transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 35 - 224 | 4.2e-24 | gag-polypeptide of LTR copia-type |
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) |
|---|---|---|---|
| Acc36I | ACCTGC | 1 cut(s) | 1372 |
| AccI | GTMKAC | 1 cut(s) | 1403 |
| AclWI | GGATC | 4 cut(s) | 354, 503, 609, 1033 |
| AcuI | CTGAAG | 2 cut(s) | 459, 1062 |
| AhlI | ACTAGT | 1 cut(s) | 406 |
| AjnI | CCWGG | 1 cut(s) | 567 |
| AluBI | AGCT | 7 cut(s) | 30, 287, 501, 992, 1453, 1473, 1532 |
| AluI | AGCT | 7 cut(s) | 30, 287, 501, 992, 1453, 1473, 1532 |
| Alw21I | GWGCWC | 1 cut(s) | 525 |
| Alw26I | GTCTC | 2 cut(s) | 555, 1332 |
| AlwI | GGATC | 4 cut(s) | 354, 503, 609, 1033 |
| AoxI | GGCC | 2 cut(s) | 570, 1621 |
| ApeKI | GCWGC | 1 cut(s) | 947 |
| AseI | ATTAAT | 1 cut(s) | 705 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 814 |
| AspS9I | GGNCC | 1 cut(s) | 1621 |
| AsuHPI | GGTGA | 1 cut(s) | 352 |
| AsuII | TTCGAA | 1 cut(s) | 1177 |
| BbsI | GAAGAC | 1 cut(s) | 174 |
| Bbv12I | GWGCWC | 1 cut(s) | 525 |
| BbvI | GCAGC | 1 cut(s) | 934 |
| BccI | CCATC | 1 cut(s) | 50 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 446, 480 |
| BciT130I | CCWGG | 1 cut(s) | 569 |
| BcoDI | GTCTC | 2 cut(s) | 555, 1332 |
| BcuI | ACTAGT | 1 cut(s) | 406 |
| BfaI | CTAG | 3 cut(s) | 213, 407, 605 |
| BfuAI | ACCTGC | 1 cut(s) | 1372 |
| BisI | GCNGC | 1 cut(s) | 948 |
| BlsI | GCNGC | 1 cut(s) | 949 |
| Bme1390I | CCNGG | 1 cut(s) | 569 |
| BmgT120I | GGNCC | 1 cut(s) | 1621 |
| BmrFI | CCNGG | 1 cut(s) | 569 |
| BmsI | GCATC | 1 cut(s) | 1102 |
| BpiI | GAAGAC | 1 cut(s) | 174 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 1699, 1731 |
| BpmI | CTGGAG | 1 cut(s) | 10 |
| Bpu10I | CCTNAGC | 3 cut(s) | 207, 597, 1716 |
| Bpu14I | TTCGAA | 1 cut(s) | 1177 |
| BpuEI | CTTGAG | 4 cut(s) | 93, 790, 1256, 1314 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1030 |
| BsaI | GGTCTC | 1 cut(s) | 555 |
| BsaJI | CCNNGG | 1 cut(s) | 159 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 1000, 1030 |
| Bse1I | ACTGG | 1 cut(s) | 633 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1030 |
| BseBI | CCWGG | 1 cut(s) | 569 |
| BseDI | CCNNGG | 1 cut(s) | 159 |
| BseGI | GGATG | 4 cut(s) | 151, 511, 1321, 1453 |
| BseJI | GATNNNNATC | 1 cut(s) | 1030 |
| BseMII | CTCAG | 3 cut(s) | 611, 1412, 1730 |
| BseNI | ACTGG | 1 cut(s) | 633 |
| BseRI | GAGGAG | 1 cut(s) | 533 |
| BseXI | GCAGC | 1 cut(s) | 934 |
| BshFI | GGCC | 2 cut(s) | 572, 1623 |
| BsiHKAI | GWGCWC | 1 cut(s) | 525 |
| BslFI | GGGAC | 1 cut(s) | 1352 |
| BsmAI | GTCTC | 2 cut(s) | 555, 1332 |
| BsmFI | GGGAC | 1 cut(s) | 1352 |
| BsnI | GGCC | 2 cut(s) | 572, 1623 |
| Bso31I | GGTCTC | 1 cut(s) | 555 |
| Bsp119I | TTCGAA | 1 cut(s) | 1177 |
| Bsp1286I | GDGCHC | 1 cut(s) | 525 |
| Bsp143I | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| Bsp19I | CCATGG | 1 cut(s) | 159 |
| BspANI | GGCC | 2 cut(s) | 572, 1623 |
| BspCNI | CTCAG | 3 cut(s) | 610, 1411, 1729 |
| BspMI | ACCTGC | 1 cut(s) | 1372 |
| BspPI | GGATC | 4 cut(s) | 354, 503, 609, 1033 |
| BspT104I | TTCGAA | 1 cut(s) | 1177 |
| BspTNI | GGTCTC | 1 cut(s) | 555 |
| BsrI | ACTGG | 1 cut(s) | 633 |
| BssECI | CCNNGG | 1 cut(s) | 159 |
| BssMI | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| BssT1I | CCWWGG | 1 cut(s) | 159 |
| Bst2UI | CCWGG | 1 cut(s) | 569 |
| Bst4CI | ACNGT | 4 cut(s) | 41, 323, 956, 1731 |
| Bst6I | CTCTTC | 2 cut(s) | 558, 1038 |
| BstBI | TTCGAA | 1 cut(s) | 1177 |
| BstC8I | GCNNGC | 1 cut(s) | 1577 |
| BstDEI | CTNAG | 6 cut(s) | 207, 545, 597, 1398, 1509, 1716 |
| BstDSI | CCRYGG | 1 cut(s) | 159 |
| BstF5I | GGATG | 4 cut(s) | 151, 511, 1321, 1453 |
| BstKTI | GATC | 5 cut(s) | 349, 511, 604, 1028, 1357 |
| BstMAI | GTCTC | 2 cut(s) | 555, 1332 |
| BstMBI | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 338, 881, 1450 |
| BstNI | CCWGG | 1 cut(s) | 569 |
| BstSCI | CCNGG | 1 cut(s) | 567 |
| BstV1I | GCAGC | 1 cut(s) | 934 |
| BstV2I | GAAGAC | 1 cut(s) | 174 |
| BstX2I | RGATCY | 3 cut(s) | 346, 601, 1025 |
| BstYI | RGATCY | 3 cut(s) | 346, 601, 1025 |
| BsuRI | GGCC | 2 cut(s) | 572, 1623 |
| BtgI | CCRYGG | 1 cut(s) | 159 |
| BtsCI | GGATG | 4 cut(s) | 151, 511, 1321, 1453 |
| BtsI | GCAGTG | 1 cut(s) | 327 |
| BtsIMutI | CAGTG | 2 cut(s) | 319, 327 |
| BveI | ACCTGC | 1 cut(s) | 1372 |
| Cac8I | GCNNGC | 1 cut(s) | 1577 |
| Cfr13I | GGNCC | 1 cut(s) | 1621 |
| CviAII | CATG | 8 cut(s) | 160, 342, 464, 964, 980, 1005, 1349, 1646 |
| DdeI | CTNAG | 6 cut(s) | 207, 545, 597, 1398, 1509, 1716 |
| DpnI | GATC | 5 cut(s) | 348, 510, 603, 1027, 1356 |
| DpnII | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| DraI | TTTAAA | 3 cut(s) | 766, 996, 1459 |
| Eam1104I | CTCTTC | 2 cut(s) | 558, 1038 |
| EarI | CTCTTC | 2 cut(s) | 558, 1038 |
| Eco130I | CCWWGG | 1 cut(s) | 159 |
| Eco31I | GGTCTC | 1 cut(s) | 555 |
| Eco57I | CTGAAG | 2 cut(s) | 459, 1062 |
| EcoRI | GAATTC | 2 cut(s) | 201, 1690 |
| EcoRII | CCWGG | 1 cut(s) | 567 |
| EcoT14I | CCWWGG | 1 cut(s) | 159 |
| ErhI | CCWWGG | 1 cut(s) | 159 |
| FaeI | CATG | 8 cut(s) | 163, 345, 467, 967, 983, 1008, 1352, 1649 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 1218, 1250, 1457, 1489 |
| FaqI | GGGAC | 1 cut(s) | 1352 |
| FatI | CATG | 8 cut(s) | 159, 341, 463, 963, 979, 1004, 1348, 1645 |
| FblI | GTMKAC | 1 cut(s) | 1403 |
| Fnu4HI | GCNGC | 1 cut(s) | 948 |
| FokI | GGATG | 4 cut(s) | 138, 518, 1328, 1460 |
| Fsp4HI | GCNGC | 1 cut(s) | 948 |
| FspBI | CTAG | 3 cut(s) | 213, 407, 605 |
| GluI | GCNGC | 1 cut(s) | 948 |
| GsuI | CTGGAG | 1 cut(s) | 10 |
| HaeIII | GGCC | 2 cut(s) | 572, 1623 |
| Hin1II | CATG | 8 cut(s) | 163, 345, 467, 967, 983, 1008, 1352, 1649 |
| HincII | GTYRAC | 1 cut(s) | 753 |
| HindII | GTYRAC | 1 cut(s) | 753 |
| HindIII | AAGCTT | 2 cut(s) | 990, 1471 |
| HinfI | GANTC | 8 cut(s) | 170, 446, 660, 731, 847, 1037, 1094, 1649 |
| HphI | GGTGA | 1 cut(s) | 352 |
| Hpy166II | GTNNAC | 3 cut(s) | 44, 753, 1404 |
| Hpy188I | TCNGA | 9 cut(s) | 498, 777, 820, 1036, 1042, 1090, 1099, 1498, 1707 |
| Hpy8I | GTNNAC | 3 cut(s) | 44, 753, 1404 |
| Hpy99I | CGWCG | 1 cut(s) | 458 |
| HpyAV | CCTTC | 7 cut(s) | 292, 362, 567, 586, 1016, 1541, 1556 |
| HpyCH4III | ACNGT | 4 cut(s) | 41, 323, 956, 1731 |
| HpyCH4IV | ACGT | 1 cut(s) | 13 |
| HpyCH4V | TGCA | 5 cut(s) | 197, 1312, 1381, 1444, 1575 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 338, 881, 1450 |
| HpyF3I | CTNAG | 6 cut(s) | 207, 545, 597, 1398, 1509, 1716 |
| HpySE526I | ACGT | 1 cut(s) | 13 |
| Hsp92II | CATG | 8 cut(s) | 163, 345, 467, 967, 983, 1008, 1352, 1649 |
| Kzo9I | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| LmnI | GCTCC | 4 cut(s) | 35, 498, 520, 1660 |
| Lsp1109I | GCAGC | 1 cut(s) | 934 |
| LweI | GCATC | 1 cut(s) | 1102 |
| MaeI | CTAG | 3 cut(s) | 213, 407, 605 |
| MaeII | ACGT | 1 cut(s) | 13 |
| MaeIII | GTNAC | 5 cut(s) | 242, 323, 481, 959, 1721 |
| MalI | GATC | 5 cut(s) | 348, 510, 603, 1027, 1356 |
| MboI | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| MfeI | CAATTG | 1 cut(s) | 1148 |
| MflI | RGATCY | 3 cut(s) | 346, 601, 1025 |
| MhlI | GDGCHC | 1 cut(s) | 525 |
| MlyI | GAGTC | 2 cut(s) | 164, 654 |
| MmeI | TCCRAC | 3 cut(s) | 179, 476, 1655 |
| MnlI | CCTC | 9 cut(s) | 34, 84, 229, 380, 511, 814, 824, 1039, 1589 |
| MroXI | GAANNNNTTC | 1 cut(s) | 814 |
| MslI | CAYNNNNRTG | 1 cut(s) | 12 |
| MspR9I | CCNGG | 1 cut(s) | 569 |
| MunI | CAATTG | 1 cut(s) | 1148 |
| MvaI | CCWGG | 1 cut(s) | 569 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 338, 881, 1450 |
| NcoI | CCATGG | 1 cut(s) | 159 |
| NdeII | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| NlaIII | CATG | 8 cut(s) | 163, 345, 467, 967, 983, 1008, 1352, 1649 |
| NmeAIII | GCCGAG | 1 cut(s) | 448 |
| NmuCI | GTSAC | 3 cut(s) | 242, 323, 1721 |
| NspV | TTCGAA | 1 cut(s) | 1177 |
| PdmI | GAANNNNTTC | 1 cut(s) | 814 |
| PfeI | GAWTC | 6 cut(s) | 446, 731, 847, 1037, 1094, 1649 |
| PkrI | GCNGC | 1 cut(s) | 949 |
| PleI | GAGTC | 2 cut(s) | 164, 654 |
| PpsI | GAGTC | 2 cut(s) | 164, 654 |
| PshBI | ATTAAT | 1 cut(s) | 705 |
| Psp6I | CCWGG | 1 cut(s) | 567 |
| PspGI | CCWGG | 1 cut(s) | 567 |
| PspPI | GGNCC | 1 cut(s) | 1621 |
| PsuI | RGATCY | 3 cut(s) | 346, 601, 1025 |
| RseI | CAYNNNNRTG | 1 cut(s) | 12 |
| SatI | GCNGC | 1 cut(s) | 948 |
| Sau3AI | GATC | 5 cut(s) | 346, 508, 601, 1025, 1354 |
| Sau96I | GGNCC | 1 cut(s) | 1621 |
| SchI | GAGTC | 2 cut(s) | 164, 654 |
| ScrFI | CCNGG | 1 cut(s) | 569 |
| SduI | GDGCHC | 1 cut(s) | 525 |
| SfaNI | GCATC | 1 cut(s) | 1102 |
| SfuI | TTCGAA | 1 cut(s) | 1177 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 12 |
| SmlI | CTYRAG | 4 cut(s) | 108, 805, 1235, 1329 |
| SmoI | CTYRAG | 4 cut(s) | 108, 805, 1235, 1329 |
| SpeI | ACTAGT | 1 cut(s) | 406 |
| SspI | AATATT | 1 cut(s) | 1078 |
| SspMI | CTAG | 3 cut(s) | 213, 407, 605 |
| StyD4I | CCNGG | 1 cut(s) | 567 |
| StyI | CCWWGG | 1 cut(s) | 159 |
| TaaI | ACNGT | 4 cut(s) | 41, 323, 956, 1731 |
| TaiI | ACGT | 1 cut(s) | 16 |
| TaqI | TCGA | 2 cut(s) | 453, 1177 |
| TfiI | GAWTC | 6 cut(s) | 446, 731, 847, 1037, 1094, 1649 |
| TscAI | CASTG | 2 cut(s) | 326, 334 |
| TseFI | GTSAC | 3 cut(s) | 242, 323, 1721 |
| TseI | GCWGC | 1 cut(s) | 947 |
| Tsp45I | GTSAC | 3 cut(s) | 242, 323, 1721 |
| TspRI | CASTG | 2 cut(s) | 326, 334 |
| VspI | ATTAAT | 1 cut(s) | 705 |
| XbaI | TCTAGA | 1 cut(s) | 604 |
| XmiI | GTMKAC | 1 cut(s) | 1403 |
| XmnI | GAANNNNTTC | 1 cut(s) | 814 |
| XspI | CTAG | 3 cut(s) | 213, 407, 605 |