gag-polypeptide of LTR copia-type
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_3 | PF14244 | 27 - 73 | 9.1e-19 | gag-polypeptide of LTR copia-type |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccB1I | GGYRCC | 1 cut(s) | 386 |
| AciI | CCGC | 1 cut(s) | 936 |
| AclWI | GGATC | 1 cut(s) | 658 |
| AcoI | YGGCCR | 2 cut(s) | 97, 763 |
| AcsI | RAATTY | 2 cut(s) | 712, 786 |
| AcuI | CTGAAG | 3 cut(s) | 21, 978, 1025 |
| AcyI | GRCGYC | 1 cut(s) | 986 |
| AfaI | GTAC | 2 cut(s) | 18, 105 |
| AflIII | ACRYGT | 1 cut(s) | 779 |
| AgsI | TTSAA | 4 cut(s) | 124, 359, 609, 776 |
| AjnI | CCWGG | 1 cut(s) | 981 |
| AluBI | AGCT | 3 cut(s) | 464, 602, 674 |
| AluI | AGCT | 3 cut(s) | 464, 602, 674 |
| Alw26I | GTCTC | 2 cut(s) | 431, 437 |
| AlwI | GGATC | 1 cut(s) | 658 |
| AoxI | GGCC | 3 cut(s) | 97, 129, 763 |
| ApeKI | GCWGC | 6 cut(s) | 42, 558, 674, 677, 873, 1115 |
| ApoI | RAATTY | 2 cut(s) | 712, 786 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 725 |
| AspS9I | GGNCC | 1 cut(s) | 129 |
| AsuC2I | CCSGG | 1 cut(s) | 96 |
| AsuHPI | GGTGA | 3 cut(s) | 83, 652, 699 |
| AsuII | TTCGAA | 1 cut(s) | 312 |
| BaeI | ACNNNNGTAYC | 1 cut(s) | 33 |
| BalI | TGGCCA | 1 cut(s) | 765 |
| BanI | GGYRCC | 1 cut(s) | 386 |
| BbvI | GCAGC | 6 cut(s) | 54, 570, 661, 664, 885, 1102 |
| BccI | CCATC | 4 cut(s) | 91, 121, 469, 755 |
| BciT130I | CCWGG | 1 cut(s) | 983 |
| BcnI | CCSGG | 1 cut(s) | 96 |
| BcoDI | GTCTC | 2 cut(s) | 431, 437 |
| BfmI | CTRYAG | 3 cut(s) | 669, 678, 1116 |
| BglII | AGATCT | 1 cut(s) | 454 |
| BisI | GCNGC | 7 cut(s) | 43, 559, 675, 678, 874, 936, 1116 |
| BlsI | GCNGC | 7 cut(s) | 44, 560, 676, 679, 875, 937, 1117 |
| Bme1390I | CCNGG | 2 cut(s) | 96, 983 |
| BmgT120I | GGNCC | 1 cut(s) | 129 |
| BmiI | GGNNCC | 4 cut(s) | 130, 373, 388, 925 |
| BmrFI | CCNGG | 2 cut(s) | 96, 983 |
| BmsI | GCATC | 5 cut(s) | 46, 68, 504, 830, 1007 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 650, 682 |
| BpmI | CTGGAG | 1 cut(s) | 166 |
| Bpu10I | CCTNAGC | 1 cut(s) | 1148 |
| Bpu14I | TTCGAA | 1 cut(s) | 312 |
| BpuMI | CCSGG | 1 cut(s) | 96 |
| BsaAI | YACGTR | 1 cut(s) | 103 |
| BsaHI | GRCGYC | 1 cut(s) | 986 |
| BsaI | GGTCTC | 1 cut(s) | 431 |
| BsaJI | CCNNGG | 3 cut(s) | 94, 981, 1013 |
| Bse1I | ACTGG | 1 cut(s) | 149 |
| Bse3DI | GCAATG | 2 cut(s) | 581, 748 |
| BseBI | CCWGG | 1 cut(s) | 983 |
| BseDI | CCNNGG | 3 cut(s) | 94, 981, 1013 |
| BseGI | GGATG | 5 cut(s) | 61, 79, 310, 439, 564 |
| BseMI | GCAATG | 2 cut(s) | 581, 748 |
| BseMII | CTCAG | 3 cut(s) | 309, 648, 1067 |
| BseNI | ACTGG | 1 cut(s) | 149 |
| BseXI | GCAGC | 6 cut(s) | 54, 570, 661, 664, 885, 1102 |
| BshFI | GGCC | 3 cut(s) | 99, 131, 765 |
| BshNI | GGYRCC | 1 cut(s) | 386 |
| BsiSI | CCGG | 1 cut(s) | 96 |
| BsmAI | GTCTC | 2 cut(s) | 431, 437 |
| BsnI | GGCC | 3 cut(s) | 99, 131, 765 |
| Bso31I | GGTCTC | 1 cut(s) | 431 |
| Bsp119I | TTCGAA | 1 cut(s) | 312 |
| Bsp143I | GATC | 3 cut(s) | 88, 454, 650 |
| BspACI | CCGC | 1 cut(s) | 936 |
| BspANI | GGCC | 3 cut(s) | 99, 131, 765 |
| BspCNI | CTCAG | 3 cut(s) | 308, 649, 1066 |
| BspHI | TCATGA | 1 cut(s) | 570 |
| BspLI | GGNNCC | 4 cut(s) | 130, 373, 388, 925 |
| BspMAI | CTGCAG | 2 cut(s) | 682, 1120 |
| BspPI | GGATC | 1 cut(s) | 658 |
| BspT104I | TTCGAA | 1 cut(s) | 312 |
| BspT107I | GGYRCC | 1 cut(s) | 386 |
| BspTNI | GGTCTC | 1 cut(s) | 431 |
| BsrDI | GCAATG | 2 cut(s) | 581, 748 |
| BsrI | ACTGG | 1 cut(s) | 149 |
| BssECI | CCNNGG | 3 cut(s) | 94, 981, 1013 |
| BssMI | GATC | 3 cut(s) | 88, 454, 650 |
| BssNI | GRCGYC | 1 cut(s) | 986 |
| BssT1I | CCWWGG | 1 cut(s) | 1013 |
| Bst2UI | CCWGG | 1 cut(s) | 983 |
| Bst4CI | ACNGT | 3 cut(s) | 203, 346, 397 |
| BstACI | GRCGYC | 1 cut(s) | 986 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 1115 |
| BstBAI | YACGTR | 1 cut(s) | 103 |
| BstBI | TTCGAA | 1 cut(s) | 312 |
| BstC8I | GCNNGC | 2 cut(s) | 288, 466 |
| BstDEI | CTNAG | 5 cut(s) | 295, 533, 657, 1053, 1148 |
| BstF5I | GGATG | 5 cut(s) | 61, 79, 310, 439, 564 |
| BstKTI | GATC | 3 cut(s) | 91, 457, 653 |
| BstMAI | GTCTC | 2 cut(s) | 431, 437 |
| BstMBI | GATC | 3 cut(s) | 88, 454, 650 |
| BstMWI | GCNNNNNNNGC | 4 cut(s) | 173, 941, 1042, 1115 |
| BstNI | CCWGG | 1 cut(s) | 983 |
| BstNSI | RCATGY | 1 cut(s) | 783 |
| BstSCI | CCNGG | 2 cut(s) | 94, 981 |
| BstSFI | CTRYAG | 3 cut(s) | 669, 678, 1116 |
| BstV1I | GCAGC | 6 cut(s) | 54, 570, 661, 664, 885, 1102 |
| BstX2I | RGATCY | 1 cut(s) | 454 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1014 |
| BstYI | RGATCY | 1 cut(s) | 454 |
| BsuRI | GGCC | 3 cut(s) | 99, 131, 765 |
| BtsCI | GGATG | 5 cut(s) | 61, 79, 310, 439, 564 |
| Cac8I | GCNNGC | 2 cut(s) | 288, 466 |
| CciI | TCATGA | 1 cut(s) | 570 |
| Cfr13I | GGNCC | 1 cut(s) | 129 |
| CseI | GACGC | 1 cut(s) | 975 |
| Csp6I | GTAC | 2 cut(s) | 17, 104 |
| CviAII | CATG | 9 cut(s) | 52, 164, 282, 391, 571, 767, 780, 920, 932 |
| CviQI | GTAC | 2 cut(s) | 17, 104 |
| DdeI | CTNAG | 5 cut(s) | 295, 533, 657, 1053, 1148 |
| DpnI | GATC | 3 cut(s) | 90, 456, 652 |
| DpnII | GATC | 3 cut(s) | 88, 454, 650 |
| EaeI | YGGCCR | 2 cut(s) | 97, 763 |
| Eco130I | CCWWGG | 1 cut(s) | 1013 |
| Eco31I | GGTCTC | 1 cut(s) | 431 |
| Eco57I | CTGAAG | 3 cut(s) | 21, 978, 1025 |
| EcoRI | GAATTC | 1 cut(s) | 786 |
| EcoRII | CCWGG | 1 cut(s) | 981 |
| EcoT14I | CCWWGG | 1 cut(s) | 1013 |
| EcoT22I | ATGCAT | 1 cut(s) | 61 |
| ErhI | CCWWGG | 1 cut(s) | 1013 |
| FaeI | CATG | 9 cut(s) | 55, 167, 285, 394, 574, 770, 783, 923, 935 |
| FatI | CATG | 9 cut(s) | 51, 163, 281, 390, 570, 766, 779, 919, 931 |
| Fnu4HI | GCNGC | 7 cut(s) | 43, 559, 675, 678, 874, 936, 1116 |
| FokI | GGATG | 5 cut(s) | 66, 68, 317, 446, 551 |
| Fsp4HI | GCNGC | 7 cut(s) | 43, 559, 675, 678, 874, 936, 1116 |
| GluI | GCNGC | 7 cut(s) | 43, 559, 675, 678, 874, 936, 1116 |
| GsuI | CTGGAG | 1 cut(s) | 166 |
| HaeIII | GGCC | 3 cut(s) | 99, 131, 765 |
| HapII | CCGG | 1 cut(s) | 96 |
| HgaI | GACGC | 1 cut(s) | 975 |
| Hin1I | GRCGYC | 1 cut(s) | 986 |
| Hin1II | CATG | 9 cut(s) | 55, 167, 285, 394, 574, 770, 783, 923, 935 |
| HincII | GTYRAC | 1 cut(s) | 990 |
| HindII | GTYRAC | 1 cut(s) | 990 |
| HindIII | AAGCTT | 1 cut(s) | 600 |
| HinfI | GANTC | 4 cut(s) | 256, 355, 688, 977 |
| HpaII | CCGG | 1 cut(s) | 96 |
| HphI | GGTGA | 3 cut(s) | 83, 652, 699 |
| Hpy166II | GTNNAC | 1 cut(s) | 990 |
| Hpy188I | TCNGA | 7 cut(s) | 88, 142, 354, 474, 687, 792, 1056 |
| Hpy188III | TCNNGA | 7 cut(s) | 253, 400, 452, 571, 620, 648, 718 |
| Hpy8I | GTNNAC | 1 cut(s) | 990 |
| HpyAV | CCTTC | 4 cut(s) | 45, 228, 937, 974 |
| HpyCH4III | ACNGT | 3 cut(s) | 203, 346, 397 |
| HpyCH4IV | ACGT | 3 cut(s) | 15, 102, 904 |
| HpyF10VI | GCNNNNNNNGC | 4 cut(s) | 173, 941, 1042, 1115 |
| HpyF3I | CTNAG | 5 cut(s) | 295, 533, 657, 1053, 1148 |
| HpySE526I | ACGT | 3 cut(s) | 15, 102, 904 |
| Hsp92I | GRCGYC | 1 cut(s) | 986 |
| Hsp92II | CATG | 9 cut(s) | 55, 167, 285, 394, 574, 770, 783, 923, 935 |
| Kzo9I | GATC | 3 cut(s) | 88, 454, 650 |
| LmnI | GCTCC | 1 cut(s) | 377 |
| Lsp1109I | GCAGC | 6 cut(s) | 54, 570, 661, 664, 885, 1102 |
| LweI | GCATC | 5 cut(s) | 46, 68, 504, 830, 1007 |
| MaeII | ACGT | 3 cut(s) | 15, 102, 904 |
| MaeIII | GTNAC | 4 cut(s) | 536, 640, 812, 1091 |
| MalI | GATC | 3 cut(s) | 90, 456, 652 |
| MboI | GATC | 3 cut(s) | 88, 454, 650 |
| MboII | GAAGA | 4 cut(s) | 449, 512, 515, 1148 |
| MfeI | CAATTG | 2 cut(s) | 366, 1046 |
| MflI | RGATCY | 1 cut(s) | 454 |
| MlsI | TGGCCA | 1 cut(s) | 765 |
| MluNI | TGGCCA | 1 cut(s) | 765 |
| MnlI | CCTC | 6 cut(s) | 179, 225, 578, 815, 902, 978 |
| Mox20I | TGGCCA | 1 cut(s) | 765 |
| Mph1103I | ATGCAT | 1 cut(s) | 61 |
| MroXI | GAANNNNTTC | 1 cut(s) | 725 |
| MscI | TGGCCA | 1 cut(s) | 765 |
| MseI | TTAA | 1 cut(s) | 210 |
| MslI | CAYNNNNRTG | 3 cut(s) | 569, 831, 1064 |
| Msp20I | TGGCCA | 1 cut(s) | 765 |
| MspI | CCGG | 1 cut(s) | 96 |
| MspR9I | CCNGG | 2 cut(s) | 96, 983 |
| MunI | CAATTG | 2 cut(s) | 366, 1046 |
| MvaI | CCWGG | 1 cut(s) | 983 |
| MwoI | GCNNNNNNNGC | 4 cut(s) | 173, 941, 1042, 1115 |
| NciI | CCSGG | 1 cut(s) | 96 |
| NdeII | GATC | 3 cut(s) | 88, 454, 650 |
| NlaIII | CATG | 9 cut(s) | 55, 167, 285, 394, 574, 770, 783, 923, 935 |
| NlaIV | GGNNCC | 4 cut(s) | 130, 373, 388, 925 |
| NmuCI | GTSAC | 3 cut(s) | 536, 640, 812 |
| NsiI | ATGCAT | 1 cut(s) | 61 |
| NspI | RCATGY | 1 cut(s) | 783 |
| NspV | TTCGAA | 1 cut(s) | 312 |
| PagI | TCATGA | 1 cut(s) | 570 |
| PciI | ACATGT | 1 cut(s) | 779 |
| PdmI | GAANNNNTTC | 1 cut(s) | 725 |
| PfeI | GAWTC | 4 cut(s) | 256, 355, 688, 977 |
| PkrI | GCNGC | 7 cut(s) | 44, 560, 676, 679, 875, 937, 1117 |
| Ppu21I | YACGTR | 1 cut(s) | 103 |
| PscI | ACATGT | 1 cut(s) | 779 |
| Psp6I | CCWGG | 1 cut(s) | 981 |
| PspGI | CCWGG | 1 cut(s) | 981 |
| PspN4I | GGNNCC | 4 cut(s) | 130, 373, 388, 925 |
| PspPI | GGNCC | 1 cut(s) | 129 |
| PstI | CTGCAG | 2 cut(s) | 682, 1120 |
| PsuI | RGATCY | 1 cut(s) | 454 |
| RsaI | GTAC | 2 cut(s) | 18, 105 |
| RsaNI | GTAC | 2 cut(s) | 17, 104 |
| RseI | CAYNNNNRTG | 3 cut(s) | 569, 831, 1064 |
| SaqAI | TTAA | 1 cut(s) | 210 |
| SatI | GCNGC | 7 cut(s) | 43, 559, 675, 678, 874, 936, 1116 |
| Sau3AI | GATC | 3 cut(s) | 88, 454, 650 |
| Sau96I | GGNCC | 1 cut(s) | 129 |
| ScrFI | CCNGG | 2 cut(s) | 96, 983 |
| SfaNI | GCATC | 5 cut(s) | 46, 68, 504, 830, 1007 |
| SfcI | CTRYAG | 3 cut(s) | 669, 678, 1116 |
| SfuI | TTCGAA | 1 cut(s) | 312 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 569, 831, 1064 |
| SsiI | CCGC | 1 cut(s) | 936 |
| StyD4I | CCNGG | 2 cut(s) | 94, 981 |
| StyI | CCWWGG | 1 cut(s) | 1013 |
| TaaI | ACNGT | 3 cut(s) | 203, 346, 397 |
| TaiI | ACGT | 3 cut(s) | 18, 105, 907 |
| TaqI | TCGA | 3 cut(s) | 312, 451, 784 |
| TauI | GCSGC | 1 cut(s) | 938 |
| TfiI | GAWTC | 4 cut(s) | 256, 355, 688, 977 |
| Tru1I | TTAA | 1 cut(s) | 210 |
| Tru9I | TTAA | 1 cut(s) | 210 |
| TseFI | GTSAC | 3 cut(s) | 536, 640, 812 |
| TseI | GCWGC | 6 cut(s) | 42, 558, 674, 677, 873, 1115 |
| Tsp45I | GTSAC | 3 cut(s) | 536, 640, 812 |
| TspDTI | ATGAA | 4 cut(s) | 68, 152, 184, 450 |
| XapI | RAATTY | 2 cut(s) | 712, 786 |
| XceI | RCATGY | 1 cut(s) | 783 |
| XmnI | GAANNNNTTC | 1 cut(s) | 725 |
| Zsp2I | ATGCAT | 1 cut(s) | 61 |