gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 31 - 193 | 6.1e-16 | 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) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 501 |
| Acc36I | ACCTGC | 1 cut(s) | 133 |
| AclWI | GGATC | 1 cut(s) | 104 |
| AcoI | YGGCCR | 1 cut(s) | 772 |
| AcsI | RAATTY | 1 cut(s) | 658 |
| AcuI | CTGAAG | 1 cut(s) | 437 |
| AfaI | GTAC | 2 cut(s) | 290, 374 |
| AgsI | TTSAA | 8 cut(s) | 20, 37, 65, 141, 151, 166, 781, 814 |
| AluBI | AGCT | 3 cut(s) | 334, 406, 687 |
| AluI | AGCT | 3 cut(s) | 334, 406, 687 |
| Alw21I | GWGCWC | 2 cut(s) | 102, 689 |
| AlwI | GGATC | 1 cut(s) | 104 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 248 |
| AoxI | GGCC | 1 cut(s) | 772 |
| ApeKI | GCWGC | 1 cut(s) | 128 |
| ApoI | RAATTY | 1 cut(s) | 658 |
| AspS9I | GGNCC | 1 cut(s) | 740 |
| AsuHPI | GGTGA | 1 cut(s) | 68 |
| AvaII | GGWCC | 1 cut(s) | 740 |
| BalI | TGGCCA | 1 cut(s) | 774 |
| BanII | GRGCYC | 1 cut(s) | 689 |
| Bbv12I | GWGCWC | 2 cut(s) | 102, 689 |
| BbvI | GCAGC | 1 cut(s) | 115 |
| BccI | CCATC | 6 cut(s) | 223, 405, 492, 551, 620, 788 |
| BclI | TGATCA | 1 cut(s) | 91 |
| BfuAI | ACCTGC | 1 cut(s) | 133 |
| BisI | GCNGC | 1 cut(s) | 129 |
| BlsI | GCNGC | 1 cut(s) | 130 |
| Bme18I | GGWCC | 1 cut(s) | 740 |
| BmgT120I | GGNCC | 1 cut(s) | 740 |
| BmiI | GGNNCC | 1 cut(s) | 435 |
| BmsI | GCATC | 1 cut(s) | 15 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 524, 556 |
| BpmI | CTGGAG | 1 cut(s) | 711 |
| BpuEI | CTTGAG | 1 cut(s) | 86 |
| BsaBI | GATNNNNATC | 1 cut(s) | 90 |
| Bse1I | ACTGG | 4 cut(s) | 173, 343, 775, 812 |
| Bse8I | GATNNNNATC | 1 cut(s) | 90 |
| BseGI | GGATG | 1 cut(s) | 631 |
| BseJI | GATNNNNATC | 1 cut(s) | 90 |
| BseMII | CTCAG | 3 cut(s) | 390, 398, 521 |
| BseNI | ACTGG | 4 cut(s) | 173, 343, 775, 812 |
| BseRI | GAGGAG | 2 cut(s) | 14, 446 |
| BseXI | GCAGC | 1 cut(s) | 115 |
| BsgI | GTGCAG | 1 cut(s) | 572 |
| BshFI | GGCC | 1 cut(s) | 774 |
| BsiHKAI | GWGCWC | 2 cut(s) | 102, 689 |
| BsmI | GAATGC | 1 cut(s) | 277 |
| BsnI | GGCC | 1 cut(s) | 774 |
| Bsp1286I | GDGCHC | 2 cut(s) | 102, 689 |
| Bsp143I | GATC | 3 cut(s) | 91, 109, 703 |
| BspANI | GGCC | 1 cut(s) | 774 |
| BspCNI | CTCAG | 3 cut(s) | 391, 399, 520 |
| BspHI | TCATGA | 1 cut(s) | 378 |
| BspLI | GGNNCC | 1 cut(s) | 435 |
| BspMI | ACCTGC | 1 cut(s) | 133 |
| BspPI | GGATC | 1 cut(s) | 104 |
| BspQI | GCTCTTC | 1 cut(s) | 203 |
| BsrI | ACTGG | 4 cut(s) | 173, 343, 775, 812 |
| BssMI | GATC | 3 cut(s) | 91, 109, 703 |
| Bst6I | CTCTTC | 3 cut(s) | 167, 203, 555 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 395 |
| BstC8I | GCNNGC | 1 cut(s) | 719 |
| BstDEI | CTNAG | 5 cut(s) | 399, 407, 507, 573, 609 |
| BstF5I | GGATG | 1 cut(s) | 631 |
| BstKTI | GATC | 3 cut(s) | 94, 112, 706 |
| BstMBI | GATC | 3 cut(s) | 91, 109, 703 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 125, 134, 395, 412, 627 |
| BstV1I | GCAGC | 1 cut(s) | 115 |
| BstX2I | RGATCY | 1 cut(s) | 109 |
| BstYI | RGATCY | 1 cut(s) | 109 |
| BsuRI | GGCC | 1 cut(s) | 774 |
| BtsCI | GGATG | 1 cut(s) | 631 |
| BtsIMutI | CAGTG | 1 cut(s) | 743 |
| BveI | ACCTGC | 1 cut(s) | 133 |
| Cac8I | GCNNGC | 1 cut(s) | 719 |
| CaiI | CAGNNNCTG | 1 cut(s) | 248 |
| CciI | TCATGA | 1 cut(s) | 378 |
| Cfr13I | GGNCC | 1 cut(s) | 740 |
| Csp6I | GTAC | 2 cut(s) | 289, 373 |
| CviAII | CATG | 5 cut(s) | 95, 214, 268, 379, 701 |
| CviQI | GTAC | 2 cut(s) | 289, 373 |
| DdeI | CTNAG | 5 cut(s) | 399, 407, 507, 573, 609 |
| DpnI | GATC | 3 cut(s) | 93, 111, 705 |
| DpnII | GATC | 3 cut(s) | 91, 109, 703 |
| EaeI | YGGCCR | 1 cut(s) | 772 |
| Eam1104I | CTCTTC | 3 cut(s) | 167, 203, 555 |
| EarI | CTCTTC | 3 cut(s) | 167, 203, 555 |
| Ecl136II | GAGCTC | 1 cut(s) | 687 |
| Eco24I | GRGCYC | 1 cut(s) | 689 |
| Eco47I | GGWCC | 1 cut(s) | 740 |
| Eco53kI | GAGCTC | 1 cut(s) | 687 |
| Eco57I | CTGAAG | 1 cut(s) | 437 |
| EcoICRI | GAGCTC | 1 cut(s) | 687 |
| EcoT38I | GRGCYC | 1 cut(s) | 689 |
| FaeI | CATG | 5 cut(s) | 98, 217, 271, 382, 704 |
| FatI | CATG | 5 cut(s) | 94, 213, 267, 378, 700 |
| FbaI | TGATCA | 1 cut(s) | 91 |
| Fnu4HI | GCNGC | 1 cut(s) | 129 |
| FokI | GGATG | 1 cut(s) | 638 |
| FriOI | GRGCYC | 1 cut(s) | 689 |
| Fsp4HI | GCNGC | 1 cut(s) | 129 |
| GluI | GCNGC | 1 cut(s) | 129 |
| GsuI | CTGGAG | 1 cut(s) | 711 |
| HaeIII | GGCC | 1 cut(s) | 774 |
| Hin1II | CATG | 5 cut(s) | 98, 217, 271, 382, 704 |
| HindIII | AAGCTT | 1 cut(s) | 332 |
| HinfI | GANTC | 2 cut(s) | 33, 245 |
| HphI | GGTGA | 1 cut(s) | 68 |
| Hpy166II | GTNNAC | 1 cut(s) | 743 |
| Hpy188I | TCNGA | 4 cut(s) | 250, 489, 510, 708 |
| Hpy188III | TCNNGA | 6 cut(s) | 83, 205, 379, 470, 690, 781 |
| Hpy8I | GTNNAC | 1 cut(s) | 743 |
| HpyAV | CCTTC | 3 cut(s) | 145, 505, 778 |
| HpyCH4V | TGCA | 6 cut(s) | 51, 131, 257, 275, 281, 553 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 125, 134, 395, 412, 627 |
| HpyF3I | CTNAG | 5 cut(s) | 399, 407, 507, 573, 609 |
| Hsp92II | CATG | 5 cut(s) | 98, 217, 271, 382, 704 |
| Ksp22I | TGATCA | 1 cut(s) | 91 |
| Kzo9I | GATC | 3 cut(s) | 91, 109, 703 |
| LguI | GCTCTTC | 1 cut(s) | 203 |
| LmnI | GCTCC | 2 cut(s) | 386, 433 |
| Lsp1109I | GCAGC | 1 cut(s) | 115 |
| LweI | GCATC | 1 cut(s) | 15 |
| MaeIII | GTNAC | 1 cut(s) | 56 |
| MalI | GATC | 3 cut(s) | 93, 111, 705 |
| MboI | GATC | 3 cut(s) | 91, 109, 703 |
| MboII | GAAGA | 6 cut(s) | 119, 184, 220, 369, 430, 572 |
| MfeI | CAATTG | 1 cut(s) | 276 |
| MflI | RGATCY | 1 cut(s) | 109 |
| MhlI | GDGCHC | 2 cut(s) | 102, 689 |
| MlsI | TGGCCA | 1 cut(s) | 774 |
| MluCI | AATT | 9 cut(s) | 15, 37, 78, 146, 195, 220, 276, 598, 658 |
| MluNI | TGGCCA | 1 cut(s) | 774 |
| MnlI | CCTC | 8 cut(s) | 35, 168, 424, 550, 556, 572, 580, 732 |
| Mox20I | TGGCCA | 1 cut(s) | 774 |
| MscI | TGGCCA | 1 cut(s) | 774 |
| MseI | TTAA | 4 cut(s) | 528, 536, 654, 801 |
| MslI | CAYNNNNRTG | 2 cut(s) | 548, 748 |
| Msp20I | TGGCCA | 1 cut(s) | 774 |
| MunI | CAATTG | 1 cut(s) | 276 |
| Mva1269I | GAATGC | 1 cut(s) | 277 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 125, 134, 395, 412, 627 |
| NdeII | GATC | 3 cut(s) | 91, 109, 703 |
| NlaIII | CATG | 5 cut(s) | 98, 217, 271, 382, 704 |
| NlaIV | GGNNCC | 1 cut(s) | 435 |
| NmuCI | GTSAC | 1 cut(s) | 56 |
| PagI | TCATGA | 1 cut(s) | 378 |
| PciSI | GCTCTTC | 1 cut(s) | 203 |
| PctI | GAATGC | 1 cut(s) | 277 |
| PfeI | GAWTC | 2 cut(s) | 33, 245 |
| PkrI | GCNGC | 1 cut(s) | 130 |
| PsiI | TTATAA | 1 cut(s) | 501 |
| Psp124BI | GAGCTC | 1 cut(s) | 689 |
| PspN4I | GGNNCC | 1 cut(s) | 435 |
| PspPI | GGNCC | 1 cut(s) | 740 |
| PstNI | CAGNNNCTG | 1 cut(s) | 248 |
| PsuI | RGATCY | 1 cut(s) | 109 |
| RsaI | GTAC | 2 cut(s) | 290, 374 |
| RsaNI | GTAC | 2 cut(s) | 289, 373 |
| RseI | CAYNNNNRTG | 2 cut(s) | 548, 748 |
| SacI | GAGCTC | 1 cut(s) | 689 |
| SapI | GCTCTTC | 1 cut(s) | 203 |
| SaqAI | TTAA | 4 cut(s) | 528, 536, 654, 801 |
| SatI | GCNGC | 1 cut(s) | 129 |
| Sau3AI | GATC | 3 cut(s) | 91, 109, 703 |
| Sau96I | GGNCC | 1 cut(s) | 740 |
| SduI | GDGCHC | 2 cut(s) | 102, 689 |
| SetI | ASST | 6 cut(s) | 127, 319, 336, 408, 591, 689 |
| SfaNI | GCATC | 1 cut(s) | 15 |
| SinI | GGWCC | 1 cut(s) | 740 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 548, 748 |
| SmlI | CTYRAG | 1 cut(s) | 101 |
| SmoI | CTYRAG | 1 cut(s) | 101 |
| Sse9I | AATT | 9 cut(s) | 15, 37, 78, 146, 195, 220, 276, 598, 658 |
| SstI | GAGCTC | 1 cut(s) | 689 |
| TaqI | TCGA | 1 cut(s) | 683 |
| TasI | AATT | 9 cut(s) | 15, 37, 78, 146, 195, 220, 276, 598, 658 |
| TatI | WGTACW | 2 cut(s) | 288, 372 |
| TfiI | GAWTC | 2 cut(s) | 33, 245 |
| Tru1I | TTAA | 4 cut(s) | 528, 536, 654, 801 |
| Tru9I | TTAA | 4 cut(s) | 528, 536, 654, 801 |
| TscAI | CASTG | 1 cut(s) | 750 |
| TseFI | GTSAC | 1 cut(s) | 56 |
| TseI | GCWGC | 1 cut(s) | 128 |
| Tsp45I | GTSAC | 1 cut(s) | 56 |
| TspDTI | ATGAA | 5 cut(s) | 230, 284, 341, 395, 437 |
| TspRI | CASTG | 1 cut(s) | 750 |
| VpaK11BI | GGWCC | 1 cut(s) | 740 |
| XapI | RAATTY | 1 cut(s) | 658 |