gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 78 - 208 | 3.4e-07 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AciI | CCGC | 1 cut(s) | 230 |
| AclWI | GGATC | 3 cut(s) | 389, 487, 500 |
| AcoI | YGGCCR | 1 cut(s) | 754 |
| AcsI | RAATTY | 3 cut(s) | 19, 81, 247 |
| AcuI | CTGAAG | 1 cut(s) | 327 |
| AcyI | GRCGYC | 1 cut(s) | 398 |
| AflIII | ACRYGT | 1 cut(s) | 537 |
| AgsI | TTSAA | 3 cut(s) | 798, 1035, 1255 |
| AjiI | CACGTC | 1 cut(s) | 752 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 826, 858 |
| Alw21I | GWGCWC | 1 cut(s) | 1022 |
| Alw26I | GTCTC | 2 cut(s) | 633, 700 |
| Alw44I | GTGCAC | 1 cut(s) | 1018 |
| AlwI | GGATC | 3 cut(s) | 389, 487, 500 |
| Ama87I | CYCGRG | 2 cut(s) | 623, 828 |
| AoxI | GGCC | 1 cut(s) | 754 |
| ApaLI | GTGCAC | 1 cut(s) | 1018 |
| ApeKI | GCWGC | 4 cut(s) | 676, 683, 915, 1042 |
| ApoI | RAATTY | 3 cut(s) | 19, 81, 247 |
| AspA2I | CCTAGG | 1 cut(s) | 274 |
| AspLEI | GCGC | 1 cut(s) | 663 |
| AspS9I | GGNCC | 4 cut(s) | 370, 426, 522, 854 |
| AsuHPI | GGTGA | 1 cut(s) | 88 |
| AvaI | CYCGRG | 2 cut(s) | 623, 828 |
| AvaII | GGWCC | 4 cut(s) | 370, 426, 522, 854 |
| AvrII | CCTAGG | 1 cut(s) | 274 |
| BaeGI | GKGCMC | 1 cut(s) | 1022 |
| BalI | TGGCCA | 1 cut(s) | 756 |
| BamHI | GGATCC | 1 cut(s) | 492 |
| BbsI | GAAGAC | 1 cut(s) | 1152 |
| Bbv12I | GWGCWC | 1 cut(s) | 1022 |
| BbvI | GCAGC | 4 cut(s) | 670, 688, 927, 1029 |
| BccI | CCATC | 4 cut(s) | 260, 361, 551, 871 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 1037, 1071 |
| BclI | TGATCA | 3 cut(s) | 361, 1120, 1231 |
| BcoDI | GTCTC | 2 cut(s) | 633, 700 |
| BfaI | CTAG | 3 cut(s) | 153, 275, 689 |
| BfmI | CTRYAG | 1 cut(s) | 414 |
| BisI | GCNGC | 5 cut(s) | 230, 677, 684, 916, 1043 |
| BlnI | CCTAGG | 1 cut(s) | 274 |
| BlsI | GCNGC | 5 cut(s) | 231, 678, 685, 917, 1044 |
| Bme18I | GGWCC | 4 cut(s) | 370, 426, 522, 854 |
| BmeT110I | CYCGRG | 2 cut(s) | 623, 828 |
| BmgBI | CACGTC | 1 cut(s) | 752 |
| BmgT120I | GGNCC | 4 cut(s) | 370, 426, 522, 854 |
| BmiI | GGNNCC | 2 cut(s) | 271, 494 |
| BmsI | GCATC | 1 cut(s) | 292 |
| BpiI | GAAGAC | 1 cut(s) | 1152 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 501, 533 |
| BpuEI | CTTGAG | 1 cut(s) | 1008 |
| Bsa29I | ATCGAT | 1 cut(s) | 300 |
| BsaHI | GRCGYC | 1 cut(s) | 398 |
| BsaJI | CCNNGG | 3 cut(s) | 274, 373, 1101 |
| BsaWI | WCCGGW | 1 cut(s) | 489 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 826, 856, 1012, 1042 |
| BseCI | ATCGAT | 1 cut(s) | 300 |
| BseDI | CCNNGG | 3 cut(s) | 274, 373, 1101 |
| BseGI | GGATG | 1 cut(s) | 859 |
| BseMII | CTCAG | 5 cut(s) | 491, 532, 645, 780, 1228 |
| BseRI | GAGGAG | 5 cut(s) | 15, 33, 36, 54, 688 |
| BseSI | GKGCMC | 1 cut(s) | 1022 |
| BseXI | GCAGC | 4 cut(s) | 670, 688, 927, 1029 |
| BshFI | GGCC | 1 cut(s) | 756 |
| BshVI | ATCGAT | 1 cut(s) | 300 |
| BsiHKAI | GWGCWC | 1 cut(s) | 1022 |
| BsiHKCI | CYCGRG | 2 cut(s) | 623, 828 |
| BsiSI | CCGG | 1 cut(s) | 490 |
| BslFI | GGGAC | 1 cut(s) | 110 |
| BsmAI | GTCTC | 2 cut(s) | 633, 700 |
| BsmFI | GGGAC | 1 cut(s) | 110 |
| BsnI | GGCC | 1 cut(s) | 756 |
| BsoBI | CYCGRG | 2 cut(s) | 623, 828 |
| Bsp1286I | GDGCHC | 1 cut(s) | 1022 |
| Bsp143I | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| BspACI | CCGC | 1 cut(s) | 230 |
| BspANI | GGCC | 1 cut(s) | 756 |
| BspCNI | CTCAG | 5 cut(s) | 490, 531, 646, 779, 1227 |
| BspDI | ATCGAT | 1 cut(s) | 300 |
| BspLI | GGNNCC | 2 cut(s) | 271, 494 |
| BspPI | GGATC | 3 cut(s) | 389, 487, 500 |
| BssECI | CCNNGG | 3 cut(s) | 274, 373, 1101 |
| BssMI | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| BssNI | GRCGYC | 1 cut(s) | 398 |
| BssT1I | CCWWGG | 3 cut(s) | 274, 373, 1101 |
| Bst4CI | ACNGT | 3 cut(s) | 163, 418, 1052 |
| Bst6I | CTCTTC | 2 cut(s) | 13, 72 |
| BstACI | GRCGYC | 1 cut(s) | 398 |
| BstC8I | GCNNGC | 3 cut(s) | 681, 1008, 1220 |
| BstDEI | CTNAG | 7 cut(s) | 477, 518, 654, 766, 987, 1149, 1214 |
| BstF5I | GGATG | 1 cut(s) | 859 |
| BstHHI | GCGC | 1 cut(s) | 663 |
| BstKTI | GATC | 8 cut(s) | 364, 384, 495, 622, 673, 1123, 1211, 1234 |
| BstMAI | GTCTC | 2 cut(s) | 633, 700 |
| BstMBI | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 419, 1007 |
| BstNSI | RCATGY | 1 cut(s) | 541 |
| BstSFI | CTRYAG | 1 cut(s) | 414 |
| BstSLI | GKGCMC | 1 cut(s) | 1022 |
| BstV1I | GCAGC | 4 cut(s) | 670, 688, 927, 1029 |
| BstV2I | GAAGAC | 1 cut(s) | 1152 |
| BstX2I | RGATCY | 1 cut(s) | 492 |
| BstYI | RGATCY | 1 cut(s) | 492 |
| Bsu15I | ATCGAT | 1 cut(s) | 300 |
| BsuRI | GGCC | 1 cut(s) | 756 |
| BsuTUI | ATCGAT | 1 cut(s) | 300 |
| BtrI | CACGTC | 1 cut(s) | 752 |
| BtsCI | GGATG | 1 cut(s) | 859 |
| BtsI | GCAGTG | 1 cut(s) | 930 |
| BtsIMutI | CAGTG | 3 cut(s) | 485, 930, 1057 |
| Cac8I | GCNNGC | 3 cut(s) | 681, 1008, 1220 |
| CfoI | GCGC | 1 cut(s) | 663 |
| Cfr13I | GGNCC | 4 cut(s) | 370, 426, 522, 854 |
| ClaI | ATCGAT | 1 cut(s) | 300 |
| CseI | GACGC | 1 cut(s) | 406 |
| CviAII | CATG | 5 cut(s) | 526, 538, 664, 719, 1124 |
| DdeI | CTNAG | 7 cut(s) | 477, 518, 654, 766, 987, 1149, 1214 |
| DpnI | GATC | 8 cut(s) | 363, 383, 494, 621, 672, 1122, 1210, 1233 |
| DpnII | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| EaeI | YGGCCR | 1 cut(s) | 754 |
| Eam1104I | CTCTTC | 2 cut(s) | 13, 72 |
| EarI | CTCTTC | 2 cut(s) | 13, 72 |
| Eco130I | CCWWGG | 3 cut(s) | 274, 373, 1101 |
| Eco32I | GATATC | 1 cut(s) | 1141 |
| Eco47I | GGWCC | 4 cut(s) | 370, 426, 522, 854 |
| Eco57I | CTGAAG | 1 cut(s) | 327 |
| Eco88I | CYCGRG | 2 cut(s) | 623, 828 |
| EcoRV | GATATC | 1 cut(s) | 1141 |
| EcoT14I | CCWWGG | 3 cut(s) | 274, 373, 1101 |
| ErhI | CCWWGG | 3 cut(s) | 274, 373, 1101 |
| FaeI | CATG | 5 cut(s) | 529, 541, 667, 722, 1127 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 627, 659 |
| FaqI | GGGAC | 1 cut(s) | 110 |
| FatI | CATG | 5 cut(s) | 525, 537, 663, 718, 1123 |
| FbaI | TGATCA | 3 cut(s) | 361, 1120, 1231 |
| Fnu4HI | GCNGC | 5 cut(s) | 230, 677, 684, 916, 1043 |
| FokI | GGATG | 1 cut(s) | 846 |
| Fsp4HI | GCNGC | 5 cut(s) | 230, 677, 684, 916, 1043 |
| FspBI | CTAG | 3 cut(s) | 153, 275, 689 |
| GlaI | GCGC | 1 cut(s) | 662 |
| GluI | GCNGC | 5 cut(s) | 230, 677, 684, 916, 1043 |
| HaeIII | GGCC | 1 cut(s) | 756 |
| HapII | CCGG | 1 cut(s) | 490 |
| HgaI | GACGC | 1 cut(s) | 406 |
| HhaI | GCGC | 1 cut(s) | 663 |
| Hin1I | GRCGYC | 1 cut(s) | 398 |
| Hin1II | CATG | 5 cut(s) | 529, 541, 667, 722, 1127 |
| Hin6I | GCGC | 1 cut(s) | 661 |
| HinP1I | GCGC | 1 cut(s) | 661 |
| HincII | GTYRAC | 1 cut(s) | 568 |
| HindII | GTYRAC | 1 cut(s) | 568 |
| HindIII | AAGCTT | 2 cut(s) | 871, 1190 |
| HinfI | GANTC | 6 cut(s) | 5, 59, 139, 241, 626, 1286 |
| HpaI | GTTAAC | 1 cut(s) | 568 |
| HpaII | CCGG | 1 cut(s) | 490 |
| HphI | GGTGA | 1 cut(s) | 88 |
| Hpy166II | GTNNAC | 3 cut(s) | 429, 568, 1020 |
| Hpy188I | TCNGA | 4 cut(s) | 366, 550, 909, 1078 |
| Hpy188III | TCNNGA | 6 cut(s) | 143, 520, 557, 623, 632, 938 |
| Hpy8I | GTNNAC | 3 cut(s) | 429, 568, 1020 |
| HpyAV | CCTTC | 5 cut(s) | 302, 448, 653, 969, 1041 |
| HpyCH4III | ACNGT | 3 cut(s) | 163, 418, 1052 |
| HpyCH4IV | ACGT | 2 cut(s) | 751, 1168 |
| HpyCH4V | TGCA | 8 cut(s) | 107, 119, 499, 596, 915, 1020, 1093, 1222 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 419, 1007 |
| HpyF3I | CTNAG | 7 cut(s) | 477, 518, 654, 766, 987, 1149, 1214 |
| HpySE526I | ACGT | 2 cut(s) | 751, 1168 |
| Hsp92I | GRCGYC | 1 cut(s) | 398 |
| Hsp92II | CATG | 5 cut(s) | 529, 541, 667, 722, 1127 |
| HspAI | GCGC | 1 cut(s) | 661 |
| Ksp22I | TGATCA | 3 cut(s) | 361, 1120, 1231 |
| KspAI | GTTAAC | 1 cut(s) | 568 |
| Kzo9I | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| LmnI | GCTCC | 1 cut(s) | 1033 |
| Lsp1109I | GCAGC | 4 cut(s) | 670, 688, 927, 1029 |
| LweI | GCATC | 1 cut(s) | 292 |
| MaeI | CTAG | 3 cut(s) | 153, 275, 689 |
| MaeII | ACGT | 2 cut(s) | 751, 1168 |
| MaeIII | GTNAC | 4 cut(s) | 533, 611, 926, 1243 |
| MalI | GATC | 8 cut(s) | 363, 383, 494, 621, 672, 1122, 1210, 1233 |
| MboI | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| MboII | GAAGA | 6 cut(s) | 3, 59, 754, 1135, 1152, 1193 |
| MfeI | CAATTG | 1 cut(s) | 949 |
| MflI | RGATCY | 1 cut(s) | 492 |
| MhlI | GDGCHC | 1 cut(s) | 1022 |
| MlsI | TGGCCA | 1 cut(s) | 756 |
| MluCI | AATT | 7 cut(s) | 19, 81, 199, 247, 314, 949, 1250 |
| MluNI | TGGCCA | 1 cut(s) | 756 |
| MlyI | GAGTC | 3 cut(s) | 250, 635, 1280 |
| MmeI | TCCRAC | 3 cut(s) | 192, 573, 1108 |
| Mox20I | TGGCCA | 1 cut(s) | 756 |
| MscI | TGGCCA | 1 cut(s) | 756 |
| MseI | TTAA | 1 cut(s) | 567 |
| Msp20I | TGGCCA | 1 cut(s) | 756 |
| MspA1I | CMGCKG | 1 cut(s) | 653 |
| MspI | CCGG | 1 cut(s) | 490 |
| MunI | CAATTG | 1 cut(s) | 949 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 419, 1007 |
| NdeII | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| NlaIII | CATG | 5 cut(s) | 529, 541, 667, 722, 1127 |
| NlaIV | GGNNCC | 2 cut(s) | 271, 494 |
| NmuCI | GTSAC | 2 cut(s) | 611, 926 |
| NspI | RCATGY | 1 cut(s) | 541 |
| PaeR7I | CTCGAG | 2 cut(s) | 623, 828 |
| PciI | ACATGT | 1 cut(s) | 537 |
| PfeI | GAWTC | 2 cut(s) | 59, 139 |
| PkrI | GCNGC | 5 cut(s) | 231, 678, 685, 917, 1044 |
| PleI | GAGTC | 3 cut(s) | 249, 634, 1280 |
| PpsI | GAGTC | 3 cut(s) | 249, 634, 1280 |
| PscI | ACATGT | 1 cut(s) | 537 |
| PspN4I | GGNNCC | 2 cut(s) | 271, 494 |
| PspPI | GGNCC | 4 cut(s) | 370, 426, 522, 854 |
| PspXI | VCTCGAGB | 1 cut(s) | 828 |
| PsuI | RGATCY | 1 cut(s) | 492 |
| PvuII | CAGCTG | 1 cut(s) | 653 |
| SaqAI | TTAA | 1 cut(s) | 567 |
| SatI | GCNGC | 5 cut(s) | 230, 677, 684, 916, 1043 |
| Sau3AI | GATC | 8 cut(s) | 361, 381, 492, 619, 670, 1120, 1208, 1231 |
| Sau96I | GGNCC | 4 cut(s) | 370, 426, 522, 854 |
| SchI | GAGTC | 3 cut(s) | 250, 635, 1280 |
| SduI | GDGCHC | 1 cut(s) | 1022 |
| SfaNI | GCATC | 1 cut(s) | 292 |
| SfcI | CTRYAG | 1 cut(s) | 414 |
| Sfr274I | CTCGAG | 2 cut(s) | 623, 828 |
| SinI | GGWCC | 4 cut(s) | 370, 426, 522, 854 |
| SlaI | CTCGAG | 2 cut(s) | 623, 828 |
| SmlI | CTYRAG | 3 cut(s) | 623, 828, 1023 |
| SmoI | CTYRAG | 3 cut(s) | 623, 828, 1023 |
| Sse9I | AATT | 7 cut(s) | 19, 81, 199, 247, 314, 949, 1250 |
| SsiI | CCGC | 1 cut(s) | 230 |
| SspMI | CTAG | 3 cut(s) | 153, 275, 689 |
| StyI | CCWWGG | 3 cut(s) | 274, 373, 1101 |
| TaaI | ACNGT | 3 cut(s) | 163, 418, 1052 |
| TaiI | ACGT | 2 cut(s) | 754, 1171 |
| TaqI | TCGA | 7 cut(s) | 244, 300, 624, 739, 784, 829, 1047 |
| TasI | AATT | 7 cut(s) | 19, 81, 199, 247, 314, 949, 1250 |
| TauI | GCSGC | 1 cut(s) | 232 |
| TfiI | GAWTC | 2 cut(s) | 59, 139 |
| Tru1I | TTAA | 1 cut(s) | 567 |
| Tru9I | TTAA | 1 cut(s) | 567 |
| TscAI | CASTG | 3 cut(s) | 485, 937, 1057 |
| TseFI | GTSAC | 2 cut(s) | 611, 926 |
| TseI | GCWGC | 4 cut(s) | 676, 683, 915, 1042 |
| Tsp45I | GTSAC | 2 cut(s) | 611, 926 |
| TspDTI | ATGAA | 6 cut(s) | 339, 680, 707, 971, 1152, 1163 |
| TspGWI | ACGGA | 1 cut(s) | 522 |
| TspRI | CASTG | 3 cut(s) | 485, 937, 1057 |
| VneI | GTGCAC | 1 cut(s) | 1018 |
| VpaK11BI | GGWCC | 4 cut(s) | 370, 426, 522, 854 |
| XapI | RAATTY | 3 cut(s) | 19, 81, 247 |
| XceI | RCATGY | 1 cut(s) | 541 |
| XhoI | CTCGAG | 2 cut(s) | 623, 828 |
| XmaJI | CCTAGG | 1 cut(s) | 274 |
| XspI | CTAG | 3 cut(s) | 153, 275, 689 |