gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 29 - 179 | 1.5e-17 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc65I | GGTACC | 1 cut(s) | 563 |
| AccB1I | GGYRCC | 1 cut(s) | 563 |
| AccII | CGCG | 1 cut(s) | 1057 |
| AciI | CCGC | 3 cut(s) | 268, 1055, 1057 |
| AclWI | GGATC | 5 cut(s) | 124, 137, 604, 1036, 1040 |
| AcoI | YGGCCR | 2 cut(s) | 180, 1015 |
| AcsI | RAATTY | 1 cut(s) | 346 |
| AcuI | CTGAAG | 2 cut(s) | 35, 260 |
| AcvI | CACGTG | 1 cut(s) | 467 |
| AfaI | GTAC | 3 cut(s) | 186, 565, 774 |
| AfeI | AGCGCT | 1 cut(s) | 245 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 626, 659, 692 |
| AgeI | ACCGGT | 1 cut(s) | 560 |
| AgsI | TTSAA | 3 cut(s) | 76, 346, 757 |
| AjiI | CACGTC | 1 cut(s) | 665 |
| AluBI | AGCT | 4 cut(s) | 94, 215, 374, 453 |
| AluI | AGCT | 4 cut(s) | 94, 215, 374, 453 |
| Alw26I | GTCTC | 2 cut(s) | 409, 654 |
| AlwI | GGATC | 5 cut(s) | 124, 137, 604, 1036, 1040 |
| Aor51HI | AGCGCT | 1 cut(s) | 245 |
| AoxI | GGCC | 4 cut(s) | 180, 231, 427, 1015 |
| ApeKI | GCWGC | 2 cut(s) | 548, 881 |
| ApoI | RAATTY | 1 cut(s) | 346 |
| AseI | ATTAAT | 1 cut(s) | 162 |
| AsiGI | ACCGGT | 1 cut(s) | 560 |
| Asp718I | GGTACC | 1 cut(s) | 563 |
| AspLEI | GCGC | 3 cut(s) | 246, 867, 995 |
| AspS9I | GGNCC | 2 cut(s) | 4, 428 |
| AsuC2I | CCSGG | 1 cut(s) | 605 |
| AsuHPI | GGTGA | 5 cut(s) | 88, 299, 917, 940, 961 |
| AvaII | GGWCC | 1 cut(s) | 4 |
| BalI | TGGCCA | 1 cut(s) | 1017 |
| BamHI | GGATCC | 1 cut(s) | 129 |
| BanI | GGYRCC | 1 cut(s) | 563 |
| BauI | CACGAG | 4 cut(s) | 216, 591, 687, 978 |
| BbrPI | CACGTG | 1 cut(s) | 467 |
| BbsI | GAAGAC | 1 cut(s) | 93 |
| BbvI | GCAGC | 2 cut(s) | 535, 868 |
| BccI | CCATC | 2 cut(s) | 38, 916 |
| BceAI | ACGGC | 2 cut(s) | 167, 624 |
| BcnI | CCSGG | 1 cut(s) | 605 |
| BcoDI | GTCTC | 2 cut(s) | 409, 654 |
| BfaI | CTAG | 2 cut(s) | 621, 702 |
| BfoI | RGCGCY | 3 cut(s) | 247, 868, 996 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 497 |
| BglII | AGATCT | 1 cut(s) | 313 |
| BisI | GCNGC | 3 cut(s) | 549, 882, 1058 |
| BlsI | GCNGC | 3 cut(s) | 550, 883, 1059 |
| Bme1390I | CCNGG | 1 cut(s) | 605 |
| Bme18I | GGWCC | 1 cut(s) | 4 |
| BmgBI | CACGTC | 1 cut(s) | 665 |
| BmgT120I | GGNCC | 2 cut(s) | 4, 428 |
| BmiI | GGNNCC | 5 cut(s) | 6, 131, 565, 855, 934 |
| BmrFI | CCNGG | 1 cut(s) | 605 |
| BmsI | GCATC | 2 cut(s) | 893, 946 |
| BpiI | GAAGAC | 1 cut(s) | 93 |
| BpmI | CTGGAG | 1 cut(s) | 951 |
| Bpu10I | CCTNAGC | 2 cut(s) | 370, 459 |
| BpuMI | CCSGG | 1 cut(s) | 605 |
| BsaAI | YACGTR | 1 cut(s) | 467 |
| BsaBI | GATNNNNATC | 1 cut(s) | 396 |
| BsaI | GGTCTC | 1 cut(s) | 654 |
| BsaJI | CCNNGG | 5 cut(s) | 492, 604, 640, 1018, 1055 |
| BsaWI | WCCGGW | 1 cut(s) | 560 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 626, 659, 692 |
| Bse118I | RCCGGY | 1 cut(s) | 560 |
| Bse1I | ACTGG | 2 cut(s) | 766, 934 |
| Bse3DI | GCAATG | 2 cut(s) | 631, 882 |
| Bse8I | GATNNNNATC | 1 cut(s) | 396 |
| BseDI | CCNNGG | 5 cut(s) | 492, 604, 640, 1018, 1055 |
| BseGI | GGATG | 3 cut(s) | 49, 147, 674 |
| BseJI | GATNNNNATC | 1 cut(s) | 396 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 626, 659, 692 |
| BseMI | GCAATG | 2 cut(s) | 631, 882 |
| BseMII | CTCAG | 6 cut(s) | 166, 296, 473, 729, 735, 1046 |
| BseNI | ACTGG | 2 cut(s) | 766, 934 |
| BseRI | GAGGAG | 1 cut(s) | 727 |
| BseX3I | CGGCCG | 1 cut(s) | 180 |
| BseXI | GCAGC | 2 cut(s) | 535, 868 |
| Bsh1236I | CGCG | 1 cut(s) | 1057 |
| Bsh1285I | CGRYCG | 1 cut(s) | 183 |
| BshFI | GGCC | 4 cut(s) | 182, 233, 429, 1017 |
| BshNI | GGYRCC | 1 cut(s) | 563 |
| BshTI | ACCGGT | 1 cut(s) | 560 |
| BsiEI | CGRYCG | 1 cut(s) | 183 |
| BsiSI | CCGG | 3 cut(s) | 179, 561, 604 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 626, 659, 692 |
| BsmAI | GTCTC | 2 cut(s) | 409, 654 |
| BsmI | GAATGC | 1 cut(s) | 270 |
| BsnI | GGCC | 4 cut(s) | 182, 233, 429, 1017 |
| Bso31I | GGTCTC | 1 cut(s) | 654 |
| Bsp143I | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| Bsp19I | CCATGG | 1 cut(s) | 1018 |
| BspACI | CCGC | 3 cut(s) | 268, 1055, 1057 |
| BspANI | GGCC | 4 cut(s) | 182, 233, 429, 1017 |
| BspCNI | CTCAG | 6 cut(s) | 165, 297, 472, 728, 736, 1045 |
| BspFNI | CGCG | 1 cut(s) | 1057 |
| BspLI | GGNNCC | 5 cut(s) | 6, 131, 565, 855, 934 |
| BspPI | GGATC | 5 cut(s) | 124, 137, 604, 1036, 1040 |
| BspQI | GCTCTTC | 1 cut(s) | 703 |
| BspT107I | GGYRCC | 1 cut(s) | 563 |
| BspTNI | GGTCTC | 1 cut(s) | 654 |
| BsrDI | GCAATG | 2 cut(s) | 631, 882 |
| BsrFI | RCCGGY | 1 cut(s) | 560 |
| BsrI | ACTGG | 2 cut(s) | 766, 934 |
| BssAI | RCCGGY | 1 cut(s) | 560 |
| BssECI | CCNNGG | 5 cut(s) | 492, 604, 640, 1018, 1055 |
| BssMI | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| BssSI | CACGAG | 4 cut(s) | 216, 591, 687, 978 |
| BssT1I | CCWWGG | 2 cut(s) | 492, 1018 |
| Bst2BI | CACGAG | 4 cut(s) | 216, 591, 687, 978 |
| Bst4CI | ACNGT | 5 cut(s) | 106, 189, 196, 448, 779 |
| Bst6I | CTCTTC | 2 cut(s) | 11, 703 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 881 |
| BstBAI | YACGTR | 1 cut(s) | 467 |
| BstC8I | GCNNGC | 2 cut(s) | 202, 795 |
| BstDEI | CTNAG | 8 cut(s) | 152, 235, 305, 370, 459, 715, 744, 1032 |
| BstDSI | CCRYGG | 3 cut(s) | 640, 1018, 1055 |
| BstEII | GGTNACC | 1 cut(s) | 764 |
| BstF5I | GGATG | 3 cut(s) | 49, 147, 674 |
| BstFNI | CGCG | 1 cut(s) | 1057 |
| BstH2I | RGCGCY | 3 cut(s) | 247, 868, 996 |
| BstHHI | GCGC | 3 cut(s) | 246, 867, 995 |
| BstKTI | GATC | 6 cut(s) | 132, 316, 400, 599, 1031, 1048 |
| BstMAI | GTCTC | 2 cut(s) | 409, 654 |
| BstMBI | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| BstMCI | CGRYCG | 1 cut(s) | 183 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 497, 578, 881 |
| BstPI | GGTNACC | 1 cut(s) | 764 |
| BstSCI | CCNGG | 1 cut(s) | 603 |
| BstUI | CGCG | 1 cut(s) | 1057 |
| BstV1I | GCAGC | 2 cut(s) | 535, 868 |
| BstV2I | GAAGAC | 1 cut(s) | 93 |
| BstX2I | RGATCY | 5 cut(s) | 129, 313, 596, 1028, 1045 |
| BstYI | RGATCY | 5 cut(s) | 129, 313, 596, 1028, 1045 |
| BstZI | CGGCCG | 1 cut(s) | 180 |
| BsuRI | GGCC | 4 cut(s) | 182, 233, 429, 1017 |
| BtgI | CCRYGG | 3 cut(s) | 640, 1018, 1055 |
| BtrI | CACGTC | 1 cut(s) | 665 |
| BtsCI | GGATG | 3 cut(s) | 49, 147, 674 |
| BtsI | GCAGTG | 1 cut(s) | 567 |
| BtsIMutI | CAGTG | 6 cut(s) | 11, 302, 567, 723, 775, 927 |
| Cac8I | GCNNGC | 2 cut(s) | 202, 795 |
| CfoI | GCGC | 3 cut(s) | 246, 867, 995 |
| Cfr10I | RCCGGY | 1 cut(s) | 560 |
| Cfr13I | GGNCC | 2 cut(s) | 4, 428 |
| Cfr42I | CCGCGG | 1 cut(s) | 1058 |
| CseI | GACGC | 1 cut(s) | 131 |
| Csp6I | GTAC | 3 cut(s) | 185, 564, 773 |
| CspAI | ACCGGT | 1 cut(s) | 560 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 613, 648 |
| CviAII | CATG | 5 cut(s) | 225, 526, 915, 944, 1019 |
| CviQI | GTAC | 3 cut(s) | 185, 564, 773 |
| DdeI | CTNAG | 8 cut(s) | 152, 235, 305, 370, 459, 715, 744, 1032 |
| DpnI | GATC | 6 cut(s) | 131, 315, 399, 598, 1030, 1047 |
| DpnII | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| EaeI | YGGCCR | 2 cut(s) | 180, 1015 |
| EagI | CGGCCG | 1 cut(s) | 180 |
| Eam1104I | CTCTTC | 2 cut(s) | 11, 703 |
| EarI | CTCTTC | 2 cut(s) | 11, 703 |
| EclXI | CGGCCG | 1 cut(s) | 180 |
| Eco130I | CCWWGG | 2 cut(s) | 492, 1018 |
| Eco31I | GGTCTC | 1 cut(s) | 654 |
| Eco47I | GGWCC | 1 cut(s) | 4 |
| Eco47III | AGCGCT | 1 cut(s) | 245 |
| Eco52I | CGGCCG | 1 cut(s) | 180 |
| Eco57I | CTGAAG | 2 cut(s) | 35, 260 |
| Eco72I | CACGTG | 1 cut(s) | 467 |
| Eco91I | GGTNACC | 1 cut(s) | 764 |
| EcoO65I | GGTNACC | 1 cut(s) | 764 |
| EcoRI | GAATTC | 1 cut(s) | 346 |
| EcoT14I | CCWWGG | 2 cut(s) | 492, 1018 |
| ErhI | CCWWGG | 2 cut(s) | 492, 1018 |
| FaeI | CATG | 5 cut(s) | 228, 529, 918, 947, 1022 |
| FatI | CATG | 5 cut(s) | 224, 525, 914, 943, 1018 |
| Fnu4HI | GCNGC | 3 cut(s) | 549, 882, 1058 |
| FokI | GGATG | 3 cut(s) | 56, 134, 661 |
| Fsp4HI | GCNGC | 3 cut(s) | 549, 882, 1058 |
| FspBI | CTAG | 2 cut(s) | 621, 702 |
| GlaI | GCGC | 3 cut(s) | 245, 866, 994 |
| GluI | GCNGC | 3 cut(s) | 549, 882, 1058 |
| GsuI | CTGGAG | 1 cut(s) | 951 |
| HaeII | RGCGCY | 3 cut(s) | 247, 868, 996 |
| HaeIII | GGCC | 4 cut(s) | 182, 233, 429, 1017 |
| HapII | CCGG | 3 cut(s) | 179, 561, 604 |
| HgaI | GACGC | 1 cut(s) | 131 |
| HhaI | GCGC | 3 cut(s) | 246, 867, 995 |
| Hin1II | CATG | 5 cut(s) | 228, 529, 918, 947, 1022 |
| Hin6I | GCGC | 3 cut(s) | 244, 865, 993 |
| HinP1I | GCGC | 3 cut(s) | 244, 865, 993 |
| HincII | GTYRAC | 1 cut(s) | 192 |
| HindII | GTYRAC | 1 cut(s) | 192 |
| HinfI | GANTC | 3 cut(s) | 19, 175, 746 |
| HpaII | CCGG | 3 cut(s) | 179, 561, 604 |
| HphI | GGTGA | 5 cut(s) | 88, 299, 917, 940, 961 |
| Hpy166II | GTNNAC | 3 cut(s) | 192, 668, 775 |
| Hpy188I | TCNGA | 2 cut(s) | 328, 955 |
| Hpy188III | TCNNGA | 7 cut(s) | 73, 113, 585, 812, 980, 1026, 1034 |
| Hpy8I | GTNNAC | 3 cut(s) | 192, 668, 775 |
| Hpy99I | CGWCG | 1 cut(s) | 525 |
| HpyAV | CCTTC | 4 cut(s) | 70, 583, 760, 843 |
| HpyCH4III | ACNGT | 5 cut(s) | 106, 189, 196, 448, 779 |
| HpyCH4IV | ACGT | 6 cut(s) | 209, 466, 520, 664, 670, 1002 |
| HpyCH4V | TGCA | 3 cut(s) | 721, 875, 884 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 497, 578, 881 |
| HpyF3I | CTNAG | 8 cut(s) | 152, 235, 305, 370, 459, 715, 744, 1032 |
| HpySE526I | ACGT | 6 cut(s) | 209, 466, 520, 664, 670, 1002 |
| Hsp92II | CATG | 5 cut(s) | 228, 529, 918, 947, 1022 |
| HspAI | GCGC | 3 cut(s) | 244, 865, 993 |
| KpnI | GGTACC | 1 cut(s) | 567 |
| KspI | CCGCGG | 1 cut(s) | 1058 |
| Kzo9I | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| LguI | GCTCTTC | 1 cut(s) | 703 |
| LmnI | GCTCC | 2 cut(s) | 59, 932 |
| Lsp1109I | GCAGC | 2 cut(s) | 535, 868 |
| LweI | GCATC | 2 cut(s) | 893, 946 |
| MaeI | CTAG | 2 cut(s) | 621, 702 |
| MaeII | ACGT | 6 cut(s) | 209, 466, 520, 664, 670, 1002 |
| MaeIII | GTNAC | 2 cut(s) | 764, 946 |
| MalI | GATC | 6 cut(s) | 131, 315, 399, 598, 1030, 1047 |
| MboI | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| MboII | GAAGA | 9 cut(s) | 28, 98, 246, 266, 690, 702, 745, 882, 1055 |
| MfeI | CAATTG | 1 cut(s) | 384 |
| MflI | RGATCY | 5 cut(s) | 129, 313, 596, 1028, 1045 |
| MlsI | TGGCCA | 1 cut(s) | 1017 |
| MluCI | AATT | 5 cut(s) | 290, 321, 346, 384, 1011 |
| MluNI | TGGCCA | 1 cut(s) | 1017 |
| MlyI | GAGTC | 3 cut(s) | 28, 169, 755 |
| MmeI | TCCRAC | 2 cut(s) | 137, 157 |
| Mox20I | TGGCCA | 1 cut(s) | 1017 |
| MscI | TGGCCA | 1 cut(s) | 1017 |
| MseI | TTAA | 2 cut(s) | 162, 822 |
| Msp20I | TGGCCA | 1 cut(s) | 1017 |
| MspA1I | CMGCKG | 1 cut(s) | 1057 |
| MspI | CCGG | 3 cut(s) | 179, 561, 604 |
| MspR9I | CCNGG | 1 cut(s) | 605 |
| MunI | CAATTG | 1 cut(s) | 384 |
| Mva1269I | GAATGC | 1 cut(s) | 270 |
| MvnI | CGCG | 1 cut(s) | 1057 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 497, 578, 881 |
| NciI | CCSGG | 1 cut(s) | 605 |
| NcoI | CCATGG | 1 cut(s) | 1018 |
| NdeII | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| NlaIII | CATG | 5 cut(s) | 228, 529, 918, 947, 1022 |
| NlaIV | GGNNCC | 5 cut(s) | 6, 131, 565, 855, 934 |
| NmuCI | GTSAC | 1 cut(s) | 946 |
| PciSI | GCTCTTC | 1 cut(s) | 703 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 637 |
| PctI | GAATGC | 1 cut(s) | 270 |
| PflFI | GACNNNGTC | 1 cut(s) | 1001 |
| PinAI | ACCGGT | 1 cut(s) | 560 |
| PkrI | GCNGC | 3 cut(s) | 550, 883, 1059 |
| PleI | GAGTC | 3 cut(s) | 27, 169, 754 |
| PmaCI | CACGTG | 1 cut(s) | 467 |
| PmlI | CACGTG | 1 cut(s) | 467 |
| PpsI | GAGTC | 3 cut(s) | 27, 169, 754 |
| Ppu21I | YACGTR | 1 cut(s) | 467 |
| PshBI | ATTAAT | 1 cut(s) | 162 |
| PspCI | CACGTG | 1 cut(s) | 467 |
| PspEI | GGTNACC | 1 cut(s) | 764 |
| PspN4I | GGNNCC | 5 cut(s) | 6, 131, 565, 855, 934 |
| PspPI | GGNCC | 2 cut(s) | 4, 428 |
| PsuI | RGATCY | 5 cut(s) | 129, 313, 596, 1028, 1045 |
| PsyI | GACNNNGTC | 1 cut(s) | 1001 |
| RsaI | GTAC | 3 cut(s) | 186, 565, 774 |
| RsaNI | GTAC | 3 cut(s) | 185, 564, 773 |
| SacII | CCGCGG | 1 cut(s) | 1058 |
| SapI | GCTCTTC | 1 cut(s) | 703 |
| SaqAI | TTAA | 2 cut(s) | 162, 822 |
| SatI | GCNGC | 3 cut(s) | 549, 882, 1058 |
| Sau3AI | GATC | 6 cut(s) | 129, 313, 397, 596, 1028, 1045 |
| Sau96I | GGNCC | 2 cut(s) | 4, 428 |
| SchI | GAGTC | 3 cut(s) | 28, 169, 755 |
| ScrFI | CCNGG | 1 cut(s) | 605 |
| SfaNI | GCATC | 2 cut(s) | 893, 946 |
| Sfr303I | CCGCGG | 1 cut(s) | 1058 |
| SgrBI | CCGCGG | 1 cut(s) | 1058 |
| SinI | GGWCC | 1 cut(s) | 4 |
| Sse9I | AATT | 5 cut(s) | 290, 321, 346, 384, 1011 |
| SsiI | CCGC | 3 cut(s) | 268, 1055, 1057 |
| SspI | AATATT | 1 cut(s) | 166 |
| SspMI | CTAG | 2 cut(s) | 621, 702 |
| StyD4I | CCNGG | 1 cut(s) | 603 |
| StyI | CCWWGG | 2 cut(s) | 492, 1018 |
| TaaI | ACNGT | 5 cut(s) | 106, 189, 196, 448, 779 |
| TaiI | ACGT | 6 cut(s) | 212, 469, 523, 667, 673, 1005 |
| TaqI | TCGA | 1 cut(s) | 586 |
| TasI | AATT | 5 cut(s) | 290, 321, 346, 384, 1011 |
| TatI | WGTACW | 1 cut(s) | 772 |
| TauI | GCSGC | 1 cut(s) | 1060 |
| Tru1I | TTAA | 2 cut(s) | 162, 822 |
| Tru9I | TTAA | 2 cut(s) | 162, 822 |
| TscAI | CASTG | 6 cut(s) | 18, 309, 574, 723, 782, 934 |
| TseFI | GTSAC | 1 cut(s) | 946 |
| TseI | GCWGC | 2 cut(s) | 548, 881 |
| Tsp45I | GTSAC | 1 cut(s) | 946 |
| TspDTI | ATGAA | 4 cut(s) | 431, 501, 663, 845 |
| TspGWI | ACGGA | 2 cut(s) | 54, 1055 |
| TspRI | CASTG | 6 cut(s) | 18, 309, 574, 723, 782, 934 |
| Tth111I | GACNNNGTC | 1 cut(s) | 1001 |
| VpaK11BI | GGWCC | 1 cut(s) | 4 |
| VspI | ATTAAT | 1 cut(s) | 162 |
| XapI | RAATTY | 1 cut(s) | 346 |
| XspI | CTAG | 2 cut(s) | 621, 702 |