gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 42 - 191 | 3e-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) |
|---|---|---|---|
| Acc36I | ACCTGC | 1 cut(s) | 198 |
| AclWI | GGATC | 3 cut(s) | 67, 131, 144 |
| AcsI | RAATTY | 3 cut(s) | 105, 264, 346 |
| AfaI | GTAC | 3 cut(s) | 188, 317, 404 |
| AflII | CTTAAG | 1 cut(s) | 518 |
| AgsI | TTSAA | 6 cut(s) | 47, 92, 298, 379, 439, 461 |
| AjnI | CCWGG | 1 cut(s) | 99 |
| AluBI | AGCT | 2 cut(s) | 155, 335 |
| AluI | AGCT | 2 cut(s) | 155, 335 |
| Alw26I | GTCTC | 4 cut(s) | 78, 167, 332, 530 |
| AlwI | GGATC | 3 cut(s) | 67, 131, 144 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 275 |
| AoxI | GGCC | 2 cut(s) | 216, 442 |
| ApeKI | GCWGC | 1 cut(s) | 155 |
| ApoI | RAATTY | 3 cut(s) | 105, 264, 346 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 331, 363 |
| AspS9I | GGNCC | 1 cut(s) | 442 |
| BamHI | GGATCC | 1 cut(s) | 136 |
| BbvI | GCAGC | 1 cut(s) | 142 |
| BciT130I | CCWGG | 1 cut(s) | 101 |
| BclI | TGATCA | 3 cut(s) | 3, 118, 363 |
| BcoDI | GTCTC | 4 cut(s) | 78, 167, 332, 530 |
| BfmI | CTRYAG | 1 cut(s) | 191 |
| BfrI | CTTAAG | 1 cut(s) | 518 |
| BfuAI | ACCTGC | 1 cut(s) | 198 |
| BisI | GCNGC | 1 cut(s) | 156 |
| BlsI | GCNGC | 1 cut(s) | 157 |
| Bme1390I | CCNGG | 1 cut(s) | 101 |
| BmgT120I | GGNCC | 1 cut(s) | 442 |
| BmiI | GGNNCC | 2 cut(s) | 138, 150 |
| BmrFI | CCNGG | 1 cut(s) | 101 |
| BmsI | GCATC | 2 cut(s) | 238, 402 |
| Bpu10I | CCTNAGC | 1 cut(s) | 128 |
| BsaJI | CCNNGG | 1 cut(s) | 100 |
| Bse1I | ACTGG | 1 cut(s) | 346 |
| Bse3DI | GCAATG | 1 cut(s) | 303 |
| BseBI | CCWGG | 1 cut(s) | 101 |
| BseDI | CCNNGG | 1 cut(s) | 100 |
| BseMI | GCAATG | 1 cut(s) | 303 |
| BseMII | CTCAG | 2 cut(s) | 327, 551 |
| BseNI | ACTGG | 1 cut(s) | 346 |
| BseXI | GCAGC | 1 cut(s) | 142 |
| BshFI | GGCC | 2 cut(s) | 218, 444 |
| BsmAI | GTCTC | 4 cut(s) | 78, 167, 332, 530 |
| BsnI | GGCC | 2 cut(s) | 218, 444 |
| Bsp143I | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| BspANI | GGCC | 2 cut(s) | 218, 444 |
| BspCNI | CTCAG | 2 cut(s) | 328, 550 |
| BspLI | GGNNCC | 2 cut(s) | 138, 150 |
| BspMAI | CTGCAG | 1 cut(s) | 195 |
| BspMI | ACCTGC | 1 cut(s) | 198 |
| BspPI | GGATC | 3 cut(s) | 67, 131, 144 |
| BspTI | CTTAAG | 1 cut(s) | 518 |
| BsrDI | GCAATG | 1 cut(s) | 303 |
| BsrI | ACTGG | 1 cut(s) | 346 |
| BssECI | CCNNGG | 1 cut(s) | 100 |
| BssMI | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| Bst2UI | CCWGG | 1 cut(s) | 101 |
| Bst4CI | ACNGT | 2 cut(s) | 457, 512 |
| BstAFI | CTTAAG | 1 cut(s) | 518 |
| BstC8I | GCNNGC | 2 cut(s) | 153, 166 |
| BstDEI | CTNAG | 4 cut(s) | 128, 177, 336, 537 |
| BstKTI | GATC | 6 cut(s) | 6, 62, 121, 139, 225, 366 |
| BstMAI | GTCTC | 4 cut(s) | 78, 167, 332, 530 |
| BstMBI | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 161 |
| BstNI | CCWGG | 1 cut(s) | 101 |
| BstSCI | CCNGG | 1 cut(s) | 99 |
| BstSFI | CTRYAG | 1 cut(s) | 191 |
| BstV1I | GCAGC | 1 cut(s) | 142 |
| BstX2I | RGATCY | 1 cut(s) | 136 |
| BstYI | RGATCY | 1 cut(s) | 136 |
| BsuRI | GGCC | 2 cut(s) | 218, 444 |
| BtsI | GCAGTG | 4 cut(s) | 14, 200, 258, 423 |
| BtsIMutI | CAGTG | 4 cut(s) | 14, 200, 258, 423 |
| BveI | ACCTGC | 1 cut(s) | 198 |
| Cac8I | GCNNGC | 2 cut(s) | 153, 166 |
| CaiI | CAGNNNCTG | 1 cut(s) | 275 |
| Cfr13I | GGNCC | 1 cut(s) | 442 |
| Csp6I | GTAC | 3 cut(s) | 187, 316, 403 |
| CviAII | CATG | 4 cut(s) | 7, 122, 229, 241 |
| CviJI | RGCY | 5 cut(s) | 151, 155, 218, 335, 444 |
| CviKI_1 | RGCY | 5 cut(s) | 151, 155, 218, 335, 444 |
| CviQI | GTAC | 3 cut(s) | 187, 316, 403 |
| DdeI | CTNAG | 4 cut(s) | 128, 177, 336, 537 |
| DpnI | GATC | 6 cut(s) | 5, 61, 120, 138, 224, 365 |
| DpnII | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| EcoO109I | RGGNCCY | 1 cut(s) | 442 |
| EcoRI | GAATTC | 2 cut(s) | 105, 264 |
| EcoRII | CCWGG | 1 cut(s) | 99 |
| FaeI | CATG | 4 cut(s) | 10, 125, 232, 244 |
| FatI | CATG | 4 cut(s) | 6, 121, 228, 240 |
| FauNDI | CATATG | 1 cut(s) | 575 |
| FbaI | TGATCA | 3 cut(s) | 3, 118, 363 |
| Fnu4HI | GCNGC | 1 cut(s) | 156 |
| Fsp4HI | GCNGC | 1 cut(s) | 156 |
| GluI | GCNGC | 1 cut(s) | 156 |
| HaeIII | GGCC | 2 cut(s) | 218, 444 |
| Hin1II | CATG | 4 cut(s) | 10, 125, 232, 244 |
| HinfI | GANTC | 3 cut(s) | 272, 523, 553 |
| Hpy188I | TCNGA | 4 cut(s) | 277, 328, 502, 540 |
| Hpy188III | TCNNGA | 4 cut(s) | 110, 269, 367, 557 |
| HpyAV | CCTTC | 3 cut(s) | 250, 433, 535 |
| HpyCH4III | ACNGT | 2 cut(s) | 457, 512 |
| HpyCH4V | TGCA | 9 cut(s) | 14, 19, 164, 193, 228, 251, 284, 308, 412 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 161 |
| HpyF3I | CTNAG | 4 cut(s) | 128, 177, 336, 537 |
| Hsp92II | CATG | 4 cut(s) | 10, 125, 232, 244 |
| Ksp22I | TGATCA | 3 cut(s) | 3, 118, 363 |
| Kzo9I | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| LmnI | GCTCC | 1 cut(s) | 148 |
| Lsp1109I | GCAGC | 1 cut(s) | 142 |
| LweI | GCATC | 2 cut(s) | 238, 402 |
| MaeIII | GTNAC | 2 cut(s) | 38, 451 |
| MalI | GATC | 6 cut(s) | 5, 61, 120, 138, 224, 365 |
| MboI | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| MboII | GAAGA | 2 cut(s) | 244, 473 |
| MflI | RGATCY | 1 cut(s) | 136 |
| MluCI | AATT | 4 cut(s) | 92, 105, 264, 346 |
| MlyI | GAGTC | 2 cut(s) | 532, 562 |
| MnlI | CCTC | 3 cut(s) | 127, 254, 366 |
| MseI | TTAA | 3 cut(s) | 95, 489, 519 |
| MspA1I | CMGCKG | 1 cut(s) | 155 |
| MspCI | CTTAAG | 1 cut(s) | 518 |
| MspR9I | CCNGG | 1 cut(s) | 101 |
| MvaI | CCWGG | 1 cut(s) | 101 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 161 |
| NdeI | CATATG | 1 cut(s) | 575 |
| NdeII | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| NlaIII | CATG | 4 cut(s) | 10, 125, 232, 244 |
| NlaIV | GGNNCC | 2 cut(s) | 138, 150 |
| NmuCI | GTSAC | 1 cut(s) | 451 |
| PfeI | GAWTC | 1 cut(s) | 272 |
| PkrI | GCNGC | 1 cut(s) | 157 |
| PleI | GAGTC | 2 cut(s) | 531, 561 |
| PpsI | GAGTC | 2 cut(s) | 531, 561 |
| Psp6I | CCWGG | 1 cut(s) | 99 |
| PspGI | CCWGG | 1 cut(s) | 99 |
| PspN4I | GGNNCC | 2 cut(s) | 138, 150 |
| PspPI | GGNCC | 1 cut(s) | 442 |
| PstI | CTGCAG | 1 cut(s) | 195 |
| PstNI | CAGNNNCTG | 1 cut(s) | 275 |
| PsuI | RGATCY | 1 cut(s) | 136 |
| PvuII | CAGCTG | 1 cut(s) | 155 |
| RsaI | GTAC | 3 cut(s) | 188, 317, 404 |
| RsaNI | GTAC | 3 cut(s) | 187, 316, 403 |
| SaqAI | TTAA | 3 cut(s) | 95, 489, 519 |
| SatI | GCNGC | 1 cut(s) | 156 |
| Sau3AI | GATC | 6 cut(s) | 3, 59, 118, 136, 222, 363 |
| Sau96I | GGNCC | 1 cut(s) | 442 |
| SchI | GAGTC | 2 cut(s) | 532, 562 |
| ScrFI | CCNGG | 1 cut(s) | 101 |
| SetI | ASST | 6 cut(s) | 102, 157, 192, 324, 337, 377 |
| SfaNI | GCATC | 2 cut(s) | 238, 402 |
| SfcI | CTRYAG | 1 cut(s) | 191 |
| SmlI | CTYRAG | 1 cut(s) | 518 |
| SmoI | CTYRAG | 1 cut(s) | 518 |
| Sse9I | AATT | 4 cut(s) | 92, 105, 264, 346 |
| StyD4I | CCNGG | 1 cut(s) | 99 |
| TaaI | ACNGT | 2 cut(s) | 457, 512 |
| TasI | AATT | 4 cut(s) | 92, 105, 264, 346 |
| TatI | WGTACW | 2 cut(s) | 315, 402 |
| TfiI | GAWTC | 1 cut(s) | 272 |
| Tru1I | TTAA | 3 cut(s) | 95, 489, 519 |
| Tru9I | TTAA | 3 cut(s) | 95, 489, 519 |
| TscAI | CASTG | 4 cut(s) | 21, 200, 258, 430 |
| TseFI | GTSAC | 1 cut(s) | 451 |
| TseI | GCWGC | 1 cut(s) | 155 |
| Tsp45I | GTSAC | 1 cut(s) | 451 |
| TspDTI | ATGAA | 3 cut(s) | 245, 368, 576 |
| TspRI | CASTG | 4 cut(s) | 21, 200, 258, 430 |
| Vha464I | CTTAAG | 1 cut(s) | 518 |
| XapI | RAATTY | 3 cut(s) | 105, 264, 346 |