gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 73 - 222 | 3.3e-18 | 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) |
|---|---|---|---|
| Acc65I | GGTACC | 2 cut(s) | 119, 372 |
| AccB1I | GGYRCC | 3 cut(s) | 77, 119, 372 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 708 |
| AcsI | RAATTY | 1 cut(s) | 41 |
| AcuI | CTGAAG | 1 cut(s) | 152 |
| AfaI | GTAC | 3 cut(s) | 22, 121, 374 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 382, 577, 708 |
| AflII | CTTAAG | 1 cut(s) | 656 |
| AgsI | TTSAA | 4 cut(s) | 38, 65, 841, 862 |
| AjnI | CCWGG | 1 cut(s) | 829 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 800, 832 |
| AluBI | AGCT | 7 cut(s) | 7, 11, 485, 493, 560, 574, 724 |
| AluI | AGCT | 7 cut(s) | 7, 11, 485, 493, 560, 574, 724 |
| Alw21I | GWGCWC | 1 cut(s) | 224 |
| Alw26I | GTCTC | 1 cut(s) | 299 |
| AoxI | GGCC | 3 cut(s) | 273, 786, 804 |
| ApeKI | GCWGC | 1 cut(s) | 4 |
| ApoI | RAATTY | 1 cut(s) | 41 |
| Asp718I | GGTACC | 2 cut(s) | 119, 372 |
| AspS9I | GGNCC | 3 cut(s) | 274, 532, 940 |
| AsuHPI | GGTGA | 3 cut(s) | 292, 530, 592 |
| AsuNHI | GCTAGC | 1 cut(s) | 7 |
| AvaII | GGWCC | 2 cut(s) | 532, 940 |
| BaeGI | GKGCMC | 1 cut(s) | 82 |
| BanI | GGYRCC | 3 cut(s) | 77, 119, 372 |
| Bbv12I | GWGCWC | 1 cut(s) | 224 |
| BbvI | GCAGC | 1 cut(s) | 16 |
| BccI | CCATC | 5 cut(s) | 91, 265, 431, 543, 638 |
| BciT130I | CCWGG | 1 cut(s) | 831 |
| BciVI | GTATCC | 1 cut(s) | 332 |
| BclI | TGATCA | 1 cut(s) | 520 |
| BcoDI | GTCTC | 1 cut(s) | 299 |
| BfaI | CTAG | 1 cut(s) | 8 |
| BfmI | CTRYAG | 3 cut(s) | 353, 750, 820 |
| BfrI | CTTAAG | 1 cut(s) | 656 |
| BfuI | GTATCC | 1 cut(s) | 332 |
| BisI | GCNGC | 1 cut(s) | 5 |
| BlsI | GCNGC | 1 cut(s) | 6 |
| Bme1390I | CCNGG | 1 cut(s) | 831 |
| Bme18I | GGWCC | 2 cut(s) | 532, 940 |
| BmgT120I | GGNCC | 3 cut(s) | 274, 532, 940 |
| BmiI | GGNNCC | 3 cut(s) | 79, 121, 374 |
| BmrFI | CCNGG | 1 cut(s) | 831 |
| BmtI | GCTAGC | 1 cut(s) | 11 |
| Bpu10I | CCTNAGC | 1 cut(s) | 12 |
| BpuEI | CTTGAG | 2 cut(s) | 208, 560 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 748, 778 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 382, 577, 708 |
| Bse1I | ACTGG | 2 cut(s) | 121, 257 |
| BseBI | CCWGG | 1 cut(s) | 831 |
| BseGI | GGATG | 2 cut(s) | 83, 276 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 382, 577, 708 |
| BseMII | CTCAG | 5 cut(s) | 207, 324, 384, 508, 911 |
| BseNI | ACTGG | 2 cut(s) | 121, 257 |
| BseSI | GKGCMC | 1 cut(s) | 82 |
| BseXI | GCAGC | 1 cut(s) | 16 |
| BseYI | CCCAGC | 1 cut(s) | 570 |
| BsgI | GTGCAG | 2 cut(s) | 753, 762 |
| BshFI | GGCC | 3 cut(s) | 275, 788, 806 |
| BshNI | GGYRCC | 3 cut(s) | 77, 119, 372 |
| BsiHKAI | GWGCWC | 1 cut(s) | 224 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 382, 577, 708 |
| BsmAI | GTCTC | 1 cut(s) | 299 |
| BsmI | GAATGC | 3 cut(s) | 343, 412, 450 |
| BsnI | GGCC | 3 cut(s) | 275, 788, 806 |
| Bsp1286I | GDGCHC | 2 cut(s) | 82, 224 |
| Bsp143I | GATC | 2 cut(s) | 520, 883 |
| BspANI | GGCC | 3 cut(s) | 275, 788, 806 |
| BspCNI | CTCAG | 5 cut(s) | 208, 325, 385, 507, 912 |
| BspHI | TCATGA | 2 cut(s) | 25, 465 |
| BspLI | GGNNCC | 3 cut(s) | 79, 121, 374 |
| BspMAI | CTGCAG | 1 cut(s) | 357 |
| BspOI | GCTAGC | 1 cut(s) | 11 |
| BspT107I | GGYRCC | 3 cut(s) | 77, 119, 372 |
| BspTI | CTTAAG | 1 cut(s) | 656 |
| BsrI | ACTGG | 2 cut(s) | 121, 257 |
| BssMI | GATC | 2 cut(s) | 520, 883 |
| Bst2UI | CCWGG | 1 cut(s) | 831 |
| Bst4CI | ACNGT | 2 cut(s) | 310, 851 |
| Bst6I | CTCTTC | 4 cut(s) | 225, 284, 639, 731 |
| BstAFI | CTTAAG | 1 cut(s) | 656 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 776 |
| BstC8I | GCNNGC | 2 cut(s) | 9, 558 |
| BstDEI | CTNAG | 9 cut(s) | 12, 216, 240, 333, 343, 393, 494, 732, 920 |
| BstF5I | GGATG | 2 cut(s) | 83, 276 |
| BstKTI | GATC | 2 cut(s) | 523, 886 |
| BstMAI | GTCTC | 1 cut(s) | 299 |
| BstMBI | GATC | 2 cut(s) | 520, 883 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 447, 668, 776, 785 |
| BstNI | CCWGG | 1 cut(s) | 831 |
| BstSCI | CCNGG | 1 cut(s) | 829 |
| BstSFI | CTRYAG | 3 cut(s) | 353, 750, 820 |
| BstSLI | GKGCMC | 1 cut(s) | 82 |
| BstV1I | GCAGC | 1 cut(s) | 16 |
| BsuI | GTATCC | 1 cut(s) | 332 |
| BsuRI | GGCC | 3 cut(s) | 275, 788, 806 |
| BtsCI | GGATG | 2 cut(s) | 83, 276 |
| BtsI | GCAGTG | 1 cut(s) | 210 |
| BtsIMutI | CAGTG | 3 cut(s) | 210, 408, 917 |
| Cac8I | GCNNGC | 2 cut(s) | 9, 558 |
| CciI | TCATGA | 2 cut(s) | 25, 465 |
| Cfr13I | GGNCC | 3 cut(s) | 274, 532, 940 |
| Csp6I | GTAC | 3 cut(s) | 21, 120, 373 |
| CviAII | CATG | 3 cut(s) | 26, 48, 466 |
| CviQI | GTAC | 3 cut(s) | 21, 120, 373 |
| DdeI | CTNAG | 9 cut(s) | 12, 216, 240, 333, 343, 393, 494, 732, 920 |
| DpnI | GATC | 2 cut(s) | 522, 885 |
| DpnII | GATC | 2 cut(s) | 520, 883 |
| Eam1104I | CTCTTC | 4 cut(s) | 225, 284, 639, 731 |
| EarI | CTCTTC | 4 cut(s) | 225, 284, 639, 731 |
| Eco47I | GGWCC | 2 cut(s) | 532, 940 |
| Eco57I | CTGAAG | 1 cut(s) | 152 |
| EcoO109I | RGGNCCY | 1 cut(s) | 940 |
| EcoRII | CCWGG | 1 cut(s) | 829 |
| EcoT22I | ATGCAT | 1 cut(s) | 414 |
| FaeI | CATG | 3 cut(s) | 29, 51, 469 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 800, 832 |
| FatI | CATG | 3 cut(s) | 25, 47, 465 |
| FbaI | TGATCA | 1 cut(s) | 520 |
| Fnu4HI | GCNGC | 1 cut(s) | 5 |
| FokI | GGATG | 2 cut(s) | 70, 283 |
| Fsp4HI | GCNGC | 1 cut(s) | 5 |
| FspBI | CTAG | 1 cut(s) | 8 |
| GluI | GCNGC | 1 cut(s) | 5 |
| GsaI | CCCAGC | 1 cut(s) | 574 |
| HaeIII | GGCC | 3 cut(s) | 275, 788, 806 |
| Hin1II | CATG | 3 cut(s) | 29, 51, 469 |
| HinfI | GANTC | 4 cut(s) | 29, 380, 395, 739 |
| HphI | GGTGA | 3 cut(s) | 292, 530, 592 |
| Hpy166II | GTNNAC | 2 cut(s) | 683, 691 |
| Hpy188I | TCNGA | 4 cut(s) | 367, 385, 497, 888 |
| Hpy188III | TCNNGA | 6 cut(s) | 26, 455, 466, 641, 841, 958 |
| Hpy8I | GTNNAC | 2 cut(s) | 683, 691 |
| HpyCH4III | ACNGT | 2 cut(s) | 310, 851 |
| HpyCH4V | TGCA | 6 cut(s) | 4, 158, 355, 412, 770, 779 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 447, 668, 776, 785 |
| HpyF3I | CTNAG | 9 cut(s) | 12, 216, 240, 333, 343, 393, 494, 732, 920 |
| Hsp92II | CATG | 3 cut(s) | 29, 51, 469 |
| KpnI | GGTACC | 2 cut(s) | 123, 376 |
| Ksp22I | TGATCA | 1 cut(s) | 520 |
| Kzo9I | GATC | 2 cut(s) | 520, 883 |
| Lsp1109I | GCAGC | 1 cut(s) | 16 |
| MaeI | CTAG | 1 cut(s) | 8 |
| MaeIII | GTNAC | 5 cut(s) | 208, 310, 421, 580, 754 |
| MalI | GATC | 2 cut(s) | 522, 885 |
| MboI | GATC | 2 cut(s) | 520, 883 |
| MboII | GAAGA | 6 cut(s) | 242, 301, 656, 724, 748, 808 |
| MfeI | CAATTG | 1 cut(s) | 110 |
| MhlI | GDGCHC | 2 cut(s) | 82, 224 |
| MluCI | AATT | 4 cut(s) | 41, 110, 524, 624 |
| MlyI | GAGTC | 3 cut(s) | 389, 404, 748 |
| MmeI | TCCRAC | 2 cut(s) | 116, 363 |
| MnlI | CCTC | 5 cut(s) | 462, 505, 512, 886, 915 |
| Mph1103I | ATGCAT | 1 cut(s) | 414 |
| MseI | TTAA | 2 cut(s) | 129, 657 |
| MslI | CAYNNNNRTG | 1 cut(s) | 75 |
| MspA1I | CMGCKG | 1 cut(s) | 560 |
| MspCI | CTTAAG | 1 cut(s) | 656 |
| MspR9I | CCNGG | 1 cut(s) | 831 |
| MunI | CAATTG | 1 cut(s) | 110 |
| Mva1269I | GAATGC | 3 cut(s) | 343, 412, 450 |
| MvaI | CCWGG | 1 cut(s) | 831 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 447, 668, 776, 785 |
| NdeII | GATC | 2 cut(s) | 520, 883 |
| NheI | GCTAGC | 1 cut(s) | 7 |
| NlaIII | CATG | 3 cut(s) | 29, 51, 469 |
| NlaIV | GGNNCC | 3 cut(s) | 79, 121, 374 |
| NmuCI | GTSAC | 4 cut(s) | 208, 310, 421, 580 |
| NsiI | ATGCAT | 1 cut(s) | 414 |
| PagI | TCATGA | 2 cut(s) | 25, 465 |
| PctI | GAATGC | 3 cut(s) | 343, 412, 450 |
| PfeI | GAWTC | 1 cut(s) | 29 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 708 |
| PkrI | GCNGC | 1 cut(s) | 6 |
| PleI | GAGTC | 3 cut(s) | 388, 403, 747 |
| PpsI | GAGTC | 3 cut(s) | 388, 403, 747 |
| PpuMI | RGGWCCY | 1 cut(s) | 940 |
| Psp5II | RGGWCCY | 1 cut(s) | 940 |
| Psp6I | CCWGG | 1 cut(s) | 829 |
| PspFI | CCCAGC | 1 cut(s) | 570 |
| PspGI | CCWGG | 1 cut(s) | 829 |
| PspN4I | GGNNCC | 3 cut(s) | 79, 121, 374 |
| PspPI | GGNCC | 3 cut(s) | 274, 532, 940 |
| PspPPI | RGGWCCY | 1 cut(s) | 940 |
| PstI | CTGCAG | 1 cut(s) | 357 |
| PvuII | CAGCTG | 1 cut(s) | 560 |
| RsaI | GTAC | 3 cut(s) | 22, 121, 374 |
| RsaNI | GTAC | 3 cut(s) | 21, 120, 373 |
| RseI | CAYNNNNRTG | 1 cut(s) | 75 |
| SaqAI | TTAA | 2 cut(s) | 129, 657 |
| SatI | GCNGC | 1 cut(s) | 5 |
| Sau3AI | GATC | 2 cut(s) | 520, 883 |
| Sau96I | GGNCC | 3 cut(s) | 274, 532, 940 |
| SchI | GAGTC | 3 cut(s) | 389, 404, 748 |
| ScrFI | CCNGG | 1 cut(s) | 831 |
| SduI | GDGCHC | 2 cut(s) | 82, 224 |
| SfcI | CTRYAG | 3 cut(s) | 353, 750, 820 |
| SinI | GGWCC | 2 cut(s) | 532, 940 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 75 |
| SmlI | CTYRAG | 4 cut(s) | 187, 575, 656, 958 |
| SmoI | CTYRAG | 4 cut(s) | 187, 575, 656, 958 |
| Sse9I | AATT | 4 cut(s) | 41, 110, 524, 624 |
| SspMI | CTAG | 1 cut(s) | 8 |
| StyD4I | CCNGG | 1 cut(s) | 829 |
| TaaI | ACNGT | 2 cut(s) | 310, 851 |
| TasI | AATT | 4 cut(s) | 41, 110, 524, 624 |
| TatI | WGTACW | 1 cut(s) | 20 |
| TfiI | GAWTC | 1 cut(s) | 29 |
| Tru1I | TTAA | 2 cut(s) | 129, 657 |
| Tru9I | TTAA | 2 cut(s) | 129, 657 |
| TscAI | CASTG | 3 cut(s) | 217, 408, 924 |
| TseFI | GTSAC | 4 cut(s) | 208, 310, 421, 580 |
| TseI | GCWGC | 1 cut(s) | 4 |
| Tsp45I | GTSAC | 4 cut(s) | 208, 310, 421, 580 |
| TspDTI | ATGAA | 5 cut(s) | 36, 302, 349, 443, 633 |
| TspRI | CASTG | 3 cut(s) | 217, 408, 924 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 708 |
| Vha464I | CTTAAG | 1 cut(s) | 656 |
| VpaK11BI | GGWCC | 2 cut(s) | 532, 940 |
| XapI | RAATTY | 1 cut(s) | 41 |
| XspI | CTAG | 1 cut(s) | 8 |
| Zsp2I | ATGCAT | 1 cut(s) | 414 |