gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 33 - 205 | 4.7e-19 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 2 cut(s) | 129, 1616 |
| AclWI | GGATC | 1 cut(s) | 958 |
| AcsI | RAATTY | 9 cut(s) | 32, 369, 383, 712, 740, 793, 1032, 1097, 1610 |
| AcuI | CTGAAG | 3 cut(s) | 183, 399, 1365 |
| AdeI | CACNNNGTG | 2 cut(s) | 260, 496 |
| AfaI | GTAC | 5 cut(s) | 157, 168, 287, 564, 1546 |
| AfeI | AGCGCT | 1 cut(s) | 519 |
| AflIII | ACRYGT | 1 cut(s) | 315 |
| Alw21I | GWGCWC | 2 cut(s) | 492, 1604 |
| Alw26I | GTCTC | 1 cut(s) | 138 |
| AlwI | GGATC | 1 cut(s) | 958 |
| Ama87I | CYCGRG | 2 cut(s) | 805, 1597 |
| Aor51HI | AGCGCT | 1 cut(s) | 519 |
| ApeKI | GCWGC | 3 cut(s) | 548, 1276, 1645 |
| ApoI | RAATTY | 9 cut(s) | 32, 369, 383, 712, 740, 793, 1032, 1097, 1610 |
| AseI | ATTAAT | 2 cut(s) | 1080, 1415 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 796, 1659 |
| AspLEI | GCGC | 2 cut(s) | 279, 520 |
| AspS9I | GGNCC | 1 cut(s) | 1237 |
| AsuHPI | GGTGA | 5 cut(s) | 154, 416, 511, 989, 1243 |
| AvaI | CYCGRG | 2 cut(s) | 805, 1597 |
| AvaII | GGWCC | 1 cut(s) | 1237 |
| BanII | GRGCYC | 1 cut(s) | 1604 |
| Bbv12I | GWGCWC | 2 cut(s) | 492, 1604 |
| BbvI | GCAGC | 3 cut(s) | 560, 1288, 1632 |
| BccI | CCATC | 2 cut(s) | 32, 1127 |
| BcoDI | GTCTC | 1 cut(s) | 138 |
| BfaI | CTAG | 6 cut(s) | 234, 257, 587, 762, 789, 1125 |
| BfmI | CTRYAG | 1 cut(s) | 1274 |
| BfoI | RGCGCY | 1 cut(s) | 521 |
| BglII | AGATCT | 1 cut(s) | 592 |
| BisI | GCNGC | 3 cut(s) | 549, 1277, 1646 |
| BlsI | GCNGC | 3 cut(s) | 550, 1278, 1647 |
| BmcAI | AGTACT | 2 cut(s) | 157, 287 |
| Bme18I | GGWCC | 1 cut(s) | 1237 |
| BmeT110I | CYCGRG | 2 cut(s) | 805, 1597 |
| BmgT120I | GGNCC | 1 cut(s) | 1237 |
| BmsI | GCATC | 1 cut(s) | 85 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 1433, 1465 |
| Bpu10I | CCTNAGC | 1 cut(s) | 264 |
| BsaJI | CCNNGG | 1 cut(s) | 90 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 1006, 1036 |
| Bse3DI | GCAATG | 3 cut(s) | 223, 1393, 1640 |
| BseDI | CCNNGG | 1 cut(s) | 90 |
| BseGI | GGATG | 5 cut(s) | 100, 344, 415, 478, 1165 |
| BseMI | GCAATG | 3 cut(s) | 223, 1393, 1640 |
| BseMII | CTCAG | 7 cut(s) | 68, 526, 837, 1259, 1431, 1469, 1614 |
| BseRI | GAGGAG | 1 cut(s) | 500 |
| BseXI | GCAGC | 3 cut(s) | 560, 1288, 1632 |
| BsgI | GTGCAG | 2 cut(s) | 237, 312 |
| BsiHKAI | GWGCWC | 2 cut(s) | 492, 1604 |
| BsiHKCI | CYCGRG | 2 cut(s) | 805, 1597 |
| BslFI | GGGAC | 1 cut(s) | 326 |
| BsmAI | GTCTC | 1 cut(s) | 138 |
| BsmFI | GGGAC | 1 cut(s) | 326 |
| BsmI | GAATGC | 1 cut(s) | 279 |
| BsoBI | CYCGRG | 2 cut(s) | 805, 1597 |
| Bsp1286I | GDGCHC | 2 cut(s) | 492, 1604 |
| Bsp143I | GATC | 3 cut(s) | 63, 592, 950 |
| BspCNI | CTCAG | 7 cut(s) | 67, 525, 836, 1260, 1432, 1470, 1615 |
| BspHI | TCATGA | 1 cut(s) | 66 |
| BspMAI | CTGCAG | 1 cut(s) | 1278 |
| BspPI | GGATC | 1 cut(s) | 958 |
| BspQI | GCTCTTC | 1 cut(s) | 790 |
| BsrDI | GCAATG | 3 cut(s) | 223, 1393, 1640 |
| BssECI | CCNNGG | 1 cut(s) | 90 |
| BssMI | GATC | 3 cut(s) | 63, 592, 950 |
| BssT1I | CCWWGG | 1 cut(s) | 90 |
| Bst4CI | ACNGT | 3 cut(s) | 290, 349, 932 |
| Bst6I | CTCTTC | 1 cut(s) | 790 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 260 |
| BstC8I | GCNNGC | 1 cut(s) | 1650 |
| BstDEI | CTNAG | 8 cut(s) | 54, 264, 512, 823, 1268, 1440, 1478, 1623 |
| BstF5I | GGATG | 5 cut(s) | 100, 344, 415, 478, 1165 |
| BstH2I | RGCGCY | 1 cut(s) | 521 |
| BstHHI | GCGC | 2 cut(s) | 279, 520 |
| BstKTI | GATC | 3 cut(s) | 66, 595, 953 |
| BstMAI | GTCTC | 1 cut(s) | 138 |
| BstMBI | GATC | 3 cut(s) | 63, 592, 950 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 239, 260, 305, 1273 |
| BstNSI | RCATGY | 1 cut(s) | 319 |
| BstSFI | CTRYAG | 1 cut(s) | 1274 |
| BstV1I | GCAGC | 3 cut(s) | 560, 1288, 1632 |
| BstX2I | RGATCY | 1 cut(s) | 592 |
| BstYI | RGATCY | 1 cut(s) | 592 |
| BtsCI | GGATG | 5 cut(s) | 100, 344, 415, 478, 1165 |
| BtsI | GCAGTG | 1 cut(s) | 21 |
| BtsIMutI | CAGTG | 3 cut(s) | 21, 62, 1437 |
| Cac8I | GCNNGC | 1 cut(s) | 1650 |
| CciI | TCATGA | 1 cut(s) | 66 |
| CfoI | GCGC | 2 cut(s) | 279, 520 |
| Cfr13I | GGNCC | 1 cut(s) | 1237 |
| Csp6I | GTAC | 5 cut(s) | 156, 167, 286, 563, 1545 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 1375, 1410 |
| CviAII | CATG | 6 cut(s) | 67, 316, 332, 556, 1092, 1293 |
| CviQI | GTAC | 5 cut(s) | 156, 167, 286, 563, 1545 |
| DdeI | CTNAG | 8 cut(s) | 54, 264, 512, 823, 1268, 1440, 1478, 1623 |
| DpnI | GATC | 3 cut(s) | 65, 594, 952 |
| DpnII | GATC | 3 cut(s) | 63, 592, 950 |
| DraIII | CACNNNGTG | 2 cut(s) | 260, 496 |
| Eam1104I | CTCTTC | 1 cut(s) | 790 |
| EarI | CTCTTC | 1 cut(s) | 790 |
| Ecl136II | GAGCTC | 1 cut(s) | 1602 |
| Eco130I | CCWWGG | 1 cut(s) | 90 |
| Eco24I | GRGCYC | 1 cut(s) | 1604 |
| Eco47I | GGWCC | 1 cut(s) | 1237 |
| Eco47III | AGCGCT | 1 cut(s) | 519 |
| Eco53kI | GAGCTC | 1 cut(s) | 1602 |
| Eco57I | CTGAAG | 3 cut(s) | 183, 399, 1365 |
| Eco88I | CYCGRG | 2 cut(s) | 805, 1597 |
| EcoICRI | GAGCTC | 1 cut(s) | 1602 |
| EcoO109I | RGGNCCY | 1 cut(s) | 1237 |
| EcoRI | GAATTC | 1 cut(s) | 740 |
| EcoT14I | CCWWGG | 1 cut(s) | 90 |
| EcoT38I | GRGCYC | 1 cut(s) | 1604 |
| ErhI | CCWWGG | 1 cut(s) | 90 |
| FaeI | CATG | 6 cut(s) | 70, 319, 335, 559, 1095, 1296 |
| FaqI | GGGAC | 1 cut(s) | 326 |
| FatI | CATG | 6 cut(s) | 66, 315, 331, 555, 1091, 1292 |
| Fnu4HI | GCNGC | 3 cut(s) | 549, 1277, 1646 |
| FokI | GGATG | 5 cut(s) | 107, 351, 422, 485, 1172 |
| FriOI | GRGCYC | 1 cut(s) | 1604 |
| Fsp4HI | GCNGC | 3 cut(s) | 549, 1277, 1646 |
| FspBI | CTAG | 6 cut(s) | 234, 257, 587, 762, 789, 1125 |
| GlaI | GCGC | 2 cut(s) | 278, 519 |
| GluI | GCNGC | 3 cut(s) | 549, 1277, 1646 |
| HaeII | RGCGCY | 1 cut(s) | 521 |
| HhaI | GCGC | 2 cut(s) | 279, 520 |
| Hin1II | CATG | 6 cut(s) | 70, 319, 335, 559, 1095, 1296 |
| Hin6I | GCGC | 2 cut(s) | 277, 518 |
| HinP1I | GCGC | 2 cut(s) | 277, 518 |
| HincII | GTYRAC | 2 cut(s) | 184, 732 |
| HindII | GTYRAC | 2 cut(s) | 184, 732 |
| HindIII | AAGCTT | 3 cut(s) | 207, 306, 391 |
| HinfI | GANTC | 6 cut(s) | 19, 355, 803, 963, 1106, 1270 |
| HpaI | GTTAAC | 1 cut(s) | 732 |
| HphI | GGTGA | 5 cut(s) | 154, 416, 511, 989, 1243 |
| Hpy166II | GTNNAC | 3 cut(s) | 184, 192, 732 |
| Hpy188III | TCNNGA | 8 cut(s) | 67, 352, 587, 745, 789, 807, 954, 1244 |
| Hpy8I | GTNNAC | 3 cut(s) | 184, 192, 732 |
| HpyAV | CCTTC | 6 cut(s) | 267, 329, 1006, 1143, 1228, 1250 |
| HpyCH4III | ACNGT | 3 cut(s) | 290, 349, 932 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 239, 260, 305, 1273 |
| HpyF3I | CTNAG | 8 cut(s) | 54, 264, 512, 823, 1268, 1440, 1478, 1623 |
| Hsp92II | CATG | 6 cut(s) | 70, 319, 335, 559, 1095, 1296 |
| HspAI | GCGC | 2 cut(s) | 277, 518 |
| KspAI | GTTAAC | 1 cut(s) | 732 |
| Kzo9I | GATC | 3 cut(s) | 63, 592, 950 |
| LguI | GCTCTTC | 1 cut(s) | 790 |
| LmnI | GCTCC | 2 cut(s) | 487, 1607 |
| Lsp1109I | GCAGC | 3 cut(s) | 560, 1288, 1632 |
| LweI | GCATC | 1 cut(s) | 85 |
| MaeI | CTAG | 6 cut(s) | 234, 257, 587, 762, 789, 1125 |
| MaeIII | GTNAC | 6 cut(s) | 322, 439, 1003, 1022, 1069, 1580 |
| MalI | GATC | 3 cut(s) | 65, 594, 952 |
| MboI | GATC | 3 cut(s) | 63, 592, 950 |
| MflI | RGATCY | 1 cut(s) | 592 |
| MhlI | GDGCHC | 2 cut(s) | 492, 1604 |
| MlyI | GAGTC | 2 cut(s) | 797, 1279 |
| MnlI | CCTC | 6 cut(s) | 63, 400, 478, 553, 1473, 1579 |
| MroXI | GAANNNNTTC | 2 cut(s) | 796, 1659 |
| MseI | TTAA | 5 cut(s) | 731, 1080, 1086, 1415, 1487 |
| MspA1I | CMGCKG | 1 cut(s) | 1279 |
| Mva1269I | GAATGC | 1 cut(s) | 279 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 239, 260, 305, 1273 |
| NdeII | GATC | 3 cut(s) | 63, 592, 950 |
| NlaIII | CATG | 6 cut(s) | 70, 319, 335, 559, 1095, 1296 |
| NmuCI | GTSAC | 1 cut(s) | 1022 |
| NspI | RCATGY | 1 cut(s) | 319 |
| PaeR7I | CTCGAG | 2 cut(s) | 805, 1597 |
| PagI | TCATGA | 1 cut(s) | 66 |
| PciI | ACATGT | 1 cut(s) | 315 |
| PciSI | GCTCTTC | 1 cut(s) | 790 |
| PctI | GAATGC | 1 cut(s) | 279 |
| PdmI | GAANNNNTTC | 2 cut(s) | 796, 1659 |
| PfeI | GAWTC | 4 cut(s) | 19, 355, 963, 1106 |
| PkrI | GCNGC | 3 cut(s) | 550, 1278, 1647 |
| PleI | GAGTC | 2 cut(s) | 797, 1278 |
| PpsI | GAGTC | 2 cut(s) | 797, 1278 |
| PpuMI | RGGWCCY | 1 cut(s) | 1237 |
| PscI | ACATGT | 1 cut(s) | 315 |
| PshBI | ATTAAT | 2 cut(s) | 1080, 1415 |
| PsiI | TTATAA | 2 cut(s) | 129, 1616 |
| Psp124BI | GAGCTC | 1 cut(s) | 1604 |
| Psp5II | RGGWCCY | 1 cut(s) | 1237 |
| PspPI | GGNCC | 1 cut(s) | 1237 |
| PspPPI | RGGWCCY | 1 cut(s) | 1237 |
| PspXI | VCTCGAGB | 1 cut(s) | 1597 |
| PstI | CTGCAG | 1 cut(s) | 1278 |
| PsuI | RGATCY | 1 cut(s) | 592 |
| PvuII | CAGCTG | 1 cut(s) | 1279 |
| RsaI | GTAC | 5 cut(s) | 157, 168, 287, 564, 1546 |
| RsaNI | GTAC | 5 cut(s) | 156, 167, 286, 563, 1545 |
| SacI | GAGCTC | 1 cut(s) | 1604 |
| SapI | GCTCTTC | 1 cut(s) | 790 |
| SaqAI | TTAA | 5 cut(s) | 731, 1080, 1086, 1415, 1487 |
| SatI | GCNGC | 3 cut(s) | 549, 1277, 1646 |
| Sau3AI | GATC | 3 cut(s) | 63, 592, 950 |
| Sau96I | GGNCC | 1 cut(s) | 1237 |
| ScaI | AGTACT | 2 cut(s) | 157, 287 |
| SchI | GAGTC | 2 cut(s) | 797, 1279 |
| SduI | GDGCHC | 2 cut(s) | 492, 1604 |
| SfaNI | GCATC | 1 cut(s) | 85 |
| SfcI | CTRYAG | 1 cut(s) | 1274 |
| Sfr274I | CTCGAG | 2 cut(s) | 805, 1597 |
| SinI | GGWCC | 1 cut(s) | 1237 |
| SlaI | CTCGAG | 2 cut(s) | 805, 1597 |
| SmlI | CTYRAG | 2 cut(s) | 805, 1597 |
| SmoI | CTYRAG | 2 cut(s) | 805, 1597 |
| SspI | AATATT | 1 cut(s) | 581 |
| SspMI | CTAG | 6 cut(s) | 234, 257, 587, 762, 789, 1125 |
| SstI | GAGCTC | 1 cut(s) | 1604 |
| StyI | CCWWGG | 1 cut(s) | 90 |
| TaaI | ACNGT | 3 cut(s) | 290, 349, 932 |
| TaqI | TCGA | 2 cut(s) | 806, 1598 |
| TatI | WGTACW | 3 cut(s) | 155, 166, 285 |
| TfiI | GAWTC | 4 cut(s) | 19, 355, 963, 1106 |
| Tru1I | TTAA | 5 cut(s) | 731, 1080, 1086, 1415, 1487 |
| Tru9I | TTAA | 5 cut(s) | 731, 1080, 1086, 1415, 1487 |
| TscAI | CASTG | 3 cut(s) | 21, 62, 1444 |
| TseFI | GTSAC | 1 cut(s) | 1022 |
| TseI | GCWGC | 3 cut(s) | 548, 1276, 1645 |
| Tsp45I | GTSAC | 1 cut(s) | 1022 |
| TspRI | CASTG | 3 cut(s) | 21, 62, 1444 |
| VpaK11BI | GGWCC | 1 cut(s) | 1237 |
| VspI | ATTAAT | 2 cut(s) | 1080, 1415 |
| XapI | RAATTY | 9 cut(s) | 32, 369, 383, 712, 740, 793, 1032, 1097, 1610 |
| XbaI | TCTAGA | 2 cut(s) | 586, 788 |
| XceI | RCATGY | 1 cut(s) | 319 |
| XhoI | CTCGAG | 2 cut(s) | 805, 1597 |
| XmnI | GAANNNNTTC | 2 cut(s) | 796, 1659 |
| XspI | CTAG | 6 cut(s) | 234, 257, 587, 762, 789, 1125 |
| ZrmI | AGTACT | 2 cut(s) | 157, 287 |