gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 32 - 205 | 5e-26 | 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) |
|---|---|---|---|
| Acc16I | TGCGCA | 1 cut(s) | 228 |
| Acc36I | ACCTGC | 2 cut(s) | 393, 435 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 776 |
| AclWI | GGATC | 3 cut(s) | 342, 459, 1199 |
| AcoI | YGGCCR | 1 cut(s) | 181 |
| AcsI | RAATTY | 3 cut(s) | 128, 196, 1008 |
| AcuI | CTGAAG | 1 cut(s) | 294 |
| AfaI | GTAC | 3 cut(s) | 425, 799, 922 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 776 |
| AgsI | TTSAA | 6 cut(s) | 376, 398, 511, 783, 955, 1166 |
| AjnI | CCWGG | 1 cut(s) | 1021 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 763, 795 |
| AluBI | AGCT | 3 cut(s) | 58, 278, 586 |
| AluI | AGCT | 3 cut(s) | 58, 278, 586 |
| Alw26I | GTCTC | 2 cut(s) | 909, 1138 |
| AlwI | GGATC | 3 cut(s) | 342, 459, 1199 |
| AoxI | GGCC | 3 cut(s) | 181, 857, 989 |
| ApeKI | GCWGC | 2 cut(s) | 605, 752 |
| ApoI | RAATTY | 3 cut(s) | 128, 196, 1008 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 778 |
| AspLEI | GCGC | 1 cut(s) | 229 |
| AspS9I | GGNCC | 2 cut(s) | 737, 767 |
| AsuHPI | GGTGA | 1 cut(s) | 137 |
| AsuNHI | GCTAGC | 1 cut(s) | 1115 |
| AvaII | GGWCC | 2 cut(s) | 737, 767 |
| BalI | TGGCCA | 1 cut(s) | 183 |
| BbsI | GAAGAC | 1 cut(s) | 222 |
| BbvI | GCAGC | 2 cut(s) | 592, 739 |
| BccI | CCATC | 3 cut(s) | 131, 163, 173 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 1193, 1227 |
| BciT130I | CCWGG | 1 cut(s) | 1023 |
| BcoDI | GTCTC | 2 cut(s) | 909, 1138 |
| BfaI | CTAG | 3 cut(s) | 354, 993, 1116 |
| BfmI | CTRYAG | 2 cut(s) | 9, 1125 |
| BfuAI | ACCTGC | 2 cut(s) | 393, 435 |
| BisI | GCNGC | 2 cut(s) | 606, 753 |
| BlpI | GCTNAGC | 1 cut(s) | 558 |
| BlsI | GCNGC | 2 cut(s) | 607, 754 |
| Bme1390I | CCNGG | 1 cut(s) | 1023 |
| Bme18I | GGWCC | 2 cut(s) | 737, 767 |
| BmgT120I | GGNCC | 2 cut(s) | 737, 767 |
| BmrFI | CCNGG | 1 cut(s) | 1023 |
| BmrI | ACTGGG | 1 cut(s) | 229 |
| BmsI | GCATC | 2 cut(s) | 627, 1057 |
| BmtI | GCTAGC | 1 cut(s) | 1119 |
| BmuI | ACTGGG | 1 cut(s) | 229 |
| BpiI | GAAGAC | 1 cut(s) | 222 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 558 |
| BpuEI | CTTGAG | 2 cut(s) | 314, 1112 |
| Bsa29I | ATCGAT | 1 cut(s) | 337 |
| BsaBI | GATNNNNATC | 2 cut(s) | 237, 503 |
| BsaI | GGTCTC | 1 cut(s) | 909 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 776 |
| Bse1I | ACTGG | 2 cut(s) | 224, 928 |
| Bse3DI | GCAATG | 2 cut(s) | 883, 1188 |
| Bse8I | GATNNNNATC | 2 cut(s) | 237, 503 |
| BseBI | CCWGG | 1 cut(s) | 1023 |
| BseCI | ATCGAT | 1 cut(s) | 337 |
| BseGI | GGATG | 2 cut(s) | 142, 155 |
| BseJI | GATNNNNATC | 2 cut(s) | 237, 503 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 776 |
| BseMI | GCAATG | 2 cut(s) | 883, 1188 |
| BseMII | CTCAG | 4 cut(s) | 206, 516, 573, 687 |
| BseNI | ACTGG | 2 cut(s) | 224, 928 |
| BseXI | GCAGC | 2 cut(s) | 592, 739 |
| BshFI | GGCC | 3 cut(s) | 183, 859, 991 |
| BshVI | ATCGAT | 1 cut(s) | 337 |
| BsiSI | CCGG | 1 cut(s) | 988 |
| BslFI | GGGAC | 1 cut(s) | 729 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 776 |
| BsmAI | GTCTC | 2 cut(s) | 909, 1138 |
| BsmFI | GGGAC | 1 cut(s) | 729 |
| BsmI | GAATGC | 1 cut(s) | 670 |
| BsnI | GGCC | 3 cut(s) | 183, 859, 991 |
| Bso31I | GGTCTC | 1 cut(s) | 909 |
| Bsp143I | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 558 |
| BspANI | GGCC | 3 cut(s) | 183, 859, 991 |
| BspCNI | CTCAG | 4 cut(s) | 205, 517, 574, 688 |
| BspDI | ATCGAT | 1 cut(s) | 337 |
| BspMAI | CTGCAG | 1 cut(s) | 1129 |
| BspMI | ACCTGC | 2 cut(s) | 393, 435 |
| BspOI | GCTAGC | 1 cut(s) | 1119 |
| BspPI | GGATC | 3 cut(s) | 342, 459, 1199 |
| BspTNI | GGTCTC | 1 cut(s) | 909 |
| BsrDI | GCAATG | 2 cut(s) | 883, 1188 |
| BsrI | ACTGG | 2 cut(s) | 224, 928 |
| BssMI | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| Bst2UI | CCWGG | 1 cut(s) | 1023 |
| Bst4CI | ACNGT | 4 cut(s) | 349, 920, 1104, 1149 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 1187 |
| BstC8I | GCNNGC | 5 cut(s) | 122, 564, 603, 1046, 1117 |
| BstDEI | CTNAG | 8 cut(s) | 192, 431, 525, 558, 582, 587, 696, 711 |
| BstF5I | GGATG | 2 cut(s) | 142, 155 |
| BstHHI | GCGC | 1 cut(s) | 229 |
| BstKTI | GATC | 4 cut(s) | 337, 454, 1062, 1207 |
| BstMAI | GTCTC | 2 cut(s) | 909, 1138 |
| BstMBI | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 563, 674, 1187 |
| BstNI | CCWGG | 1 cut(s) | 1023 |
| BstNSI | RCATGY | 1 cut(s) | 566 |
| BstSCI | CCNGG | 1 cut(s) | 1021 |
| BstSFI | CTRYAG | 2 cut(s) | 9, 1125 |
| BstV1I | GCAGC | 2 cut(s) | 592, 739 |
| BstV2I | GAAGAC | 1 cut(s) | 222 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 293 |
| Bsu15I | ATCGAT | 1 cut(s) | 337 |
| BsuRI | GGCC | 3 cut(s) | 183, 859, 991 |
| BsuTUI | ATCGAT | 1 cut(s) | 337 |
| BtsCI | GGATG | 2 cut(s) | 142, 155 |
| BtsI | GCAGTG | 1 cut(s) | 255 |
| BtsIMutI | CAGTG | 1 cut(s) | 255 |
| BveI | ACCTGC | 2 cut(s) | 393, 435 |
| Cac8I | GCNNGC | 5 cut(s) | 122, 564, 603, 1046, 1117 |
| CfoI | GCGC | 1 cut(s) | 229 |
| Cfr13I | GGNCC | 2 cut(s) | 737, 767 |
| ClaI | ATCGAT | 1 cut(s) | 337 |
| Csp6I | GTAC | 3 cut(s) | 424, 798, 921 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 829, 864 |
| CviAII | CATG | 5 cut(s) | 81, 116, 287, 563, 1223 |
| CviQI | GTAC | 3 cut(s) | 424, 798, 921 |
| DdeI | CTNAG | 8 cut(s) | 192, 431, 525, 558, 582, 587, 696, 711 |
| DpnI | GATC | 4 cut(s) | 336, 453, 1061, 1206 |
| DpnII | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| EaeI | YGGCCR | 1 cut(s) | 181 |
| Eco31I | GGTCTC | 1 cut(s) | 909 |
| Eco47I | GGWCC | 2 cut(s) | 737, 767 |
| Eco57I | CTGAAG | 1 cut(s) | 294 |
| EcoRI | GAATTC | 1 cut(s) | 196 |
| EcoRII | CCWGG | 1 cut(s) | 1021 |
| FaeI | CATG | 5 cut(s) | 84, 119, 290, 566, 1226 |
| FaqI | GGGAC | 1 cut(s) | 729 |
| FatI | CATG | 5 cut(s) | 80, 115, 286, 562, 1222 |
| Fnu4HI | GCNGC | 2 cut(s) | 606, 753 |
| FokI | GGATG | 2 cut(s) | 142, 149 |
| Fsp4HI | GCNGC | 2 cut(s) | 606, 753 |
| FspBI | CTAG | 3 cut(s) | 354, 993, 1116 |
| FspI | TGCGCA | 1 cut(s) | 228 |
| GlaI | GCGC | 1 cut(s) | 228 |
| GluI | GCNGC | 2 cut(s) | 606, 753 |
| HaeIII | GGCC | 3 cut(s) | 183, 859, 991 |
| HapII | CCGG | 1 cut(s) | 988 |
| HhaI | GCGC | 1 cut(s) | 229 |
| Hin1II | CATG | 5 cut(s) | 84, 119, 290, 566, 1226 |
| Hin6I | GCGC | 1 cut(s) | 227 |
| HinP1I | GCGC | 1 cut(s) | 227 |
| HincII | GTYRAC | 3 cut(s) | 841, 1100, 1172 |
| HindII | GTYRAC | 3 cut(s) | 841, 1100, 1172 |
| HinfI | GANTC | 6 cut(s) | 404, 499, 611, 698, 707, 951 |
| HpaII | CCGG | 1 cut(s) | 988 |
| HphI | GGTGA | 1 cut(s) | 137 |
| Hpy166II | GTNNAC | 5 cut(s) | 324, 841, 893, 1100, 1172 |
| Hpy188I | TCNGA | 8 cut(s) | 175, 195, 274, 409, 526, 616, 1143, 1232 |
| Hpy188III | TCNNGA | 3 cut(s) | 91, 508, 1091 |
| Hpy8I | GTNNAC | 5 cut(s) | 324, 841, 893, 1100, 1172 |
| Hpy99I | CGWCG | 2 cut(s) | 65, 902 |
| HpyAV | CCTTC | 1 cut(s) | 319 |
| HpyCH4III | ACNGT | 4 cut(s) | 349, 920, 1104, 1149 |
| HpyCH4V | TGCA | 7 cut(s) | 237, 370, 388, 446, 640, 966, 1127 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 563, 674, 1187 |
| HpyF3I | CTNAG | 8 cut(s) | 192, 431, 525, 558, 582, 587, 696, 711 |
| Hsp92II | CATG | 5 cut(s) | 84, 119, 290, 566, 1226 |
| HspAI | GCGC | 1 cut(s) | 227 |
| Kzo9I | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| LmnI | GCTCC | 2 cut(s) | 571, 1219 |
| Lsp1109I | GCAGC | 2 cut(s) | 592, 739 |
| LweI | GCATC | 2 cut(s) | 627, 1057 |
| MaeI | CTAG | 3 cut(s) | 354, 993, 1116 |
| MaeIII | GTNAC | 4 cut(s) | 812, 821, 914, 974 |
| MalI | GATC | 4 cut(s) | 336, 453, 1061, 1206 |
| MboI | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| MboII | GAAGA | 5 cut(s) | 227, 261, 500, 1071, 1074 |
| MfeI | CAATTG | 2 cut(s) | 371, 455 |
| MlsI | TGGCCA | 1 cut(s) | 183 |
| MluNI | TGGCCA | 1 cut(s) | 183 |
| MlyI | GAGTC | 2 cut(s) | 707, 716 |
| MmeI | TCCRAC | 1 cut(s) | 405 |
| MnlI | CCTC | 7 cut(s) | 104, 197, 307, 532, 782, 803, 1201 |
| Mox20I | TGGCCA | 1 cut(s) | 183 |
| MroXI | GAANNNNTTC | 1 cut(s) | 778 |
| MscI | TGGCCA | 1 cut(s) | 183 |
| MseI | TTAA | 2 cut(s) | 438, 552 |
| MslI | CAYNNNNRTG | 1 cut(s) | 50 |
| Msp20I | TGGCCA | 1 cut(s) | 183 |
| MspI | CCGG | 1 cut(s) | 988 |
| MspR9I | CCNGG | 1 cut(s) | 1023 |
| MunI | CAATTG | 2 cut(s) | 371, 455 |
| Mva1269I | GAATGC | 1 cut(s) | 670 |
| MvaI | CCWGG | 1 cut(s) | 1023 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 563, 674, 1187 |
| NdeII | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| NheI | GCTAGC | 1 cut(s) | 1115 |
| NlaIII | CATG | 5 cut(s) | 84, 119, 290, 566, 1226 |
| NmuCI | GTSAC | 1 cut(s) | 812 |
| NsbI | TGCGCA | 1 cut(s) | 228 |
| NspI | RCATGY | 1 cut(s) | 566 |
| PaeI | GCATGC | 1 cut(s) | 566 |
| PctI | GAATGC | 1 cut(s) | 670 |
| PdmI | GAANNNNTTC | 1 cut(s) | 778 |
| PfeI | GAWTC | 4 cut(s) | 404, 499, 611, 951 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 776 |
| PkrI | GCNGC | 2 cut(s) | 607, 754 |
| PleI | GAGTC | 2 cut(s) | 706, 715 |
| PpsI | GAGTC | 2 cut(s) | 706, 715 |
| Psp6I | CCWGG | 1 cut(s) | 1021 |
| PspGI | CCWGG | 1 cut(s) | 1021 |
| PspPI | GGNCC | 2 cut(s) | 737, 767 |
| PstI | CTGCAG | 1 cut(s) | 1129 |
| RsaI | GTAC | 3 cut(s) | 425, 799, 922 |
| RsaNI | GTAC | 3 cut(s) | 424, 798, 921 |
| RseI | CAYNNNNRTG | 1 cut(s) | 50 |
| SaqAI | TTAA | 2 cut(s) | 438, 552 |
| SatI | GCNGC | 2 cut(s) | 606, 753 |
| Sau3AI | GATC | 4 cut(s) | 334, 451, 1059, 1204 |
| Sau96I | GGNCC | 2 cut(s) | 737, 767 |
| SchI | GAGTC | 2 cut(s) | 707, 716 |
| ScrFI | CCNGG | 1 cut(s) | 1023 |
| SfaNI | GCATC | 2 cut(s) | 627, 1057 |
| SfcI | CTRYAG | 2 cut(s) | 9, 1125 |
| SinI | GGWCC | 2 cut(s) | 737, 767 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 50 |
| SmlI | CTYRAG | 2 cut(s) | 329, 1091 |
| SmoI | CTYRAG | 2 cut(s) | 329, 1091 |
| SphI | GCATGC | 1 cut(s) | 566 |
| SspMI | CTAG | 3 cut(s) | 354, 993, 1116 |
| StyD4I | CCNGG | 1 cut(s) | 1021 |
| TaaI | ACNGT | 4 cut(s) | 349, 920, 1104, 1149 |
| TaqI | TCGA | 5 cut(s) | 60, 109, 312, 337, 1131 |
| TfiI | GAWTC | 4 cut(s) | 404, 499, 611, 951 |
| Tru1I | TTAA | 2 cut(s) | 438, 552 |
| Tru9I | TTAA | 2 cut(s) | 438, 552 |
| TscAI | CASTG | 1 cut(s) | 262 |
| TseFI | GTSAC | 1 cut(s) | 812 |
| TseI | GCWGC | 2 cut(s) | 605, 752 |
| Tsp45I | GTSAC | 1 cut(s) | 812 |
| TspDTI | ATGAA | 3 cut(s) | 228, 501, 677 |
| TspGWI | ACGGA | 1 cut(s) | 759 |
| TspRI | CASTG | 1 cut(s) | 262 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 776 |
| VpaK11BI | GGWCC | 2 cut(s) | 737, 767 |
| XapI | RAATTY | 3 cut(s) | 128, 196, 1008 |
| XceI | RCATGY | 1 cut(s) | 566 |
| XmnI | GAANNNNTTC | 1 cut(s) | 778 |
| XspI | CTAG | 3 cut(s) | 354, 993, 1116 |