gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 6 - 133 | 1e-19 | 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) |
|---|---|---|---|
| AciI | CCGC | 1 cut(s) | 553 |
| AclWI | GGATC | 1 cut(s) | 508 |
| AcsI | RAATTY | 5 cut(s) | 133, 161, 237, 277, 469 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 376 |
| AflIII | ACRYGT | 1 cut(s) | 565 |
| AgsI | TTSAA | 6 cut(s) | 65, 226, 248, 277, 463, 592 |
| AjnI | CCWGG | 1 cut(s) | 559 |
| AluBI | AGCT | 5 cut(s) | 95, 122, 304, 407, 614 |
| AluI | AGCT | 5 cut(s) | 95, 122, 304, 407, 614 |
| AlwI | GGATC | 1 cut(s) | 508 |
| ApeKI | GCWGC | 2 cut(s) | 95, 215 |
| ApoI | RAATTY | 5 cut(s) | 133, 161, 237, 277, 469 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 39 |
| BauI | CACGAG | 1 cut(s) | 416 |
| BbvI | GCAGC | 2 cut(s) | 82, 227 |
| BccI | CCATC | 1 cut(s) | 161 |
| BciT130I | CCWGG | 1 cut(s) | 561 |
| BfaI | CTAG | 1 cut(s) | 260 |
| BfmI | CTRYAG | 1 cut(s) | 90 |
| BglII | AGATCT | 1 cut(s) | 229 |
| BisI | GCNGC | 3 cut(s) | 96, 216, 553 |
| BlsI | GCNGC | 3 cut(s) | 97, 217, 554 |
| Bme1390I | CCNGG | 1 cut(s) | 561 |
| BmrFI | CCNGG | 1 cut(s) | 561 |
| BmsI | GCATC | 2 cut(s) | 76, 485 |
| BpuEI | CTTGAG | 1 cut(s) | 521 |
| BsaAI | YACGTR | 1 cut(s) | 648 |
| BsaBI | GATNNNNATC | 1 cut(s) | 359 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 621, 651 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 376 |
| Bse1I | ACTGG | 1 cut(s) | 133 |
| Bse8I | GATNNNNATC | 1 cut(s) | 359 |
| BseBI | CCWGG | 1 cut(s) | 561 |
| BseJI | GATNNNNATC | 1 cut(s) | 359 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 376 |
| BseMII | CTCAG | 2 cut(s) | 305, 449 |
| BseNI | ACTGG | 1 cut(s) | 133 |
| BseRI | GAGGAG | 1 cut(s) | 60 |
| BseXI | GCAGC | 2 cut(s) | 82, 227 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 376 |
| BsmI | GAATGC | 1 cut(s) | 148 |
| Bsp143I | GATC | 2 cut(s) | 229, 500 |
| BspACI | CCGC | 1 cut(s) | 553 |
| BspCNI | CTCAG | 2 cut(s) | 304, 448 |
| BspHI | TCATGA | 1 cut(s) | 15 |
| BspPI | GGATC | 1 cut(s) | 508 |
| BsrI | ACTGG | 1 cut(s) | 133 |
| BssMI | GATC | 2 cut(s) | 229, 500 |
| BssSI | CACGAG | 1 cut(s) | 416 |
| Bst2BI | CACGAG | 1 cut(s) | 416 |
| Bst2UI | CCWGG | 1 cut(s) | 561 |
| Bst4CI | ACNGT | 1 cut(s) | 40 |
| Bst6I | CTCTTC | 1 cut(s) | 369 |
| BstBAI | YACGTR | 1 cut(s) | 648 |
| BstC8I | GCNNGC | 1 cut(s) | 557 |
| BstDEI | CTNAG | 7 cut(s) | 99, 291, 423, 429, 435, 447, 486 |
| BstKTI | GATC | 2 cut(s) | 232, 503 |
| BstMBI | GATC | 2 cut(s) | 229, 500 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 95, 549 |
| BstNI | CCWGG | 1 cut(s) | 561 |
| BstNSI | RCATGY | 1 cut(s) | 569 |
| BstSCI | CCNGG | 1 cut(s) | 559 |
| BstSFI | CTRYAG | 1 cut(s) | 90 |
| BstV1I | GCAGC | 2 cut(s) | 82, 227 |
| BstX2I | RGATCY | 2 cut(s) | 229, 500 |
| BstYI | RGATCY | 2 cut(s) | 229, 500 |
| BtsI | GCAGTG | 2 cut(s) | 281, 629 |
| BtsIMutI | CAGTG | 2 cut(s) | 281, 629 |
| Cac8I | GCNNGC | 1 cut(s) | 557 |
| CciI | TCATGA | 1 cut(s) | 15 |
| CseI | GACGC | 1 cut(s) | 355 |
| CviAII | CATG | 3 cut(s) | 16, 256, 566 |
| DdeI | CTNAG | 7 cut(s) | 99, 291, 423, 429, 435, 447, 486 |
| DpnI | GATC | 2 cut(s) | 231, 502 |
| DpnII | GATC | 2 cut(s) | 229, 500 |
| Eam1104I | CTCTTC | 1 cut(s) | 369 |
| EarI | CTCTTC | 1 cut(s) | 369 |
| Eco32I | GATATC | 1 cut(s) | 357 |
| EcoRI | GAATTC | 1 cut(s) | 277 |
| EcoRII | CCWGG | 1 cut(s) | 559 |
| EcoRV | GATATC | 1 cut(s) | 357 |
| FaeI | CATG | 3 cut(s) | 19, 259, 569 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 443, 475, 585, 617 |
| FatI | CATG | 3 cut(s) | 15, 255, 565 |
| Fnu4HI | GCNGC | 3 cut(s) | 96, 216, 553 |
| Fsp4HI | GCNGC | 3 cut(s) | 96, 216, 553 |
| FspBI | CTAG | 1 cut(s) | 260 |
| GluI | GCNGC | 3 cut(s) | 96, 216, 553 |
| HgaI | GACGC | 1 cut(s) | 355 |
| Hin1II | CATG | 3 cut(s) | 19, 259, 569 |
| HinfI | GANTC | 4 cut(s) | 52, 110, 340, 433 |
| Hpy166II | GTNNAC | 2 cut(s) | 265, 412 |
| Hpy188I | TCNGA | 4 cut(s) | 34, 115, 234, 345 |
| Hpy188III | TCNNGA | 2 cut(s) | 16, 56 |
| Hpy8I | GTNNAC | 2 cut(s) | 265, 412 |
| HpyAV | CCTTC | 2 cut(s) | 193, 322 |
| HpyCH4III | ACNGT | 1 cut(s) | 40 |
| HpyCH4IV | ACGT | 1 cut(s) | 647 |
| HpyCH4V | TGCA | 1 cut(s) | 476 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 95, 549 |
| HpyF3I | CTNAG | 7 cut(s) | 99, 291, 423, 429, 435, 447, 486 |
| HpySE526I | ACGT | 1 cut(s) | 647 |
| Hsp92II | CATG | 3 cut(s) | 19, 259, 569 |
| Kzo9I | GATC | 2 cut(s) | 229, 500 |
| LpnPI | CCDG | 5 cut(s) | 69, 114, 482, 546, 573 |
| Lsp1109I | GCAGC | 2 cut(s) | 82, 227 |
| LweI | GCATC | 2 cut(s) | 76, 485 |
| MaeI | CTAG | 1 cut(s) | 260 |
| MaeII | ACGT | 1 cut(s) | 647 |
| MalI | GATC | 2 cut(s) | 231, 502 |
| MboI | GATC | 2 cut(s) | 229, 500 |
| MboII | GAAGA | 2 cut(s) | 260, 386 |
| MflI | RGATCY | 2 cut(s) | 229, 500 |
| MluCI | AATT | 7 cut(s) | 133, 161, 221, 237, 277, 469, 641 |
| MlyI | GAGTC | 3 cut(s) | 119, 349, 427 |
| MnlI | CCTC | 7 cut(s) | 38, 41, 300, 370, 425, 493, 578 |
| MroXI | GAANNNNTTC | 1 cut(s) | 39 |
| MseI | TTAA | 3 cut(s) | 513, 570, 606 |
| MspR9I | CCNGG | 1 cut(s) | 561 |
| Mva1269I | GAATGC | 1 cut(s) | 148 |
| MvaI | CCWGG | 1 cut(s) | 561 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 95, 549 |
| NdeII | GATC | 2 cut(s) | 229, 500 |
| NlaIII | CATG | 3 cut(s) | 19, 259, 569 |
| NspI | RCATGY | 1 cut(s) | 569 |
| PagI | TCATGA | 1 cut(s) | 15 |
| PciI | ACATGT | 1 cut(s) | 565 |
| PctI | GAATGC | 1 cut(s) | 148 |
| PdmI | GAANNNNTTC | 1 cut(s) | 39 |
| PfeI | GAWTC | 1 cut(s) | 52 |
| PkrI | GCNGC | 3 cut(s) | 97, 217, 554 |
| PleI | GAGTC | 3 cut(s) | 118, 348, 427 |
| PpsI | GAGTC | 3 cut(s) | 118, 348, 427 |
| Ppu21I | YACGTR | 1 cut(s) | 648 |
| PscI | ACATGT | 1 cut(s) | 565 |
| Psp6I | CCWGG | 1 cut(s) | 559 |
| PspGI | CCWGG | 1 cut(s) | 559 |
| PsuI | RGATCY | 2 cut(s) | 229, 500 |
| SaqAI | TTAA | 3 cut(s) | 513, 570, 606 |
| SatI | GCNGC | 3 cut(s) | 96, 216, 553 |
| Sau3AI | GATC | 2 cut(s) | 229, 500 |
| SchI | GAGTC | 3 cut(s) | 119, 349, 427 |
| ScrFI | CCNGG | 1 cut(s) | 561 |
| SfaNI | GCATC | 2 cut(s) | 76, 485 |
| SfcI | CTRYAG | 1 cut(s) | 90 |
| SmlI | CTYRAG | 1 cut(s) | 536 |
| SmoI | CTYRAG | 1 cut(s) | 536 |
| Sse9I | AATT | 7 cut(s) | 133, 161, 221, 237, 277, 469, 641 |
| SsiI | CCGC | 1 cut(s) | 553 |
| SspMI | CTAG | 1 cut(s) | 260 |
| StyD4I | CCNGG | 1 cut(s) | 559 |
| TaaI | ACNGT | 1 cut(s) | 40 |
| TaiI | ACGT | 1 cut(s) | 650 |
| TaqI | TCGA | 1 cut(s) | 43 |
| TasI | AATT | 7 cut(s) | 133, 161, 221, 237, 277, 469, 641 |
| TauI | GCSGC | 1 cut(s) | 555 |
| TfiI | GAWTC | 1 cut(s) | 52 |
| Tru1I | TTAA | 3 cut(s) | 513, 570, 606 |
| Tru9I | TTAA | 3 cut(s) | 513, 570, 606 |
| TscAI | CASTG | 2 cut(s) | 288, 636 |
| TseI | GCWGC | 2 cut(s) | 95, 215 |
| TspDTI | ATGAA | 4 cut(s) | 32, 155, 173, 212 |
| TspRI | CASTG | 2 cut(s) | 288, 636 |
| XapI | RAATTY | 5 cut(s) | 133, 161, 237, 277, 469 |
| XceI | RCATGY | 1 cut(s) | 569 |
| XmnI | GAANNNNTTC | 1 cut(s) | 39 |
| XspI | CTAG | 1 cut(s) | 260 |