gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 43 - 212 | 2.1e-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) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 1 cut(s) | 509 |
| AccI | GTMKAC | 1 cut(s) | 31 |
| AclWI | GGATC | 1 cut(s) | 450 |
| AcsI | RAATTY | 4 cut(s) | 327, 674, 856, 999 |
| AcuI | CTGAAG | 2 cut(s) | 407, 642 |
| AfaI | GTAC | 3 cut(s) | 224, 733, 913 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 564 |
| AflII | CTTAAG | 1 cut(s) | 19 |
| AgsI | TTSAA | 5 cut(s) | 410, 588, 635, 861, 1115 |
| AjnI | CCWGG | 1 cut(s) | 438 |
| AluBI | AGCT | 4 cut(s) | 626, 782, 864, 1128 |
| AluI | AGCT | 4 cut(s) | 626, 782, 864, 1128 |
| Alw21I | GWGCWC | 2 cut(s) | 837, 1015 |
| Alw26I | GTCTC | 2 cut(s) | 517, 1091 |
| Alw44I | GTGCAC | 1 cut(s) | 833 |
| AlwI | GGATC | 1 cut(s) | 450 |
| AoxI | GGCC | 1 cut(s) | 127 |
| ApaLI | GTGCAC | 1 cut(s) | 833 |
| ApeKI | GCWGC | 5 cut(s) | 269, 772, 779, 871, 874 |
| ApoI | RAATTY | 4 cut(s) | 327, 674, 856, 999 |
| AspS9I | GGNCC | 2 cut(s) | 603, 1028 |
| AsuC2I | CCSGG | 1 cut(s) | 581 |
| AsuHPI | GGTGA | 2 cut(s) | 713, 1091 |
| AvaII | GGWCC | 2 cut(s) | 603, 1028 |
| BaeGI | GKGCMC | 1 cut(s) | 837 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 895, 928 |
| BbsI | GAAGAC | 1 cut(s) | 507 |
| Bbv12I | GWGCWC | 2 cut(s) | 837, 1015 |
| BbvI | GCAGC | 5 cut(s) | 256, 784, 791, 883, 886 |
| BccI | CCATC | 4 cut(s) | 65, 140, 541, 1076 |
| BciT130I | CCWGG | 1 cut(s) | 440 |
| BclI | TGATCA | 2 cut(s) | 177, 463 |
| BcnI | CCSGG | 1 cut(s) | 581 |
| BcoDI | GTCTC | 2 cut(s) | 517, 1091 |
| BfaI | CTAG | 3 cut(s) | 321, 801, 879 |
| BfmI | CTRYAG | 1 cut(s) | 907 |
| BfrI | CTTAAG | 1 cut(s) | 19 |
| BisI | GCNGC | 5 cut(s) | 270, 773, 780, 872, 875 |
| BlpI | GCTNAGC | 1 cut(s) | 570 |
| BlsI | GCNGC | 5 cut(s) | 271, 774, 781, 873, 876 |
| Bme1390I | CCNGG | 2 cut(s) | 440, 581 |
| Bme18I | GGWCC | 2 cut(s) | 603, 1028 |
| BmgT120I | GGNCC | 2 cut(s) | 603, 1028 |
| BmiI | GGNNCC | 2 cut(s) | 76, 605 |
| BmrFI | CCNGG | 2 cut(s) | 440, 581 |
| BmsI | GCATC | 1 cut(s) | 727 |
| BpiI | GAAGAC | 1 cut(s) | 507 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 570 |
| BpuEI | CTTGAG | 1 cut(s) | 1092 |
| BpuMI | CCSGG | 1 cut(s) | 581 |
| BsaI | GGTCTC | 1 cut(s) | 1091 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 781, 811 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 564 |
| Bse1I | ACTGG | 3 cut(s) | 59, 282, 1146 |
| Bse3DI | GCAATG | 3 cut(s) | 712, 960, 1012 |
| BseBI | CCWGG | 1 cut(s) | 440 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 564 |
| BseMI | GCAATG | 3 cut(s) | 712, 960, 1012 |
| BseNI | ACTGG | 3 cut(s) | 59, 282, 1146 |
| BseSI | GKGCMC | 1 cut(s) | 837 |
| BseXI | GCAGC | 5 cut(s) | 256, 784, 791, 883, 886 |
| BsgI | GTGCAG | 1 cut(s) | 882 |
| BshFI | GGCC | 1 cut(s) | 129 |
| BsiHKAI | GWGCWC | 2 cut(s) | 837, 1015 |
| BsiSI | CCGG | 1 cut(s) | 581 |
| BslFI | GGGAC | 1 cut(s) | 589 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 564 |
| BsmAI | GTCTC | 2 cut(s) | 517, 1091 |
| BsmFI | GGGAC | 1 cut(s) | 589 |
| BsnI | GGCC | 1 cut(s) | 129 |
| Bso31I | GGTCTC | 1 cut(s) | 1091 |
| Bsp1286I | GDGCHC | 2 cut(s) | 837, 1015 |
| Bsp143I | GATC | 4 cut(s) | 177, 217, 442, 463 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 570 |
| BspANI | GGCC | 1 cut(s) | 129 |
| BspLI | GGNNCC | 2 cut(s) | 76, 605 |
| BspPI | GGATC | 1 cut(s) | 450 |
| BspQI | GCTCTTC | 1 cut(s) | 383 |
| BspTI | CTTAAG | 1 cut(s) | 19 |
| BspTNI | GGTCTC | 1 cut(s) | 1091 |
| BsrDI | GCAATG | 3 cut(s) | 712, 960, 1012 |
| BsrI | ACTGG | 3 cut(s) | 59, 282, 1146 |
| BssMI | GATC | 4 cut(s) | 177, 217, 442, 463 |
| Bst2UI | CCWGG | 1 cut(s) | 440 |
| Bst4CI | ACNGT | 2 cut(s) | 36, 908 |
| Bst6I | CTCTTC | 2 cut(s) | 383, 630 |
| BstAFI | CTTAAG | 1 cut(s) | 19 |
| BstC8I | GCNNGC | 2 cut(s) | 267, 777 |
| BstDEI | CTNAG | 2 cut(s) | 67, 570 |
| BstKTI | GATC | 4 cut(s) | 180, 220, 445, 466 |
| BstMAI | GTCTC | 2 cut(s) | 517, 1091 |
| BstMBI | GATC | 4 cut(s) | 177, 217, 442, 463 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 748 |
| BstNI | CCWGG | 1 cut(s) | 440 |
| BstNSI | RCATGY | 1 cut(s) | 779 |
| BstSCI | CCNGG | 2 cut(s) | 438, 579 |
| BstSFI | CTRYAG | 1 cut(s) | 907 |
| BstSLI | GKGCMC | 1 cut(s) | 837 |
| BstV1I | GCAGC | 5 cut(s) | 256, 784, 791, 883, 886 |
| BstV2I | GAAGAC | 1 cut(s) | 507 |
| BsuRI | GGCC | 1 cut(s) | 129 |
| BtsIMutI | CAGTG | 1 cut(s) | 289 |
| Cac8I | GCNNGC | 2 cut(s) | 267, 777 |
| Cfr13I | GGNCC | 2 cut(s) | 603, 1028 |
| Csp6I | GTAC | 3 cut(s) | 223, 732, 912 |
| CviAII | CATG | 6 cut(s) | 90, 175, 550, 686, 776, 1119 |
| CviQI | GTAC | 3 cut(s) | 223, 732, 912 |
| DdeI | CTNAG | 2 cut(s) | 67, 570 |
| DpnI | GATC | 4 cut(s) | 179, 219, 444, 465 |
| DpnII | GATC | 4 cut(s) | 177, 217, 442, 463 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 509 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 509 |
| Eam1104I | CTCTTC | 2 cut(s) | 383, 630 |
| EarI | CTCTTC | 2 cut(s) | 383, 630 |
| Eco31I | GGTCTC | 1 cut(s) | 1091 |
| Eco47I | GGWCC | 2 cut(s) | 603, 1028 |
| Eco57I | CTGAAG | 2 cut(s) | 407, 642 |
| EcoO109I | RGGNCCY | 1 cut(s) | 603 |
| EcoRI | GAATTC | 1 cut(s) | 999 |
| EcoRII | CCWGG | 1 cut(s) | 438 |
| EcoT22I | ATGCAT | 1 cut(s) | 720 |
| FaeI | CATG | 6 cut(s) | 93, 178, 553, 689, 779, 1122 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 380, 412, 615, 647 |
| FaqI | GGGAC | 1 cut(s) | 589 |
| FatI | CATG | 6 cut(s) | 89, 174, 549, 685, 775, 1118 |
| FauNDI | CATATG | 2 cut(s) | 489, 738 |
| FbaI | TGATCA | 2 cut(s) | 177, 463 |
| FblI | GTMKAC | 1 cut(s) | 31 |
| Fnu4HI | GCNGC | 5 cut(s) | 270, 773, 780, 872, 875 |
| Fsp4HI | GCNGC | 5 cut(s) | 270, 773, 780, 872, 875 |
| FspBI | CTAG | 3 cut(s) | 321, 801, 879 |
| GluI | GCNGC | 5 cut(s) | 270, 773, 780, 872, 875 |
| HaeIII | GGCC | 1 cut(s) | 129 |
| HapII | CCGG | 1 cut(s) | 581 |
| Hin1II | CATG | 6 cut(s) | 93, 178, 553, 689, 779, 1122 |
| HindIII | AAGCTT | 1 cut(s) | 862 |
| HinfI | GANTC | 3 cut(s) | 55, 422, 484 |
| HpaII | CCGG | 1 cut(s) | 581 |
| HphI | GGTGA | 2 cut(s) | 713, 1091 |
| Hpy166II | GTNNAC | 4 cut(s) | 32, 64, 835, 1031 |
| Hpy188I | TCNGA | 2 cut(s) | 421, 538 |
| Hpy188III | TCNNGA | 1 cut(s) | 321 |
| Hpy8I | GTNNAC | 4 cut(s) | 32, 64, 835, 1031 |
| HpyAV | CCTTC | 4 cut(s) | 174, 182, 672, 1054 |
| HpyCH4III | ACNGT | 2 cut(s) | 36, 908 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 748 |
| HpyF3I | CTNAG | 2 cut(s) | 67, 570 |
| Hsp92II | CATG | 6 cut(s) | 93, 178, 553, 689, 779, 1122 |
| Ksp22I | TGATCA | 2 cut(s) | 177, 463 |
| Kzo9I | GATC | 4 cut(s) | 177, 217, 442, 463 |
| LguI | GCTCTTC | 1 cut(s) | 383 |
| LmnI | GCTCC | 3 cut(s) | 80, 787, 1010 |
| LpnPI | CCDG | 7 cut(s) | 72, 295, 425, 452, 550, 594, 1127 |
| Lsp1109I | GCAGC | 5 cut(s) | 256, 784, 791, 883, 886 |
| LweI | GCATC | 1 cut(s) | 727 |
| MaeI | CTAG | 3 cut(s) | 321, 801, 879 |
| MaeIII | GTNAC | 5 cut(s) | 85, 102, 208, 311, 679 |
| MalI | GATC | 4 cut(s) | 179, 219, 444, 465 |
| MboI | GATC | 4 cut(s) | 177, 217, 442, 463 |
| MboII | GAAGA | 6 cut(s) | 197, 400, 463, 512, 512, 647 |
| MhlI | GDGCHC | 2 cut(s) | 837, 1015 |
| MluCI | AATT | 8 cut(s) | 25, 49, 327, 507, 596, 674, 856, 999 |
| MmeI | TCCRAC | 2 cut(s) | 63, 102 |
| MnlI | CCTC | 7 cut(s) | 113, 342, 367, 631, 753, 796, 861 |
| Mph1103I | ATGCAT | 1 cut(s) | 720 |
| MseI | TTAA | 5 cut(s) | 20, 116, 342, 372, 599 |
| MslI | CAYNNNNRTG | 2 cut(s) | 69, 726 |
| MspCI | CTTAAG | 1 cut(s) | 19 |
| MspI | CCGG | 1 cut(s) | 581 |
| MspR9I | CCNGG | 2 cut(s) | 440, 581 |
| MvaI | CCWGG | 1 cut(s) | 440 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 748 |
| NciI | CCSGG | 1 cut(s) | 581 |
| NdeI | CATATG | 2 cut(s) | 489, 738 |
| NdeII | GATC | 4 cut(s) | 177, 217, 442, 463 |
| NlaIII | CATG | 6 cut(s) | 93, 178, 553, 689, 779, 1122 |
| NlaIV | GGNNCC | 2 cut(s) | 76, 605 |
| NmuCI | GTSAC | 3 cut(s) | 85, 208, 679 |
| NsiI | ATGCAT | 1 cut(s) | 720 |
| NspI | RCATGY | 1 cut(s) | 779 |
| PaeI | GCATGC | 1 cut(s) | 779 |
| PciSI | GCTCTTC | 1 cut(s) | 383 |
| PfeI | GAWTC | 3 cut(s) | 55, 422, 484 |
| PkrI | GCNGC | 5 cut(s) | 271, 774, 781, 873, 876 |
| PpuMI | RGGWCCY | 1 cut(s) | 603 |
| Psp5II | RGGWCCY | 1 cut(s) | 603 |
| Psp6I | CCWGG | 1 cut(s) | 438 |
| PspGI | CCWGG | 1 cut(s) | 438 |
| PspN4I | GGNNCC | 2 cut(s) | 76, 605 |
| PspPI | GGNCC | 2 cut(s) | 603, 1028 |
| PspPPI | RGGWCCY | 1 cut(s) | 603 |
| RsaI | GTAC | 3 cut(s) | 224, 733, 913 |
| RsaNI | GTAC | 3 cut(s) | 223, 732, 912 |
| RseI | CAYNNNNRTG | 2 cut(s) | 69, 726 |
| SapI | GCTCTTC | 1 cut(s) | 383 |
| SaqAI | TTAA | 5 cut(s) | 20, 116, 342, 372, 599 |
| SatI | GCNGC | 5 cut(s) | 270, 773, 780, 872, 875 |
| Sau3AI | GATC | 4 cut(s) | 177, 217, 442, 463 |
| Sau96I | GGNCC | 2 cut(s) | 603, 1028 |
| ScrFI | CCNGG | 2 cut(s) | 440, 581 |
| SduI | GDGCHC | 2 cut(s) | 837, 1015 |
| SfaNI | GCATC | 1 cut(s) | 727 |
| SfcI | CTRYAG | 1 cut(s) | 907 |
| SinI | GGWCC | 2 cut(s) | 603, 1028 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 69, 726 |
| SmlI | CTYRAG | 2 cut(s) | 19, 1107 |
| SmoI | CTYRAG | 2 cut(s) | 19, 1107 |
| SphI | GCATGC | 1 cut(s) | 779 |
| Sse9I | AATT | 8 cut(s) | 25, 49, 327, 507, 596, 674, 856, 999 |
| SspMI | CTAG | 3 cut(s) | 321, 801, 879 |
| StyD4I | CCNGG | 2 cut(s) | 438, 579 |
| TaaI | ACNGT | 2 cut(s) | 36, 908 |
| TaqI | TCGA | 1 cut(s) | 445 |
| TasI | AATT | 8 cut(s) | 25, 49, 327, 507, 596, 674, 856, 999 |
| TfiI | GAWTC | 3 cut(s) | 55, 422, 484 |
| Tru1I | TTAA | 5 cut(s) | 20, 116, 342, 372, 599 |
| Tru9I | TTAA | 5 cut(s) | 20, 116, 342, 372, 599 |
| TscAI | CASTG | 1 cut(s) | 289 |
| TseFI | GTSAC | 3 cut(s) | 85, 208, 679 |
| TseI | GCWGC | 5 cut(s) | 269, 772, 779, 871, 874 |
| Tsp45I | GTSAC | 3 cut(s) | 85, 208, 679 |
| TspDTI | ATGAA | 6 cut(s) | 17, 149, 476, 513, 566, 949 |
| TspRI | CASTG | 1 cut(s) | 289 |
| Vha464I | CTTAAG | 1 cut(s) | 19 |
| VneI | GTGCAC | 1 cut(s) | 833 |
| VpaK11BI | GGWCC | 2 cut(s) | 603, 1028 |
| XapI | RAATTY | 4 cut(s) | 327, 674, 856, 999 |
| XbaI | TCTAGA | 1 cut(s) | 320 |
| XceI | RCATGY | 1 cut(s) | 779 |
| XmiI | GTMKAC | 1 cut(s) | 31 |
| XspI | CTAG | 3 cut(s) | 321, 801, 879 |
| Zsp2I | ATGCAT | 1 cut(s) | 720 |