gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 60 - 224 | 6.2e-21 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccB1I | GGYRCC | 2 cut(s) | 1078, 1187 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 1244 |
| AccBSI | CCGCTC | 1 cut(s) | 391 |
| AccII | CGCG | 1 cut(s) | 1309 |
| AciI | CCGC | 7 cut(s) | 391, 519, 522, 1021, 1185, 1296, 1309 |
| AclWI | GGATC | 2 cut(s) | 617, 1288 |
| AcoI | YGGCCR | 1 cut(s) | 1310 |
| AcsI | RAATTY | 1 cut(s) | 303 |
| AcuI | CTGAAG | 3 cut(s) | 170, 793, 1161 |
| AfaI | GTAC | 4 cut(s) | 18, 203, 295, 615 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 366, 1006, 1244 |
| AgsI | TTSAA | 4 cut(s) | 433, 455, 674, 782 |
| AluBI | AGCT | 7 cut(s) | 136, 643, 849, 979, 1100, 1150, 1164 |
| AluI | AGCT | 7 cut(s) | 136, 643, 849, 979, 1100, 1150, 1164 |
| Alw21I | GWGCWC | 3 cut(s) | 532, 924, 1096 |
| Alw26I | GTCTC | 3 cut(s) | 375, 578, 1052 |
| AlwI | GGATC | 2 cut(s) | 617, 1288 |
| AoxI | GGCC | 3 cut(s) | 758, 1042, 1310 |
| ApeKI | GCWGC | 2 cut(s) | 972, 1067 |
| ApoI | RAATTY | 1 cut(s) | 303 |
| AspS9I | GGNCC | 3 cut(s) | 759, 932, 1247 |
| AsuC2I | CCSGG | 1 cut(s) | 1007 |
| AsuHPI | GGTGA | 3 cut(s) | 54, 835, 1286 |
| AsuII | TTCGAA | 1 cut(s) | 1286 |
| AvaII | GGWCC | 2 cut(s) | 932, 1247 |
| BaeGI | GKGCMC | 1 cut(s) | 1006 |
| BaeI | ACNNNNGTAYC | 1 cut(s) | 33 |
| BanI | GGYRCC | 2 cut(s) | 1078, 1187 |
| Bbv12I | GWGCWC | 3 cut(s) | 532, 924, 1096 |
| BbvI | GCAGC | 2 cut(s) | 959, 1079 |
| BccI | CCATC | 4 cut(s) | 29, 479, 1069, 1271 |
| BceAI | ACGGC | 3 cut(s) | 220, 1029, 1297 |
| BcnI | CCSGG | 1 cut(s) | 1007 |
| BcoDI | GTCTC | 3 cut(s) | 375, 578, 1052 |
| BfmI | CTRYAG | 2 cut(s) | 485, 1206 |
| BglII | AGATCT | 2 cut(s) | 413, 1210 |
| BisI | GCNGC | 6 cut(s) | 392, 519, 522, 973, 1068, 1310 |
| BlsI | GCNGC | 6 cut(s) | 393, 520, 523, 974, 1069, 1311 |
| Bme1390I | CCNGG | 1 cut(s) | 1007 |
| Bme18I | GGWCC | 2 cut(s) | 932, 1247 |
| BmgT120I | GGNCC | 3 cut(s) | 759, 932, 1247 |
| BmiI | GGNNCC | 5 cut(s) | 6, 94, 1080, 1189, 1249 |
| BmrFI | CCNGG | 1 cut(s) | 1007 |
| BmrI | ACTGGG | 1 cut(s) | 232 |
| BmsI | GCATC | 3 cut(s) | 580, 1108, 1236 |
| BmuI | ACTGGG | 1 cut(s) | 232 |
| BpmI | CTGGAG | 2 cut(s) | 546, 692 |
| Bpu10I | CCTNAGC | 1 cut(s) | 918 |
| Bpu14I | TTCGAA | 1 cut(s) | 1286 |
| BpuEI | CTTGAG | 4 cut(s) | 116, 407, 714, 855 |
| BpuMI | CCSGG | 1 cut(s) | 1007 |
| BsaBI | GATNNNNATC | 1 cut(s) | 258 |
| BsaI | GGTCTC | 2 cut(s) | 375, 578 |
| BsaJI | CCNNGG | 1 cut(s) | 1005 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 366, 1006, 1244 |
| Bse1I | ACTGG | 1 cut(s) | 238 |
| Bse3DI | GCAATG | 1 cut(s) | 1077 |
| Bse8I | GATNNNNATC | 1 cut(s) | 258 |
| BseDI | CCNNGG | 1 cut(s) | 1005 |
| BseGI | GGATG | 4 cut(s) | 123, 220, 937, 1227 |
| BseJI | GATNNNNATC | 1 cut(s) | 258 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 366, 1006, 1244 |
| BseMI | GCAATG | 1 cut(s) | 1077 |
| BseMII | CTCAG | 3 cut(s) | 318, 909, 1237 |
| BseNI | ACTGG | 1 cut(s) | 238 |
| BseRI | GAGGAG | 3 cut(s) | 85, 882, 957 |
| BseSI | GKGCMC | 1 cut(s) | 1006 |
| BseX3I | CGGCCG | 1 cut(s) | 1310 |
| BseXI | GCAGC | 2 cut(s) | 959, 1079 |
| Bsh1236I | CGCG | 1 cut(s) | 1309 |
| Bsh1285I | CGRYCG | 1 cut(s) | 1313 |
| BshFI | GGCC | 3 cut(s) | 760, 1044, 1312 |
| BshNI | GGYRCC | 2 cut(s) | 1078, 1187 |
| BsiEI | CGRYCG | 1 cut(s) | 1313 |
| BsiHKAI | GWGCWC | 3 cut(s) | 532, 924, 1096 |
| BsiSI | CCGG | 1 cut(s) | 1007 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 366, 1006, 1244 |
| BsmAI | GTCTC | 3 cut(s) | 375, 578, 1052 |
| BsmBI | CGTCTC | 1 cut(s) | 1052 |
| BsnI | GGCC | 3 cut(s) | 760, 1044, 1312 |
| Bso31I | GGTCTC | 2 cut(s) | 375, 578 |
| Bsp119I | TTCGAA | 1 cut(s) | 1286 |
| Bsp1286I | GDGCHC | 4 cut(s) | 532, 924, 1006, 1096 |
| Bsp143I | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| BspACI | CCGC | 7 cut(s) | 391, 519, 522, 1021, 1185, 1296, 1309 |
| BspANI | GGCC | 3 cut(s) | 760, 1044, 1312 |
| BspCNI | CTCAG | 3 cut(s) | 319, 910, 1236 |
| BspFNI | CGCG | 1 cut(s) | 1309 |
| BspLI | GGNNCC | 5 cut(s) | 6, 94, 1080, 1189, 1249 |
| BspMAI | CTGCAG | 1 cut(s) | 1210 |
| BspPI | GGATC | 2 cut(s) | 617, 1288 |
| BspT104I | TTCGAA | 1 cut(s) | 1286 |
| BspT107I | GGYRCC | 2 cut(s) | 1078, 1187 |
| BspTNI | GGTCTC | 2 cut(s) | 375, 578 |
| BsrBI | CCGCTC | 1 cut(s) | 391 |
| BsrDI | GCAATG | 1 cut(s) | 1077 |
| BsrI | ACTGG | 1 cut(s) | 238 |
| BssECI | CCNNGG | 1 cut(s) | 1005 |
| BssMI | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| Bst4CI | ACNGT | 7 cut(s) | 349, 502, 618, 776, 1001, 1258, 1274 |
| Bst6I | CTCTTC | 2 cut(s) | 45, 570 |
| BstBI | TTCGAA | 1 cut(s) | 1286 |
| BstC8I | GCNNGC | 1 cut(s) | 977 |
| BstDEI | CTNAG | 3 cut(s) | 327, 918, 1223 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 364 |
| BstF5I | GGATG | 4 cut(s) | 123, 220, 937, 1227 |
| BstFNI | CGCG | 1 cut(s) | 1309 |
| BstKTI | GATC | 8 cut(s) | 256, 292, 416, 625, 1115, 1147, 1213, 1283 |
| BstMAI | GTCTC | 3 cut(s) | 375, 578, 1052 |
| BstMBI | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| BstMCI | CGRYCG | 1 cut(s) | 1313 |
| BstMWI | GCNNNNNNNGC | 6 cut(s) | 518, 527, 740, 846, 1020, 1076 |
| BstSCI | CCNGG | 1 cut(s) | 1005 |
| BstSFI | CTRYAG | 2 cut(s) | 485, 1206 |
| BstSLI | GKGCMC | 1 cut(s) | 1006 |
| BstUI | CGCG | 1 cut(s) | 1309 |
| BstV1I | GCAGC | 2 cut(s) | 959, 1079 |
| BstX2I | RGATCY | 3 cut(s) | 413, 1210, 1280 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 457, 983 |
| BstYI | RGATCY | 3 cut(s) | 413, 1210, 1280 |
| BstZI | CGGCCG | 1 cut(s) | 1310 |
| BsuRI | GGCC | 3 cut(s) | 760, 1044, 1312 |
| BtsCI | GGATG | 4 cut(s) | 123, 220, 937, 1227 |
| BtsI | GCAGTG | 1 cut(s) | 1203 |
| BtsIMutI | CAGTG | 5 cut(s) | 9, 249, 474, 576, 1203 |
| Cac8I | GCNNGC | 1 cut(s) | 977 |
| Cfr13I | GGNCC | 3 cut(s) | 759, 932, 1247 |
| CseI | GACGC | 1 cut(s) | 518 |
| Csp6I | GTAC | 4 cut(s) | 17, 202, 294, 614 |
| CviAII | CATG | 5 cut(s) | 110, 208, 419, 569, 647 |
| CviQI | GTAC | 4 cut(s) | 17, 202, 294, 614 |
| DdeI | CTNAG | 3 cut(s) | 327, 918, 1223 |
| DpnI | GATC | 8 cut(s) | 255, 291, 415, 624, 1114, 1146, 1212, 1282 |
| DpnII | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| EaeI | YGGCCR | 1 cut(s) | 1310 |
| EagI | CGGCCG | 1 cut(s) | 1310 |
| Eam1104I | CTCTTC | 2 cut(s) | 45, 570 |
| EarI | CTCTTC | 2 cut(s) | 45, 570 |
| EclXI | CGGCCG | 1 cut(s) | 1310 |
| Eco31I | GGTCTC | 2 cut(s) | 375, 578 |
| Eco47I | GGWCC | 2 cut(s) | 932, 1247 |
| Eco52I | CGGCCG | 1 cut(s) | 1310 |
| Eco57I | CTGAAG | 3 cut(s) | 170, 793, 1161 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 364 |
| Esp3I | CGTCTC | 1 cut(s) | 1052 |
| FaeI | CATG | 5 cut(s) | 113, 211, 422, 572, 650 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 1134, 1166 |
| FatI | CATG | 5 cut(s) | 109, 207, 418, 568, 646 |
| Fnu4HI | GCNGC | 6 cut(s) | 392, 519, 522, 973, 1068, 1310 |
| FokI | GGATG | 4 cut(s) | 110, 227, 924, 1214 |
| Fsp4HI | GCNGC | 6 cut(s) | 392, 519, 522, 973, 1068, 1310 |
| GluI | GCNGC | 6 cut(s) | 392, 519, 522, 973, 1068, 1310 |
| GsuI | CTGGAG | 2 cut(s) | 546, 692 |
| HaeIII | GGCC | 3 cut(s) | 760, 1044, 1312 |
| HapII | CCGG | 1 cut(s) | 1007 |
| HgaI | GACGC | 1 cut(s) | 518 |
| Hin1II | CATG | 5 cut(s) | 113, 211, 422, 572, 650 |
| HinfI | GANTC | 5 cut(s) | 218, 329, 442, 987, 1154 |
| HpaII | CCGG | 1 cut(s) | 1007 |
| HphI | GGTGA | 3 cut(s) | 54, 835, 1286 |
| Hpy166II | GTNNAC | 2 cut(s) | 614, 986 |
| Hpy188I | TCNGA | 7 cut(s) | 189, 223, 328, 447, 622, 812, 1117 |
| Hpy188III | TCNNGA | 7 cut(s) | 283, 386, 536, 665, 917, 1139, 1178 |
| Hpy8I | GTNNAC | 2 cut(s) | 614, 986 |
| Hpy99I | CGWCG | 1 cut(s) | 441 |
| HpyAV | CCTTC | 4 cut(s) | 92, 157, 604, 1271 |
| HpyCH4III | ACNGT | 7 cut(s) | 349, 502, 618, 776, 1001, 1258, 1274 |
| HpyCH4V | TGCA | 4 cut(s) | 365, 680, 1067, 1208 |
| HpyF10VI | GCNNNNNNNGC | 6 cut(s) | 518, 527, 740, 846, 1020, 1076 |
| HpyF3I | CTNAG | 3 cut(s) | 327, 918, 1223 |
| Hsp92II | CATG | 5 cut(s) | 113, 211, 422, 572, 650 |
| Kzo9I | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| LmnI | GCTCC | 3 cut(s) | 10, 98, 527 |
| Lsp1109I | GCAGC | 2 cut(s) | 959, 1079 |
| LweI | GCATC | 3 cut(s) | 580, 1108, 1236 |
| MaeIII | GTNAC | 5 cut(s) | 116, 628, 818, 1258, 1268 |
| MalI | GATC | 8 cut(s) | 255, 291, 415, 624, 1114, 1146, 1212, 1282 |
| MbiI | CCGCTC | 1 cut(s) | 391 |
| MboI | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| MboII | GAAGA | 5 cut(s) | 32, 47, 557, 1154, 1275 |
| MfeI | CAATTG | 1 cut(s) | 428 |
| MflI | RGATCY | 3 cut(s) | 413, 1210, 1280 |
| MhlI | GDGCHC | 4 cut(s) | 532, 924, 1006, 1096 |
| MluCI | AATT | 6 cut(s) | 69, 303, 312, 428, 675, 955 |
| MlyI | GAGTC | 2 cut(s) | 338, 981 |
| MseI | TTAA | 2 cut(s) | 659, 1215 |
| MslI | CAYNNNNRTG | 1 cut(s) | 455 |
| MspA1I | CMGCKG | 2 cut(s) | 524, 1185 |
| MspI | CCGG | 1 cut(s) | 1007 |
| MspR9I | CCNGG | 1 cut(s) | 1007 |
| MunI | CAATTG | 1 cut(s) | 428 |
| MvnI | CGCG | 1 cut(s) | 1309 |
| MwoI | GCNNNNNNNGC | 6 cut(s) | 518, 527, 740, 846, 1020, 1076 |
| NciI | CCSGG | 1 cut(s) | 1007 |
| NdeII | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| NlaIII | CATG | 5 cut(s) | 113, 211, 422, 572, 650 |
| NlaIV | GGNNCC | 5 cut(s) | 6, 94, 1080, 1189, 1249 |
| NmuCI | GTSAC | 1 cut(s) | 628 |
| NspV | TTCGAA | 1 cut(s) | 1286 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 298 |
| PfeI | GAWTC | 3 cut(s) | 218, 442, 1154 |
| PflFI | GACNNNGTC | 1 cut(s) | 551 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 1244 |
| PkrI | GCNGC | 6 cut(s) | 393, 520, 523, 974, 1069, 1311 |
| PleI | GAGTC | 2 cut(s) | 337, 981 |
| PpsI | GAGTC | 2 cut(s) | 337, 981 |
| PspN4I | GGNNCC | 5 cut(s) | 6, 94, 1080, 1189, 1249 |
| PspPI | GGNCC | 3 cut(s) | 759, 932, 1247 |
| PstI | CTGCAG | 1 cut(s) | 1210 |
| PsuI | RGATCY | 3 cut(s) | 413, 1210, 1280 |
| PsyI | GACNNNGTC | 1 cut(s) | 551 |
| RsaI | GTAC | 4 cut(s) | 18, 203, 295, 615 |
| RsaNI | GTAC | 4 cut(s) | 17, 202, 294, 614 |
| RseI | CAYNNNNRTG | 1 cut(s) | 455 |
| SaqAI | TTAA | 2 cut(s) | 659, 1215 |
| SatI | GCNGC | 6 cut(s) | 392, 519, 522, 973, 1068, 1310 |
| Sau3AI | GATC | 8 cut(s) | 253, 289, 413, 622, 1112, 1144, 1210, 1280 |
| Sau96I | GGNCC | 3 cut(s) | 759, 932, 1247 |
| SchI | GAGTC | 2 cut(s) | 338, 981 |
| ScrFI | CCNGG | 1 cut(s) | 1007 |
| SduI | GDGCHC | 4 cut(s) | 532, 924, 1006, 1096 |
| SfaNI | GCATC | 3 cut(s) | 580, 1108, 1236 |
| SfcI | CTRYAG | 2 cut(s) | 485, 1206 |
| SfuI | TTCGAA | 1 cut(s) | 1286 |
| SinI | GGWCC | 2 cut(s) | 932, 1247 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 455 |
| SmlI | CTYRAG | 4 cut(s) | 131, 386, 729, 870 |
| SmoI | CTYRAG | 4 cut(s) | 131, 386, 729, 870 |
| Sse9I | AATT | 6 cut(s) | 69, 303, 312, 428, 675, 955 |
| SsiI | CCGC | 7 cut(s) | 391, 519, 522, 1021, 1185, 1296, 1309 |
| StyD4I | CCNGG | 1 cut(s) | 1005 |
| TaaI | ACNGT | 7 cut(s) | 349, 502, 618, 776, 1001, 1258, 1274 |
| TaqI | TCGA | 2 cut(s) | 301, 1286 |
| TasI | AATT | 6 cut(s) | 69, 303, 312, 428, 675, 955 |
| TauI | GCSGC | 4 cut(s) | 394, 521, 524, 1312 |
| TfiI | GAWTC | 3 cut(s) | 218, 442, 1154 |
| Tru1I | TTAA | 2 cut(s) | 659, 1215 |
| Tru9I | TTAA | 2 cut(s) | 659, 1215 |
| TscAI | CASTG | 5 cut(s) | 16, 256, 481, 583, 1210 |
| TseFI | GTSAC | 1 cut(s) | 628 |
| TseI | GCWGC | 2 cut(s) | 972, 1067 |
| Tsp45I | GTSAC | 1 cut(s) | 628 |
| TspDTI | ATGAA | 7 cut(s) | 112, 231, 232, 557, 635, 741, 1146 |
| TspGWI | ACGGA | 2 cut(s) | 454, 950 |
| TspRI | CASTG | 5 cut(s) | 16, 256, 481, 583, 1210 |
| Tth111I | GACNNNGTC | 1 cut(s) | 551 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 1244 |
| VpaK11BI | GGWCC | 2 cut(s) | 932, 1247 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 364 |
| XapI | RAATTY | 1 cut(s) | 303 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 566 |