1479, 1797 |
| BstYI | RGATCY | 3 cut(s) | 1060, 1479, 1797 |
| Bsu15I | ATCGAT | 1 cut(s) | 225 |
| BsuRI | GGCC | 3 cut(s) | 78, 621, 1176 |
| BsuTUI | ATCGAT | 1 cut(s) | 225 |
| BtsCI | GGATG | 6 cut(s) | 594, 685, 930, 1132, 1374, 1447 |
| BtsIMutI | CAGTG | 1 cut(s) | 1152 |
| Cfr13I | GGNCC | 2 cut(s) | 758, 1752 |
| ClaI | ATCGAT | 1 cut(s) | 225 |
| CseI | GACGC | 1 cut(s) | 331 |
| Csp6I | GTAC | 1 cut(s) | 1939 |
| CviQI | GTAC | 1 cut(s) | 1939 |
| DdeI | CTNAG | 5 cut(s) | 69, 774, 1137, 1512, 1573 |
| DpnI | GATC | 8 cut(s) | 396, 436, 628, 807, 1032, 1062, 1481, 1799 |
| DpnII | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| DraI | TTTAAA | 1 cut(s) | 1890 |
| DrdI | GACNNNNNNGTC | 2 cut(s) | 986, 1298 |
| DseDI | GACNNNNNNGTC | 2 cut(s) | 986, 1298 |
| Eam1104I | CTCTTC | 4 cut(s) | 6, 449, 1695, 1698 |
| EarI | CTCTTC | 4 cut(s) | 6, 449, 1695, 1698 |
| Eco130I | CCWWGG | 3 cut(s) | 1378, 1423, 1531 |
| Eco47I | GGWCC | 2 cut(s) | 758, 1752 |
| Eco57I | CTGAAG | 4 cut(s) | 72, 636, 682, 906 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1340 |
| EcoO109I | RGGNCCY | 1 cut(s) | 758 |
| EcoRI | GAATTC | 2 cut(s) | 1040, 1500 |
| EcoRII | CCWGG | 2 cut(s) | 760, 1777 |
| EcoT14I | CCWWGG | 3 cut(s) | 1378, 1423, 1531 |
| EcoT22I | ATGCAT | 1 cut(s) | 1134 |
| ErhI | CCWWGG | 3 cut(s) | 1378, 1423, 1531 |
| Esp3I | CGTCTC | 1 cut(s) | 349 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 852, 884, 1379, 1411 |
| FbaI | TGATCA | 1 cut(s) | 394 |
| FblI | GTMKAC | 1 cut(s) | 1281 |
| FokI | GGATG | 6 cut(s) | 581, 692, 917, 1119, 1361, 1454 |
| FspBI | CTAG | 7 cut(s) | 263, 906, 924, 1095, 1379, 1424, 1520 |
| GsuI | CTGGAG | 2 cut(s) | 1095, 1881 |
| HaeIII | GGCC | 3 cut(s) | 78, 621, 1176 |
| HapII | CCGG | 1 cut(s) | 1755 |
| HgaI | GACGC | 1 cut(s) | 331 |
| Hin1I | GRCGYC | 1 cut(s) | 342 |
| HincII | GTYRAC | 1 cut(s) | 1581 |
| HindII | GTYRAC | 1 cut(s) | 1581 |
| HindIII | AAGCTT | 1 cut(s) | 965 |
| HinfI | GANTC | 5 cut(s) | 14, 878, 1371, 1516, 1527 |
| HpaI | GTTAAC | 1 cut(s) | 1581 |
| HpaII | CCGG | 1 cut(s) | 1755 |
| HphI | GGTGA | 4 cut(s) | 529, 562, 815, 1394 |
| Hpy166II | GTNNAC | 2 cut(s) | 1282, 1581 |
| Hpy8I | GTNNAC | 2 cut(s) | 1282, 1581 |
| HpyAV | CCTTC | 5 cut(s) | 195, 611, 1030, 1098, 1230 |
| HpyCH4III | ACNGT | 3 cut(s) | 448, 589, 1925 |
| HpyCH4IV | ACGT | 1 cut(s) | 1122 |
| HpyCH4V | TGCA | 7 cut(s) | 285, 464, 1132, 1275, 1674, 1726, 1832 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 84, 1824 |
| HpyF3I | CTNAG | 5 cut(s) | 69, 774, 1137, 1512, 1573 |
| HpySE526I | ACGT | 1 cut(s) | 1122 |
| Hsp92I | GRCGYC | 1 cut(s) | 342 |
| Ksp22I | TGATCA | 1 cut(s) | 394 |
| KspAI | GTTAAC | 1 cut(s) | 1581 |
| Kzo9I | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| LmnI | GCTCC | 2 cut(s) | 1114, 1222 |
| LweI | GCATC | 5 cut(s) | 1119, 1141, 1284, 1498, 1723 |
| MaeI | CTAG | 7 cut(s) | 263, 906, 924, 1095, 1379, 1424, 1520 |
| MaeII | ACGT | 1 cut(s) | 1122 |
| MaeIII | GTNAC | 1 cut(s) | 514 |
| MalI | GATC | 8 cut(s) | 396, 436, 628, 807, 1032, 1062, 1481, 1799 |
| MboI | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| MfeI | CAATTG | 1 cut(s) | 89 |
| MflI | RGATCY | 3 cut(s) | 1060, 1479, 1797 |
| MlyI | GAGTC | 2 cut(s) | 23, 1525 |
| MmeI | TCCRAC | 1 cut(s) | 685 |
| Mph1103I | ATGCAT | 1 cut(s) | 1134 |
| MroXI | GAANNNNTTC | 3 cut(s) | 270, 1040, 1394 |
| MseI | TTAA | 4 cut(s) | 1079, 1580, 1889, 1967 |
| MslI | CAYNNNNRTG | 3 cut(s) | 318, 414, 1338 |
| MspI | CCGG | 1 cut(s) | 1755 |
| MspR9I | CCNGG | 2 cut(s) | 762, 1779 |
| MunI | CAATTG | 1 cut(s) | 89 |
| Mva1269I | GAATGC | 3 cut(s) | 44, 287, 1115 |
| MvaI | CCWGG | 2 cut(s) | 762, 1779 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 84, 1824 |
| NdeII | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| NlaIV | GGNNCC | 1 cut(s) | 183 |
| NsiI | ATGCAT | 1 cut(s) | 1134 |
| NspI | RCATGY | 2 cut(s) | 419, 1262 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 231 |
| PctI | GAATGC | 3 cut(s) | 44, 287, 1115 |
| PdmI | GAANNNNTTC | 3 cut(s) | 270, 1040, 1394 |
| PfeI | GAWTC | 3 cut(s) | 878, 1371, 1527 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 1345 |
| PleI | GAGTC | 2 cut(s) | 22, 1524 |
| PpsI | GAGTC | 2 cut(s) | 22, 1524 |
| PpuMI | RGGWCCY | 1 cut(s) | 758 |
| PshBI | ATTAAT | 1 cut(s) | 1079 |
| Psp5II | RGGWCCY | 1 cut(s) | 758 |
| Psp6I | CCWGG | 2 cut(s) | 760, 1777 |
| PspGI | CCWGG | 2 cut(s) | 760, 1777 |
| PspN4I | GGNNCC | 1 cut(s) | 183 |
| PspPI | GGNCC | 2 cut(s) | 758, 1752 |
| PspPPI | RGGWCCY | 1 cut(s) | 758 |
| PstI | CTGCAG | 2 cut(s) | 1728, 1834 |
| PsuI | RGATCY | 3 cut(s) | 1060, 1479, 1797 |
| RsaI | GTAC | 1 cut(s) | 1940 |
| RsaNI | GTAC | 1 cut(s) | 1939 |
| RseI | CAYNNNNRTG | 3 cut(s) | 318, 414, 1338 |
| SaqAI | TTAA | 4 cut(s) | 1079, 1580, 1889, 1967 |
| Sau3AI | GATC | 8 cut(s) | 394, 434, 626, 805, 1030, 1060, 1479, 1797 |
| Sau96I | GGNCC | 2 cut(s) | 758, 1752 |
| SchI | GAGTC | 2 cut(s) | 23, 1525 |
| ScrFI | CCNGG | 2 cut(s) | 762, 1779 |
| SfaNI | GCATC | 5 cut(s) | 1119, 1141, 1284, 1498, 1723 |
| SfcI | CTRYAG | 2 cut(s) | 1724, 1830 |
| SinI | GGWCC | 2 cut(s) | 758, 1752 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 318, 414, 1338 |
| SmlI | CTYRAG | 2 cut(s) | 947, 1472 |
| SmoI | CTYRAG | 2 cut(s) | 947, 1472 |
| SpeI | ACTAGT | 2 cut(s) | 905, 923 |
| SsiI | CCGC | 1 cut(s) | 1265 |
| SspI | AATATT | 1 cut(s) | 116 |
| SspMI | CTAG | 7 cut(s) | 263, 906, 924, 1095, 1379, 1424, 1520 |
| StyD4I | CCNGG | 2 cut(s) | 760, 1777 |
| StyI | CCWWGG | 3 cut(s) | 1378, 1423, 1531 |
| TaaI | ACNGT | 3 cut(s) | 448, 589, 1925 |
| TaiI | ACGT | 1 cut(s) | 1125 |
| TaqI | TCGA | 3 cut(s) | 225, 335, 1407 |
| TaqII | GACCGA | 1 cut(s) | 744 |
| TfiI | GAWTC | 3 cut(s) | 878, 1371, 1527 |
| Tru1I | TTAA | 4 cut(s) | 1079, 1580, 1889, 1967 |
| Tru9I | TTAA | 4 cut(s) | 1079, 1580, 1889, 1967 |
| TscAI | CASTG | 1 cut(s) | 1159 |
| TspGWI | ACGGA | 1 cut(s) | 1646 |
| TspRI | CASTG | 1 cut(s) | 1159 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 1345 |
| VpaK11BI | GGWCC | 2 cut(s) | 758, 1752 |
| VspI | ATTAAT | 1 cut(s) | 1079 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1340 |
| XbaI | TCTAGA | 1 cut(s) | 1519 |
| XceI | RCATGY | 2 cut(s) | 419, 1262 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 477 |
| XmaJI | CCTAGG | 2 cut(s) | 1378, 1423 |
| XmiI | GTMKAC | 1 cut(s) | 1281 |
| XmnI | GAANNNNTTC | 3 cut(s) | 270, 1040, 1394 |
| XspI | CTAG | 7 cut(s) | 263, 906, 924, 1095, 1379, 1424, 1520 |
| Zsp2I | ATGCAT | 1 cut(s) | 1134 |