gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 14 - 127 | 2e-13 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 893 |
| Acc36I | ACCTGC | 3 cut(s) | 583, 660, 893 |
| AccB1I | GGYRCC | 1 cut(s) | 1058 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 632 |
| AccI | GTMKAC | 1 cut(s) | 746 |
| AciI | CCGC | 1 cut(s) | 82 |
| AclWI | GGATC | 1 cut(s) | 617 |
| AcuI | CTGAAG | 2 cut(s) | 104, 122 |
| AfaI | GTAC | 2 cut(s) | 787, 1164 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 632 |
| AflII | CTTAAG | 2 cut(s) | 86, 125 |
| AgsI | TTSAA | 2 cut(s) | 676, 1096 |
| AhlI | ACTAGT | 1 cut(s) | 527 |
| AjnI | CCWGG | 2 cut(s) | 830, 973 |
| AluBI | AGCT | 6 cut(s) | 29, 98, 124, 275, 287, 420 |
| AluI | AGCT | 6 cut(s) | 29, 98, 124, 275, 287, 420 |
| Alw26I | GTCTC | 3 cut(s) | 164, 206, 536 |
| AlwI | GGATC | 1 cut(s) | 617 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 837 |
| AoxI | GGCC | 1 cut(s) | 828 |
| ApeKI | GCWGC | 5 cut(s) | 95, 284, 356, 557, 1007 |
| ArsI | GACNNNNNNTTYG | 1 cut(s) | 36 |
| AspS9I | GGNCC | 3 cut(s) | 828, 834, 992 |
| AsuHPI | GGTGA | 3 cut(s) | 429, 435, 531 |
| AvaII | GGWCC | 2 cut(s) | 834, 992 |
| BanI | GGYRCC | 1 cut(s) | 1058 |
| BanII | GRGCYC | 1 cut(s) | 310 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 40, 72 |
| BbvI | GCAGC | 5 cut(s) | 107, 296, 343, 569, 1019 |
| BccI | CCATC | 2 cut(s) | 448, 520 |
| BciT130I | CCWGG | 2 cut(s) | 832, 975 |
| BciVI | GTATCC | 1 cut(s) | 867 |
| BclI | TGATCA | 1 cut(s) | 300 |
| BcoDI | GTCTC | 3 cut(s) | 164, 206, 536 |
| BcuI | ACTAGT | 1 cut(s) | 527 |
| BfaI | CTAG | 2 cut(s) | 528, 639 |
| BfmI | CTRYAG | 4 cut(s) | 24, 576, 838, 922 |
| BfrI | CTTAAG | 2 cut(s) | 86, 125 |
| BfuAI | ACCTGC | 3 cut(s) | 583, 660, 893 |
| BfuI | GTATCC | 1 cut(s) | 867 |
| BisI | GCNGC | 5 cut(s) | 96, 285, 357, 558, 1008 |
| BlsI | GCNGC | 5 cut(s) | 97, 286, 358, 559, 1009 |
| Bme1390I | CCNGG | 2 cut(s) | 832, 975 |
| Bme18I | GGWCC | 2 cut(s) | 834, 992 |
| BmgT120I | GGNCC | 3 cut(s) | 828, 834, 992 |
| BmiI | GGNNCC | 3 cut(s) | 522, 829, 1060 |
| BmrFI | CCNGG | 2 cut(s) | 832, 975 |
| BmsI | GCATC | 2 cut(s) | 193, 941 |
| BpuEI | CTTGAG | 3 cut(s) | 37, 335, 877 |
| BsaI | GGTCTC | 1 cut(s) | 164 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 772, 802 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 632 |
| Bse1I | ACTGG | 2 cut(s) | 787, 1077 |
| Bse3DI | GCAATG | 2 cut(s) | 411, 1017 |
| BseBI | CCWGG | 2 cut(s) | 832, 975 |
| BseGI | GGATG | 4 cut(s) | 208, 238, 424, 1028 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 632 |
| BseMI | GCAATG | 2 cut(s) | 411, 1017 |
| BseMII | CTCAG | 7 cut(s) | 74, 267, 323, 530, 1049, 1134, 1164 |
| BseNI | ACTGG | 2 cut(s) | 787, 1077 |
| BseRI | GAGGAG | 1 cut(s) | 780 |
| BseXI | GCAGC | 5 cut(s) | 107, 296, 343, 569, 1019 |
| BseYI | CCCAGC | 1 cut(s) | 1148 |
| BshFI | GGCC | 1 cut(s) | 830 |
| BshNI | GGYRCC | 1 cut(s) | 1058 |
| BslFI | GGGAC | 1 cut(s) | 379 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 632 |
| BsmAI | GTCTC | 3 cut(s) | 164, 206, 536 |
| BsmFI | GGGAC | 1 cut(s) | 379 |
| BsmI | GAATGC | 1 cut(s) | 644 |
| BsnI | GGCC | 1 cut(s) | 830 |
| Bso31I | GGTCTC | 1 cut(s) | 164 |
| Bsp1286I | GDGCHC | 1 cut(s) | 310 |
| Bsp1407I | TGTACA | 1 cut(s) | 1162 |
| Bsp143I | GATC | 3 cut(s) | 53, 300, 622 |
| BspACI | CCGC | 1 cut(s) | 82 |
| BspANI | GGCC | 1 cut(s) | 830 |
| BspCNI | CTCAG | 7 cut(s) | 73, 268, 322, 529, 1048, 1133, 1165 |
| BspLI | GGNNCC | 3 cut(s) | 522, 829, 1060 |
| BspMAI | CTGCAG | 2 cut(s) | 580, 926 |
| BspMI | ACCTGC | 3 cut(s) | 583, 660, 893 |
| BspPI | GGATC | 1 cut(s) | 617 |
| BspT107I | GGYRCC | 1 cut(s) | 1058 |
| BspTI | CTTAAG | 2 cut(s) | 86, 125 |
| BspTNI | GGTCTC | 1 cut(s) | 164 |
| BsrDI | GCAATG | 2 cut(s) | 411, 1017 |
| BsrGI | TGTACA | 1 cut(s) | 1162 |
| BsrI | ACTGG | 2 cut(s) | 787, 1077 |
| BssMI | GATC | 3 cut(s) | 53, 300, 622 |
| BssNAI | GTATAC | 1 cut(s) | 747 |
| Bst1107I | GTATAC | 1 cut(s) | 747 |
| Bst2UI | CCWGG | 2 cut(s) | 832, 975 |
| Bst4CI | ACNGT | 6 cut(s) | 217, 256, 298, 943, 1129, 1162 |
| Bst6I | CTCTTC | 2 cut(s) | 700, 808 |
| BstAFI | CTTAAG | 2 cut(s) | 86, 125 |
| BstAPI | GCANNNNNTGC | 4 cut(s) | 203, 410, 650, 1016 |
| BstAUI | TGTACA | 1 cut(s) | 1162 |
| BstC8I | GCNNGC | 1 cut(s) | 1047 |
| BstDEI | CTNAG | 7 cut(s) | 60, 276, 309, 516, 1035, 1120, 1173 |
| BstEII | GGTNACC | 1 cut(s) | 267 |
| BstF5I | GGATG | 4 cut(s) | 208, 238, 424, 1028 |
| BstKTI | GATC | 3 cut(s) | 56, 303, 625 |
| BstMAI | GTCTC | 3 cut(s) | 164, 206, 536 |
| BstMBI | GATC | 3 cut(s) | 53, 300, 622 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 203, 281, 410, 650, 1016 |
| BstNI | CCWGG | 2 cut(s) | 832, 975 |
| BstPI | GGTNACC | 1 cut(s) | 267 |
| BstSCI | CCNGG | 2 cut(s) | 830, 973 |
| BstSFI | CTRYAG | 4 cut(s) | 24, 576, 838, 922 |
| BstV1I | GCAGC | 5 cut(s) | 107, 296, 343, 569, 1019 |
| BstZ17I | GTATAC | 1 cut(s) | 747 |
| BsuI | GTATCC | 1 cut(s) | 867 |
| BsuRI | GGCC | 1 cut(s) | 830 |
| BtsCI | GGATG | 4 cut(s) | 208, 238, 424, 1028 |
| BtsI | GCAGTG | 2 cut(s) | 399, 585 |
| BtsIMutI | CAGTG | 5 cut(s) | 252, 303, 399, 585, 1084 |
| BveI | ACCTGC | 3 cut(s) | 583, 660, 893 |
| Cac8I | GCNNGC | 1 cut(s) | 1047 |
| CaiI | CAGNNNCTG | 1 cut(s) | 837 |
| Cfr13I | GGNCC | 3 cut(s) | 828, 834, 992 |
| Csp6I | GTAC | 2 cut(s) | 786, 1163 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 682, 717 |
| CviAII | CATG | 2 cut(s) | 145, 824 |
| CviQI | GTAC | 2 cut(s) | 786, 1163 |
| DdeI | CTNAG | 7 cut(s) | 60, 276, 309, 516, 1035, 1120, 1173 |
| DpnI | GATC | 3 cut(s) | 55, 302, 624 |
| DpnII | GATC | 3 cut(s) | 53, 300, 622 |
| Eam1104I | CTCTTC | 2 cut(s) | 700, 808 |
| EarI | CTCTTC | 2 cut(s) | 700, 808 |
| EciI | GGCGGA | 1 cut(s) | 71 |
| Eco24I | GRGCYC | 1 cut(s) | 310 |
| Eco31I | GGTCTC | 1 cut(s) | 164 |
| Eco47I | GGWCC | 2 cut(s) | 834, 992 |
| Eco57I | CTGAAG | 2 cut(s) | 104, 122 |
| Eco91I | GGTNACC | 1 cut(s) | 267 |
| EcoO109I | RGGNCCY | 2 cut(s) | 834, 992 |
| EcoO65I | GGTNACC | 1 cut(s) | 267 |
| EcoRII | CCWGG | 2 cut(s) | 830, 973 |
| EcoT38I | GRGCYC | 1 cut(s) | 310 |
| FaeI | CATG | 2 cut(s) | 148, 827 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 190, 222, 1074, 1106 |
| FaqI | GGGAC | 1 cut(s) | 379 |
| FatI | CATG | 2 cut(s) | 144, 823 |
| FauNDI | CATATG | 2 cut(s) | 586, 1071 |
| FbaI | TGATCA | 1 cut(s) | 300 |
| FblI | GTMKAC | 1 cut(s) | 746 |
| Fnu4HI | GCNGC | 5 cut(s) | 96, 285, 357, 558, 1008 |
| FokI | GGATG | 4 cut(s) | 215, 245, 411, 1015 |
| FriOI | GRGCYC | 1 cut(s) | 310 |
| Fsp4HI | GCNGC | 5 cut(s) | 96, 285, 357, 558, 1008 |
| FspBI | CTAG | 2 cut(s) | 528, 639 |
| GluI | GCNGC | 5 cut(s) | 96, 285, 357, 558, 1008 |
| GsaI | CCCAGC | 1 cut(s) | 1152 |
| HaeIII | GGCC | 1 cut(s) | 830 |
| Hin1II | CATG | 2 cut(s) | 148, 827 |
| HincII | GTYRAC | 2 cut(s) | 725, 980 |
| HindII | GTYRAC | 2 cut(s) | 725, 980 |
| HinfI | GANTC | 4 cut(s) | 19, 380, 934, 1052 |
| HphI | GGTGA | 3 cut(s) | 429, 435, 531 |
| Hpy166II | GTNNAC | 3 cut(s) | 725, 747, 980 |
| Hpy188I | TCNGA | 2 cut(s) | 160, 1123 |
| Hpy188III | TCNNGA | 1 cut(s) | 62 |
| Hpy8I | GTNNAC | 3 cut(s) | 725, 747, 980 |
| HpyAV | CCTTC | 3 cut(s) | 128, 489, 1005 |
| HpyCH4III | ACNGT | 6 cut(s) | 217, 256, 298, 943, 1129, 1162 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 203, 281, 410, 650, 1016 |
| HpyF3I | CTNAG | 7 cut(s) | 60, 276, 309, 516, 1035, 1120, 1173 |
| Hsp92II | CATG | 2 cut(s) | 148, 827 |
| Ksp22I | TGATCA | 1 cut(s) | 300 |
| Kzo9I | GATC | 3 cut(s) | 53, 300, 622 |
| LmnI | GCTCC | 4 cut(s) | 103, 496, 526, 1111 |
| Lsp1109I | GCAGC | 5 cut(s) | 107, 296, 343, 569, 1019 |
| LweI | GCATC | 2 cut(s) | 193, 941 |
| MaeI | CTAG | 2 cut(s) | 528, 639 |
| MaeIII | GTNAC | 3 cut(s) | 250, 267, 435 |
| MalI | GATC | 3 cut(s) | 55, 302, 624 |
| MboI | GATC | 3 cut(s) | 53, 300, 622 |
| MboII | GAAGA | 7 cut(s) | 48, 128, 456, 717, 825, 939, 1165 |
| MhlI | GDGCHC | 1 cut(s) | 310 |
| MluCI | AATT | 3 cut(s) | 335, 363, 728 |
| MlyI | GAGTC | 1 cut(s) | 28 |
| MmeI | TCCRAC | 2 cut(s) | 650, 1117 |
| MseI | TTAA | 6 cut(s) | 87, 126, 338, 372, 714, 849 |
| MslI | CAYNNNNRTG | 2 cut(s) | 404, 882 |
| MspA1I | CMGCKG | 1 cut(s) | 275 |
| MspCI | CTTAAG | 2 cut(s) | 86, 125 |
| MspR9I | CCNGG | 2 cut(s) | 832, 975 |
| Mva1269I | GAATGC | 1 cut(s) | 644 |
| MvaI | CCWGG | 2 cut(s) | 832, 975 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 203, 281, 410, 650, 1016 |
| NdeI | CATATG | 2 cut(s) | 586, 1071 |
| NdeII | GATC | 3 cut(s) | 53, 300, 622 |
| NlaIII | CATG | 2 cut(s) | 148, 827 |
| NlaIV | GGNNCC | 3 cut(s) | 522, 829, 1060 |
| NmuCI | GTSAC | 2 cut(s) | 250, 435 |
| PaqCI | CACCTGC | 1 cut(s) | 893 |
| PctI | GAATGC | 1 cut(s) | 644 |
| PfeI | GAWTC | 3 cut(s) | 380, 934, 1052 |
| PflFI | GACNNNGTC | 1 cut(s) | 1127 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 632 |
| PkrI | GCNGC | 5 cut(s) | 97, 286, 358, 559, 1009 |
| PleI | GAGTC | 1 cut(s) | 27 |
| PpsI | GAGTC | 1 cut(s) | 27 |
| PpuMI | RGGWCCY | 2 cut(s) | 834, 992 |
| Psp5II | RGGWCCY | 2 cut(s) | 834, 992 |
| Psp6I | CCWGG | 2 cut(s) | 830, 973 |
| PspEI | GGTNACC | 1 cut(s) | 267 |
| PspFI | CCCAGC | 1 cut(s) | 1148 |
| PspGI | CCWGG | 2 cut(s) | 830, 973 |
| PspN4I | GGNNCC | 3 cut(s) | 522, 829, 1060 |
| PspPI | GGNCC | 3 cut(s) | 828, 834, 992 |
| PspPPI | RGGWCCY | 2 cut(s) | 834, 992 |
| PstI | CTGCAG | 2 cut(s) | 580, 926 |
| PstNI | CAGNNNCTG | 1 cut(s) | 837 |
| PsyI | GACNNNGTC | 1 cut(s) | 1127 |
| PvuII | CAGCTG | 1 cut(s) | 275 |
| RsaI | GTAC | 2 cut(s) | 787, 1164 |
| RsaNI | GTAC | 2 cut(s) | 786, 1163 |
| RseI | CAYNNNNRTG | 2 cut(s) | 404, 882 |
| SaqAI | TTAA | 6 cut(s) | 87, 126, 338, 372, 714, 849 |
| SatI | GCNGC | 5 cut(s) | 96, 285, 357, 558, 1008 |
| Sau3AI | GATC | 3 cut(s) | 53, 300, 622 |
| Sau96I | GGNCC | 3 cut(s) | 828, 834, 992 |
| SchI | GAGTC | 1 cut(s) | 28 |
| ScrFI | CCNGG | 2 cut(s) | 832, 975 |
| SduI | GDGCHC | 1 cut(s) | 310 |
| SfaNI | GCATC | 2 cut(s) | 193, 941 |
| SfcI | CTRYAG | 4 cut(s) | 24, 576, 838, 922 |
| SinI | GGWCC | 2 cut(s) | 834, 992 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 404, 882 |
| SmlI | CTYRAG | 5 cut(s) | 16, 86, 125, 350, 892 |
| SmoI | CTYRAG | 5 cut(s) | 16, 86, 125, 350, 892 |
| SpeI | ACTAGT | 1 cut(s) | 527 |
| Sse9I | AATT | 3 cut(s) | 335, 363, 728 |
| SsiI | CCGC | 1 cut(s) | 82 |
| SspI | AATATT | 2 cut(s) | 697, 1102 |
| SspMI | CTAG | 2 cut(s) | 528, 639 |
| StyD4I | CCNGG | 2 cut(s) | 830, 973 |
| TaaI | ACNGT | 6 cut(s) | 217, 256, 298, 943, 1129, 1162 |
| TaqI | TCGA | 1 cut(s) | 52 |
| TasI | AATT | 3 cut(s) | 335, 363, 728 |
| TatI | WGTACW | 1 cut(s) | 1162 |
| TfiI | GAWTC | 3 cut(s) | 380, 934, 1052 |
| Tru1I | TTAA | 6 cut(s) | 87, 126, 338, 372, 714, 849 |
| Tru9I | TTAA | 6 cut(s) | 87, 126, 338, 372, 714, 849 |
| TscAI | CASTG | 5 cut(s) | 259, 303, 406, 585, 1084 |
| TseFI | GTSAC | 2 cut(s) | 250, 435 |
| TseI | GCWGC | 5 cut(s) | 95, 284, 356, 557, 1007 |
| Tsp45I | GTSAC | 2 cut(s) | 250, 435 |
| TspDTI | ATGAA | 4 cut(s) | 393, 471, 603, 866 |
| TspRI | CASTG | 5 cut(s) | 259, 303, 406, 585, 1084 |
| Tth111I | GACNNNGTC | 1 cut(s) | 1127 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 632 |
| Vha464I | CTTAAG | 2 cut(s) | 86, 125 |
| VpaK11BI | GGWCC | 2 cut(s) | 834, 992 |
| XmiI | GTMKAC | 1 cut(s) | 746 |
| XspI | CTAG | 2 cut(s) | 528, 639 |