gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 51 - 198 | 9e-15 | 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) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 731 |
| Acc36I | ACCTGC | 2 cut(s) | 731, 745 |
| AciI | CCGC | 1 cut(s) | 141 |
| AclWI | GGATC | 2 cut(s) | 116, 443 |
| AcoI | YGGCCR | 1 cut(s) | 775 |
| AcsI | RAATTY | 1 cut(s) | 49 |
| AcuI | CTGAAG | 1 cut(s) | 770 |
| AfaI | GTAC | 2 cut(s) | 185, 688 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 743 |
| AjnI | CCWGG | 1 cut(s) | 772 |
| AluBI | AGCT | 1 cut(s) | 334 |
| AluI | AGCT | 1 cut(s) | 334 |
| AlwI | GGATC | 2 cut(s) | 116, 443 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 326 |
| AoxI | GGCC | 2 cut(s) | 745, 775 |
| ApoI | RAATTY | 1 cut(s) | 49 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 248, 280 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 676, 755 |
| BalI | TGGCCA | 1 cut(s) | 777 |
| BccI | CCATC | 1 cut(s) | 193 |
| BciT130I | CCWGG | 1 cut(s) | 774 |
| BclI | TGATCA | 4 cut(s) | 103, 207, 213, 496 |
| BfaI | CTAG | 1 cut(s) | 95 |
| BfmI | CTRYAG | 1 cut(s) | 738 |
| BfuAI | ACCTGC | 2 cut(s) | 731, 745 |
| Bme1390I | CCNGG | 1 cut(s) | 774 |
| BmrFI | CCNGG | 1 cut(s) | 774 |
| BsaBI | GATNNNNATC | 2 cut(s) | 212, 843 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 743 |
| Bse1I | ACTGG | 2 cut(s) | 331, 688 |
| Bse3DI | GCAATG | 3 cut(s) | 134, 288, 408 |
| Bse8I | GATNNNNATC | 2 cut(s) | 212, 843 |
| BseBI | CCWGG | 1 cut(s) | 774 |
| BseGI | GGATG | 1 cut(s) | 583 |
| BseJI | GATNNNNATC | 2 cut(s) | 212, 843 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 743 |
| BseMI | GCAATG | 3 cut(s) | 134, 288, 408 |
| BseMII | CTCAG | 4 cut(s) | 222, 273, 436, 536 |
| BseNI | ACTGG | 2 cut(s) | 331, 688 |
| BseYI | CCCAGC | 1 cut(s) | 413 |
| BshFI | GGCC | 2 cut(s) | 747, 777 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 743 |
| BsnI | GGCC | 2 cut(s) | 747, 777 |
| Bsp143I | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| BspACI | CCGC | 1 cut(s) | 141 |
| BspANI | GGCC | 2 cut(s) | 747, 777 |
| BspCNI | CTCAG | 4 cut(s) | 223, 272, 435, 535 |
| BspHI | TCATGA | 2 cut(s) | 210, 348 |
| BspMAI | CTGCAG | 1 cut(s) | 742 |
| BspMI | ACCTGC | 2 cut(s) | 731, 745 |
| BspPI | GGATC | 2 cut(s) | 116, 443 |
| BspQI | GCTCTTC | 1 cut(s) | 215 |
| BsrDI | GCAATG | 3 cut(s) | 134, 288, 408 |
| BsrI | ACTGG | 2 cut(s) | 331, 688 |
| BssMI | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| Bst2UI | CCWGG | 1 cut(s) | 774 |
| Bst6I | CTCTTC | 2 cut(s) | 59, 215 |
| BstC8I | GCNNGC | 2 cut(s) | 141, 151 |
| BstDEI | CTNAG | 4 cut(s) | 231, 259, 422, 522 |
| BstF5I | GGATG | 1 cut(s) | 583 |
| BstKTI | GATC | 6 cut(s) | 106, 124, 210, 216, 451, 499 |
| BstMBI | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 140, 159 |
| BstNI | CCWGG | 1 cut(s) | 774 |
| BstSCI | CCNGG | 1 cut(s) | 772 |
| BstSFI | CTRYAG | 1 cut(s) | 738 |
| BstX2I | RGATCY | 2 cut(s) | 121, 448 |
| BstYI | RGATCY | 2 cut(s) | 121, 448 |
| BsuRI | GGCC | 2 cut(s) | 747, 777 |
| BtsCI | GGATG | 1 cut(s) | 583 |
| BtsIMutI | CAGTG | 2 cut(s) | 203, 615 |
| BveI | ACCTGC | 2 cut(s) | 731, 745 |
| Cac8I | GCNNGC | 2 cut(s) | 141, 151 |
| CaiI | CAGNNNCTG | 1 cut(s) | 326 |
| CciI | TCATGA | 2 cut(s) | 210, 348 |
| Csp6I | GTAC | 2 cut(s) | 184, 687 |
| CviAII | CATG | 4 cut(s) | 107, 211, 349, 436 |
| CviJI | RGCY | 6 cut(s) | 45, 334, 440, 747, 777, 814 |
| CviKI_1 | RGCY | 6 cut(s) | 45, 334, 440, 747, 777, 814 |
| CviQI | GTAC | 2 cut(s) | 184, 687 |
| DdeI | CTNAG | 4 cut(s) | 231, 259, 422, 522 |
| DpnI | GATC | 6 cut(s) | 105, 123, 209, 215, 450, 498 |
| DpnII | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| DraI | TTTAAA | 1 cut(s) | 727 |
| EaeI | YGGCCR | 1 cut(s) | 775 |
| Eam1104I | CTCTTC | 2 cut(s) | 59, 215 |
| EarI | CTCTTC | 2 cut(s) | 59, 215 |
| Eco57I | CTGAAG | 1 cut(s) | 770 |
| EcoRII | CCWGG | 1 cut(s) | 772 |
| FaeI | CATG | 4 cut(s) | 110, 214, 352, 439 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 743, 775 |
| FatI | CATG | 4 cut(s) | 106, 210, 348, 435 |
| FauI | CCCGC | 1 cut(s) | 148 |
| FbaI | TGATCA | 4 cut(s) | 103, 207, 213, 496 |
| FokI | GGATG | 1 cut(s) | 590 |
| FspBI | CTAG | 1 cut(s) | 95 |
| GsaI | CCCAGC | 1 cut(s) | 417 |
| HaeIII | GGCC | 2 cut(s) | 747, 777 |
| Hin1II | CATG | 4 cut(s) | 110, 214, 352, 439 |
| HindIII | AAGCTT | 1 cut(s) | 332 |
| HinfI | GANTC | 4 cut(s) | 82, 257, 476, 613 |
| Hpy188I | TCNGA | 6 cut(s) | 27, 262, 406, 425, 525, 712 |
| Hpy188III | TCNNGA | 7 cut(s) | 55, 95, 211, 217, 254, 349, 637 |
| HpyAV | CCTTC | 3 cut(s) | 391, 520, 586 |
| HpyCH4V | TGCA | 7 cut(s) | 4, 149, 269, 293, 358, 740, 765 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 140, 159 |
| HpyF3I | CTNAG | 4 cut(s) | 231, 259, 422, 522 |
| Hsp92II | CATG | 4 cut(s) | 110, 214, 352, 439 |
| Ksp22I | TGATCA | 4 cut(s) | 103, 207, 213, 496 |
| Kzo9I | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| LguI | GCTCTTC | 1 cut(s) | 215 |
| MaeI | CTAG | 1 cut(s) | 95 |
| MaeIII | GTNAC | 1 cut(s) | 68 |
| MalI | GATC | 6 cut(s) | 105, 123, 209, 215, 450, 498 |
| MboI | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| MboII | GAAGA | 6 cut(s) | 76, 131, 232, 271, 458, 601 |
| MfeI | CAATTG | 1 cut(s) | 144 |
| MflI | RGATCY | 2 cut(s) | 121, 448 |
| MlsI | TGGCCA | 1 cut(s) | 777 |
| MluCI | AATT | 5 cut(s) | 49, 77, 144, 283, 582 |
| MluNI | TGGCCA | 1 cut(s) | 777 |
| MlyI | GAGTC | 1 cut(s) | 251 |
| MmeI | TCCRAC | 1 cut(s) | 336 |
| MnlI | CCTC | 8 cut(s) | 239, 345, 419, 568, 639, 699, 790, 818 |
| Mox20I | TGGCCA | 1 cut(s) | 777 |
| MroXI | GAANNNNTTC | 2 cut(s) | 676, 755 |
| MscI | TGGCCA | 1 cut(s) | 777 |
| MseI | TTAA | 4 cut(s) | 585, 720, 726, 783 |
| Msp20I | TGGCCA | 1 cut(s) | 777 |
| MspR9I | CCNGG | 1 cut(s) | 774 |
| MunI | CAATTG | 1 cut(s) | 144 |
| MvaI | CCWGG | 1 cut(s) | 774 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 140, 159 |
| NdeII | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| NlaIII | CATG | 4 cut(s) | 110, 214, 352, 439 |
| NmuCI | GTSAC | 1 cut(s) | 68 |
| PagI | TCATGA | 2 cut(s) | 210, 348 |
| PaqCI | CACCTGC | 1 cut(s) | 731 |
| PciSI | GCTCTTC | 1 cut(s) | 215 |
| PdmI | GAANNNNTTC | 2 cut(s) | 676, 755 |
| PfeI | GAWTC | 3 cut(s) | 82, 476, 613 |
| PleI | GAGTC | 1 cut(s) | 251 |
| PpsI | GAGTC | 1 cut(s) | 251 |
| Psp6I | CCWGG | 1 cut(s) | 772 |
| PspFI | CCCAGC | 1 cut(s) | 413 |
| PspGI | CCWGG | 1 cut(s) | 772 |
| PstI | CTGCAG | 1 cut(s) | 742 |
| PstNI | CAGNNNCTG | 1 cut(s) | 326 |
| PsuI | RGATCY | 2 cut(s) | 121, 448 |
| RsaI | GTAC | 2 cut(s) | 185, 688 |
| RsaNI | GTAC | 2 cut(s) | 184, 687 |
| SapI | GCTCTTC | 1 cut(s) | 215 |
| SaqAI | TTAA | 4 cut(s) | 585, 720, 726, 783 |
| Sau3AI | GATC | 6 cut(s) | 103, 121, 207, 213, 448, 496 |
| SbfI | CCTGCAGG | 1 cut(s) | 742 |
| SchI | GAGTC | 1 cut(s) | 251 |
| ScrFI | CCNGG | 1 cut(s) | 774 |
| SdaI | CCTGCAGG | 1 cut(s) | 742 |
| SetI | ASST | 9 cut(s) | 250, 309, 336, 356, 650, 710, 739, 745, 775 |
| SfcI | CTRYAG | 1 cut(s) | 738 |
| Sse8387I | CCTGCAGG | 1 cut(s) | 742 |
| Sse9I | AATT | 5 cut(s) | 49, 77, 144, 283, 582 |
| SsiI | CCGC | 1 cut(s) | 141 |
| SspMI | CTAG | 1 cut(s) | 95 |
| StyD4I | CCNGG | 1 cut(s) | 772 |
| TasI | AATT | 5 cut(s) | 49, 77, 144, 283, 582 |
| TfiI | GAWTC | 3 cut(s) | 82, 476, 613 |
| Tru1I | TTAA | 4 cut(s) | 585, 720, 726, 783 |
| Tru9I | TTAA | 4 cut(s) | 585, 720, 726, 783 |
| TscAI | CASTG | 2 cut(s) | 210, 615 |
| TseFI | GTSAC | 1 cut(s) | 68 |
| Tsp45I | GTSAC | 1 cut(s) | 68 |
| TspDTI | ATGAA | 3 cut(s) | 353, 561, 594 |
| TspRI | CASTG | 2 cut(s) | 210, 615 |
| XapI | RAATTY | 1 cut(s) | 49 |
| XbaI | TCTAGA | 1 cut(s) | 94 |
| XmnI | GAANNNNTTC | 2 cut(s) | 676, 755 |
| XspI | CTAG | 1 cut(s) | 95 |