gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 1 - 79 | 4e-07 | 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) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 173 |
| AcoI | YGGCCR | 1 cut(s) | 313 |
| AflIII | ACRYGT | 1 cut(s) | 12 |
| AgsI | TTSAA | 2 cut(s) | 357, 883 |
| AjiI | CACGTC | 1 cut(s) | 311 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 385, 417 |
| AluBI | AGCT | 7 cut(s) | 150, 212, 242, 432, 569, 967, 993 |
| AluI | AGCT | 7 cut(s) | 150, 212, 242, 432, 569, 967, 993 |
| Alw26I | GTCTC | 4 cut(s) | 159, 192, 259, 757 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 572 |
| Ama87I | CYCGRG | 1 cut(s) | 387 |
| AoxI | GGCC | 1 cut(s) | 313 |
| ApeKI | GCWGC | 5 cut(s) | 235, 242, 474, 566, 841 |
| AspLEI | GCGC | 1 cut(s) | 222 |
| AspS9I | GGNCC | 2 cut(s) | 125, 413 |
| AsuHPI | GGTGA | 6 cut(s) | 169, 369, 666, 732, 783, 905 |
| AvaI | CYCGRG | 1 cut(s) | 387 |
| AvaII | GGWCC | 2 cut(s) | 125, 413 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 589, 621 |
| BauI | CACGAG | 1 cut(s) | 162 |
| BbsI | GAAGAC | 2 cut(s) | 594, 927 |
| BbvCI | CCTCAGC | 1 cut(s) | 325 |
| BbvI | GCAGC | 5 cut(s) | 229, 247, 486, 578, 853 |
| BccI | CCATC | 3 cut(s) | 26, 113, 430 |
| BceAI | ACGGC | 2 cut(s) | 300, 526 |
| BciVI | GTATCC | 1 cut(s) | 112 |
| BcoDI | GTCTC | 4 cut(s) | 159, 192, 259, 757 |
| BfaI | CTAG | 2 cut(s) | 248, 956 |
| BfuI | GTATCC | 1 cut(s) | 112 |
| BisI | GCNGC | 5 cut(s) | 236, 243, 475, 567, 842 |
| BlsI | GCNGC | 5 cut(s) | 237, 244, 476, 568, 843 |
| Bme18I | GGWCC | 2 cut(s) | 125, 413 |
| BmeT110I | CYCGRG | 1 cut(s) | 387 |
| BmgBI | CACGTC | 1 cut(s) | 311 |
| BmgT120I | GGNCC | 2 cut(s) | 125, 413 |
| BmsI | GCATC | 1 cut(s) | 862 |
| BoxI | GACNNNNGTC | 1 cut(s) | 900 |
| BpiI | GAAGAC | 2 cut(s) | 594, 927 |
| Bpu10I | CCTNAGC | 1 cut(s) | 325 |
| BpuEI | CTTGAG | 2 cut(s) | 141, 883 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 385, 415 |
| BseGI | GGATG | 1 cut(s) | 418 |
| BseMII | CTCAG | 3 cut(s) | 204, 339, 568 |
| BseRI | GAGGAG | 3 cut(s) | 247, 313, 840 |
| BseXI | GCAGC | 5 cut(s) | 229, 247, 486, 578, 853 |
| BshFI | GGCC | 1 cut(s) | 315 |
| BsiHKCI | CYCGRG | 1 cut(s) | 387 |
| BsmAI | GTCTC | 4 cut(s) | 159, 192, 259, 757 |
| BsnI | GGCC | 1 cut(s) | 315 |
| BsoBI | CYCGRG | 1 cut(s) | 387 |
| Bsp143I | GATC | 3 cut(s) | 94, 229, 983 |
| BspANI | GGCC | 1 cut(s) | 315 |
| BspCNI | CTCAG | 3 cut(s) | 205, 338, 567 |
| BspHI | TCATGA | 1 cut(s) | 111 |
| BssMI | GATC | 3 cut(s) | 94, 229, 983 |
| BssSI | CACGAG | 1 cut(s) | 162 |
| Bst2BI | CACGAG | 1 cut(s) | 162 |
| Bst4CI | ACNGT | 1 cut(s) | 145 |
| Bst6I | CTCTTC | 1 cut(s) | 760 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 278, 572 |
| BstC8I | GCNNGC | 3 cut(s) | 240, 846, 995 |
| BstDEI | CTNAG | 6 cut(s) | 213, 325, 546, 554, 924, 989 |
| BstEII | GGTNACC | 1 cut(s) | 375 |
| BstF5I | GGATG | 1 cut(s) | 418 |
| BstHHI | GCGC | 1 cut(s) | 222 |
| BstKTI | GATC | 3 cut(s) | 97, 232, 986 |
| BstMAI | GTCTC | 4 cut(s) | 159, 192, 259, 757 |
| BstMBI | GATC | 3 cut(s) | 94, 229, 983 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 278, 566, 572 |
| BstNSI | RCATGY | 1 cut(s) | 16 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 900 |
| BstPI | GGTNACC | 1 cut(s) | 375 |
| BstV1I | GCAGC | 5 cut(s) | 229, 247, 486, 578, 853 |
| BstV2I | GAAGAC | 2 cut(s) | 594, 927 |
| BsuI | GTATCC | 1 cut(s) | 112 |
| BsuRI | GGCC | 1 cut(s) | 315 |
| BtrI | CACGTC | 1 cut(s) | 311 |
| BtsCI | GGATG | 1 cut(s) | 418 |
| BtsI | GCAGTG | 1 cut(s) | 489 |
| BtsIMutI | CAGTG | 2 cut(s) | 489, 562 |
| Cac8I | GCNNGC | 3 cut(s) | 240, 846, 995 |
| CaiI | CAGNNNCTG | 1 cut(s) | 572 |
| CciI | TCATGA | 1 cut(s) | 111 |
| CfoI | GCGC | 1 cut(s) | 222 |
| Cfr13I | GGNCC | 2 cut(s) | 125, 413 |
| CviAII | CATG | 6 cut(s) | 13, 112, 278, 662, 692, 765 |
| DdeI | CTNAG | 6 cut(s) | 213, 325, 546, 554, 924, 989 |
| DpnI | GATC | 3 cut(s) | 96, 231, 985 |
| DpnII | GATC | 3 cut(s) | 94, 229, 983 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 173 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 173 |
| EaeI | YGGCCR | 1 cut(s) | 313 |
| Eam1104I | CTCTTC | 1 cut(s) | 760 |
| EarI | CTCTTC | 1 cut(s) | 760 |
| Eco32I | GATATC | 1 cut(s) | 1041 |
| Eco47I | GGWCC | 2 cut(s) | 125, 413 |
| Eco88I | CYCGRG | 1 cut(s) | 387 |
| Eco91I | GGTNACC | 1 cut(s) | 375 |
| EcoO65I | GGTNACC | 1 cut(s) | 375 |
| EcoRV | GATATC | 1 cut(s) | 1041 |
| FaeI | CATG | 6 cut(s) | 16, 115, 281, 665, 695, 768 |
| FatI | CATG | 6 cut(s) | 12, 111, 277, 661, 691, 764 |
| FauNDI | CATATG | 1 cut(s) | 513 |
| Fnu4HI | GCNGC | 5 cut(s) | 236, 243, 475, 567, 842 |
| FokI | GGATG | 1 cut(s) | 405 |
| Fsp4HI | GCNGC | 5 cut(s) | 236, 243, 475, 567, 842 |
| FspBI | CTAG | 2 cut(s) | 248, 956 |
| GlaI | GCGC | 1 cut(s) | 221 |
| GluI | GCNGC | 5 cut(s) | 236, 243, 475, 567, 842 |
| HaeIII | GGCC | 1 cut(s) | 315 |
| HhaI | GCGC | 1 cut(s) | 222 |
| Hin1II | CATG | 6 cut(s) | 16, 115, 281, 665, 695, 768 |
| Hin6I | GCGC | 1 cut(s) | 220 |
| HinP1I | GCGC | 1 cut(s) | 220 |
| HindIII | AAGCTT | 2 cut(s) | 430, 965 |
| HinfI | GANTC | 3 cut(s) | 185, 896, 1061 |
| HphI | GGTGA | 6 cut(s) | 169, 369, 666, 732, 783, 905 |
| Hpy188I | TCNGA | 4 cut(s) | 25, 468, 871, 906 |
| Hpy188III | TCNNGA | 4 cut(s) | 32, 112, 191, 497 |
| HpyAV | CCTTC | 3 cut(s) | 687, 711, 753 |
| HpyCH4III | ACNGT | 1 cut(s) | 145 |
| HpyCH4IV | ACGT | 3 cut(s) | 310, 760, 943 |
| HpyCH4V | TGCA | 5 cut(s) | 71, 474, 768, 911, 997 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 278, 566, 572 |
| HpyF3I | CTNAG | 6 cut(s) | 213, 325, 546, 554, 924, 989 |
| HpySE526I | ACGT | 3 cut(s) | 310, 760, 943 |
| Hsp92II | CATG | 6 cut(s) | 16, 115, 281, 665, 695, 768 |
| HspAI | GCGC | 1 cut(s) | 220 |
| Kzo9I | GATC | 3 cut(s) | 94, 229, 983 |
| LmnI | GCTCC | 1 cut(s) | 853 |
| Lsp1109I | GCAGC | 5 cut(s) | 229, 247, 486, 578, 853 |
| LweI | GCATC | 1 cut(s) | 862 |
| MaeI | CTAG | 2 cut(s) | 248, 956 |
| MaeII | ACGT | 3 cut(s) | 310, 760, 943 |
| MaeIII | GTNAC | 7 cut(s) | 8, 86, 175, 375, 485, 893, 1018 |
| MalI | GATC | 3 cut(s) | 96, 231, 985 |
| MboI | GATC | 3 cut(s) | 94, 229, 983 |
| MluCI | AATT | 4 cut(s) | 39, 730, 787, 877 |
| MlyI | GAGTC | 3 cut(s) | 194, 890, 1055 |
| MmeI | TCCRAC | 2 cut(s) | 48, 103 |
| MseI | TTAA | 3 cut(s) | 42, 774, 783 |
| MslI | CAYNNNNRTG | 2 cut(s) | 110, 763 |
| MspA1I | CMGCKG | 1 cut(s) | 212 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 278, 566, 572 |
| NdeI | CATATG | 1 cut(s) | 513 |
| NdeII | GATC | 3 cut(s) | 94, 229, 983 |
| NlaIII | CATG | 6 cut(s) | 16, 115, 281, 665, 695, 768 |
| NmuCI | GTSAC | 5 cut(s) | 86, 175, 375, 485, 893 |
| NspI | RCATGY | 1 cut(s) | 16 |
| PaeR7I | CTCGAG | 1 cut(s) | 387 |
| PagI | TCATGA | 1 cut(s) | 111 |
| PciI | ACATGT | 1 cut(s) | 12 |
| PkrI | GCNGC | 5 cut(s) | 237, 244, 476, 568, 843 |
| PleI | GAGTC | 3 cut(s) | 193, 890, 1055 |
| PpsI | GAGTC | 3 cut(s) | 193, 890, 1055 |
| PscI | ACATGT | 1 cut(s) | 12 |
| PshAI | GACNNNNGTC | 1 cut(s) | 900 |
| PspEI | GGTNACC | 1 cut(s) | 375 |
| PspPI | GGNCC | 2 cut(s) | 125, 413 |
| PspXI | VCTCGAGB | 1 cut(s) | 387 |
| PstNI | CAGNNNCTG | 1 cut(s) | 572 |
| PvuII | CAGCTG | 1 cut(s) | 212 |
| RseI | CAYNNNNRTG | 2 cut(s) | 110, 763 |
| SaqAI | TTAA | 3 cut(s) | 42, 774, 783 |
| SatI | GCNGC | 5 cut(s) | 236, 243, 475, 567, 842 |
| Sau3AI | GATC | 3 cut(s) | 94, 229, 983 |
| Sau96I | GGNCC | 2 cut(s) | 125, 413 |
| SchI | GAGTC | 3 cut(s) | 194, 890, 1055 |
| SfaNI | GCATC | 1 cut(s) | 862 |
| Sfr274I | CTCGAG | 1 cut(s) | 387 |
| SinI | GGWCC | 2 cut(s) | 125, 413 |
| SlaI | CTCGAG | 1 cut(s) | 387 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 110, 763 |
| SmlI | CTYRAG | 3 cut(s) | 156, 387, 898 |
| SmoI | CTYRAG | 3 cut(s) | 156, 387, 898 |
| Sse9I | AATT | 4 cut(s) | 39, 730, 787, 877 |
| SspMI | CTAG | 2 cut(s) | 248, 956 |
| TaaI | ACNGT | 1 cut(s) | 145 |
| TaiI | ACGT | 3 cut(s) | 313, 763, 946 |
| TaqI | TCGA | 3 cut(s) | 298, 343, 388 |
| TasI | AATT | 4 cut(s) | 39, 730, 787, 877 |
| Tru1I | TTAA | 3 cut(s) | 42, 774, 783 |
| Tru9I | TTAA | 3 cut(s) | 42, 774, 783 |
| TscAI | CASTG | 2 cut(s) | 496, 562 |
| TseFI | GTSAC | 5 cut(s) | 86, 175, 375, 485, 893 |
| TseI | GCWGC | 5 cut(s) | 235, 242, 474, 566, 841 |
| Tsp45I | GTSAC | 5 cut(s) | 86, 175, 375, 485, 893 |
| TspRI | CASTG | 2 cut(s) | 496, 562 |
| VpaK11BI | GGWCC | 2 cut(s) | 125, 413 |
| XceI | RCATGY | 1 cut(s) | 16 |
| XhoI | CTCGAG | 1 cut(s) | 387 |
| XspI | CTAG | 2 cut(s) | 248, 956 |