transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 44 - 181 | 1.2e-20 | gag-polypeptide of LTR copia-type |
| Pol_BBD | PF22936 | 609 - 683 | 6.5e-21 | Pol polyprotein, beta-barrel domain |
| SH3_retrovirus | PF25597 | 847 - 902 | 1.5e-13 | Retroviral polymerase SH3-like domain |
| RVT_2 | PF07727 | 1039 - 1281 | 7e-73 | Reverse transcriptase (RNA-dependent DNA polymerase) |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 2 cut(s) | 855, 2646 |
| AasI | GACNNNNNNGTC | 1 cut(s) | 1479 |
| Acc36I | ACCTGC | 2 cut(s) | 3427, 4088 |
| AccI | GTMKAC | 1 cut(s) | 1511 |
| AciI | CCGC | 4 cut(s) | 1668, 1905, 2369, 3214 |
| AclWI | GGATC | 4 cut(s) | 1086, 1279, 2880, 3428 |
| AcuI | CTGAAG | 3 cut(s) | 2787, 2799, 3630 |
| AfaI | GTAC | 5 cut(s) | 2742, 2865, 3929, 4070, 4241 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 928, 2113, 3294, 4450 |
| AflII | CTTAAG | 1 cut(s) | 3464 |
| AflIII | ACRYGT | 2 cut(s) | 1750, 1778 |
| AgeI | ACCGGT | 1 cut(s) | 2151 |
| AhlI | ACTAGT | 2 cut(s) | 3848, 4343 |
| AjnI | CCWGG | 1 cut(s) | 1969 |
| AleI | CACNNNNGTG | 2 cut(s) | 1449, 2168 |
| Alw21I | GWGCWC | 4 cut(s) | 424, 996, 2709, 4550 |
| AlwI | GGATC | 4 cut(s) | 1086, 1279, 2880, 3428 |
| Ama87I | CYCGRG | 2 cut(s) | 1609, 4150 |
| AoxI | GGCC | 1 cut(s) | 2782 |
| ApeKI | GCWGC | 6 cut(s) | 155, 830, 2774, 2857, 3818, 4247 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 3617, 3649 |
| AseI | ATTAAT | 1 cut(s) | 2679 |
| AsiGI | ACCGGT | 1 cut(s) | 2151 |
| Asp700I | GAANNNNTTC | 7 cut(s) | 222, 779, 1702, 2659, 3306, 3850, 4458 |
| AspS9I | GGNCC | 2 cut(s) | 4, 1499 |
| AsuHPI | GGTGA | 9 cut(s) | 265, 389, 797, 1436, 1829, 1874, 1934, 2182, 2909 |
| AsuNHI | GCTAGC | 2 cut(s) | 1006, 3938 |
| AvaI | CYCGRG | 2 cut(s) | 1609, 4150 |
| AvaII | GGWCC | 2 cut(s) | 4, 1499 |
| AxyI | CCTNAGG | 1 cut(s) | 3996 |
| BanII | GRGCYC | 1 cut(s) | 424 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 1804, 1836 |
| BbsI | GAAGAC | 4 cut(s) | 594, 747, 1718, 3305 |
| Bbv12I | GWGCWC | 4 cut(s) | 424, 996, 2709, 4550 |
| BbvI | GCAGC | 6 cut(s) | 142, 817, 2761, 2869, 3805, 4259 |
| BccI | CCATC | 7 cut(s) | 44, 79, 2501, 2662, 2903, 3450, 3749 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 4226, 4260 |
| BciT130I | CCWGG | 1 cut(s) | 1971 |
| BciVI | GTATCC | 1 cut(s) | 1985 |
| BclI | TGATCA | 3 cut(s) | 2281, 2734, 3889 |
| BcuI | ACTAGT | 2 cut(s) | 3848, 4343 |
| BfmI | CTRYAG | 3 cut(s) | 142, 2551, 3420 |
| BfrI | CTTAAG | 1 cut(s) | 3464 |
| BfuAI | ACCTGC | 2 cut(s) | 3427, 4088 |
| BfuI | GTATCC | 1 cut(s) | 1985 |
| BglII | AGATCT | 1 cut(s) | 472 |
| BisI | GCNGC | 6 cut(s) | 156, 831, 2775, 2858, 3819, 4248 |
| BlpI | GCTNAGC | 1 cut(s) | 444 |
| BlsI | GCNGC | 6 cut(s) | 157, 832, 2776, 2859, 3820, 4249 |
| Bme1390I | CCNGG | 1 cut(s) | 1971 |
| Bme18I | GGWCC | 2 cut(s) | 4, 1499 |
| BmeT110I | CYCGRG | 2 cut(s) | 1609, 4150 |
| BmgT120I | GGNCC | 2 cut(s) | 4, 1499 |
| BmiI | GGNNCC | 3 cut(s) | 697, 2358, 3135 |
| BmrFI | CCNGG | 1 cut(s) | 1971 |
| BmsI | GCATC | 9 cut(s) | 718, 2086, 2185, 2572, 2992, 3009, 3805, 4035, 4423 |
| BmtI | GCTAGC | 2 cut(s) | 1010, 3942 |
| BpiI | GAAGAC | 4 cut(s) | 594, 747, 1718, 3305 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 995, 1027, 2231, 2263 |
| BpmI | CTGGAG | 1 cut(s) | 1365 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 444 |
| BpuEI | CTTGAG | 8 cut(s) | 87, 453, 1227, 3222, 3234, 3594, 4296, 4466 |
| Bsa29I | ATCGAT | 1 cut(s) | 723 |
| BsaBI | GATNNNNATC | 1 cut(s) | 603 |
| BsaI | GGTCTC | 1 cut(s) | 3764 |
| BsaJI | CCNNGG | 3 cut(s) | 999, 3840, 4149 |
| BsaWI | WCCGGW | 2 cut(s) | 2151, 3142 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 883, 913, 3742, 3772 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 928, 2113, 3294, 4450 |
| Bse118I | RCCGGY | 1 cut(s) | 2151 |
| Bse1I | ACTGG | 4 cut(s) | 1877, 2837, 2854, 3880 |
| Bse21I | CCTNAGG | 1 cut(s) | 3996 |
| Bse3DI | GCAATG | 5 cut(s) | 1770, 2485, 2973, 3324, 4242 |
| Bse8I | GATNNNNATC | 1 cut(s) | 603 |
| BseBI | CCWGG | 1 cut(s) | 1971 |
| BseCI | ATCGAT | 1 cut(s) | 723 |
| BseDI | CCNNGG | 3 cut(s) | 999, 3840, 4149 |
| BseJI | GATNNNNATC | 1 cut(s) | 603 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 928, 2113, 3294, 4450 |
| BseMI | GCAATG | 5 cut(s) | 1770, 2485, 2973, 3324, 4242 |
| BseMII | CTCAG | 5 cut(s) | 926, 984, 1056, 1504, 2069 |
| BseNI | ACTGG | 4 cut(s) | 1877, 2837, 2854, 3880 |
| BseRI | GAGGAG | 3 cut(s) | 27, 1016, 1345 |
| BseXI | GCAGC | 6 cut(s) | 142, 817, 2761, 2869, 3805, 4259 |
| BshFI | GGCC | 1 cut(s) | 2784 |
| BshTI | ACCGGT | 1 cut(s) | 2151 |
| BshVI | ATCGAT | 1 cut(s) | 723 |
| BsiHKAI | GWGCWC | 4 cut(s) | 424, 996, 2709, 4550 |
| BsiHKCI | CYCGRG | 2 cut(s) | 1609, 4150 |
| BsiSI | CCGG | 2 cut(s) | 2152, 3143 |
| BslFI | GGGAC | 1 cut(s) | 1394 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 928, 2113, 3294, 4450 |
| BsmFI | GGGAC | 1 cut(s) | 1394 |
| BsmI | GAATGC | 1 cut(s) | 1177 |
| BsnI | GGCC | 1 cut(s) | 2784 |
| Bso31I | GGTCTC | 1 cut(s) | 3764 |
| BsoBI | CYCGRG | 2 cut(s) | 1609, 4150 |
| Bsp1286I | GDGCHC | 4 cut(s) | 424, 996, 2709, 4550 |
| Bsp1407I | TGTACA | 1 cut(s) | 4068 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 444 |
| Bsp19I | CCATGG | 1 cut(s) | 3840 |
| BspACI | CCGC | 4 cut(s) | 1668, 1905, 2369, 3214 |
| BspANI | GGCC | 1 cut(s) | 2784 |
| BspCNI | CTCAG | 5 cut(s) | 925, 983, 1057, 1503, 2070 |
| BspDI | ATCGAT | 1 cut(s) | 723 |
| BspHI | TCATGA | 3 cut(s) | 235, 1522, 3678 |
| BspLI | GGNNCC | 3 cut(s) | 697, 2358, 3135 |
| BspMAI | CTGCAG | 1 cut(s) | 3424 |
| BspMI | ACCTGC | 2 cut(s) | 3427, 4088 |
| BspOI | GCTAGC | 2 cut(s) | 1010, 3942 |
| BspPI | GGATC | 4 cut(s) | 1086, 1279, 2880, 3428 |
| BspQI | GCTCTTC | 2 cut(s) | 429, 627 |
| BspTI | CTTAAG | 1 cut(s) | 3464 |
| BspTNI | GGTCTC | 1 cut(s) | 3764 |
| BsrDI | GCAATG | 5 cut(s) | 1770, 2485, 2973, 3324, 4242 |
| BsrFI | RCCGGY | 1 cut(s) | 2151 |
| BsrGI | TGTACA | 1 cut(s) | 4068 |
| BsrI | ACTGG | 4 cut(s) | 1877, 2837, 2854, 3880 |
| BssAI | RCCGGY | 1 cut(s) | 2151 |
| BssECI | CCNNGG | 3 cut(s) | 999, 3840, 4149 |
| BssT1I | CCWWGG | 1 cut(s) | 3840 |
| Bst2UI | CCWGG | 1 cut(s) | 1971 |
| Bst4CI | ACNGT | 4 cut(s) | 8, 636, 4211, 4555 |
| BstAFI | CTTAAG | 1 cut(s) | 3464 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 2541 |
| BstAUI | TGTACA | 1 cut(s) | 4068 |
| BstC8I | GCNNGC | 3 cut(s) | 139, 1008, 3940 |
| BstDSI | CCRYGG | 1 cut(s) | 3840 |
| BstMWI | GCNNNNNNNGC | 9 cut(s) | 839, 947, 1796, 2447, 2541, 3053, 3290, 3500, 3824 |
| BstNI | CCWGG | 1 cut(s) | 1971 |
| BstNSI | RCATGY | 3 cut(s) | 1754, 1782, 3333 |
| BstSCI | CCNGG | 1 cut(s) | 1969 |
| BstSFI | CTRYAG | 3 cut(s) | 142, 2551, 3420 |
| BstV1I | GCAGC | 6 cut(s) | 142, 817, 2761, 2869, 3805, 4259 |
| BstV2I | GAAGAC | 4 cut(s) | 594, 747, 1718, 3305 |
| BstX2I | RGATCY | 3 cut(s) | 472, 1271, 3433 |
| BstYI | RGATCY | 3 cut(s) | 472, 1271, 3433 |
| Bsu15I | ATCGAT | 1 cut(s) | 723 |
| Bsu36I | CCTNAGG | 1 cut(s) | 3996 |
| BsuI | GTATCC | 1 cut(s) | 1985 |
| BsuRI | GGCC | 1 cut(s) | 2784 |
| BsuTUI | ATCGAT | 1 cut(s) | 723 |
| BtgI | CCRYGG | 1 cut(s) | 3840 |
| BtsIMutI | CAGTG | 1 cut(s) | 4464 |
| BveI | ACCTGC | 2 cut(s) | 3427, 4088 |
| Cac8I | GCNNGC | 3 cut(s) | 139, 1008, 3940 |
| CciI | TCATGA | 3 cut(s) | 235, 1522, 3678 |
| Cfr10I | RCCGGY | 1 cut(s) | 2151 |
| Cfr13I | GGNCC | 2 cut(s) | 4, 1499 |
| ClaI | ATCGAT | 1 cut(s) | 723 |
| Csp6I | GTAC | 5 cut(s) | 2741, 2864, 3928, 4069, 4240 |
| CspAI | ACCGGT | 1 cut(s) | 2151 |
| CspCI | CAANNNNNGTGG | 4 cut(s) | 1926, 1961, 2120, 2155 |
| CviQI | GTAC | 5 cut(s) | 2741, 2864, 3928, 4069, 4240 |
| DraI | TTTAAA | 4 cut(s) | 880, 1678, 1986, 3381 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 1479 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 1479 |
| Ecl136II | GAGCTC | 1 cut(s) | 422 |
| Eco130I | CCWWGG | 1 cut(s) | 3840 |
| Eco24I | GRGCYC | 1 cut(s) | 424 |
| Eco31I | GGTCTC | 1 cut(s) | 3764 |
| Eco32I | GATATC | 2 cut(s) | 3983, 4409 |
| Eco47I | GGWCC | 2 cut(s) | 4, 1499 |
| Eco53kI | GAGCTC | 1 cut(s) | 422 |
| Eco57I | CTGAAG | 3 cut(s) | 2787, 2799, 3630 |
| Eco81I | CCTNAGG | 1 cut(s) | 3996 |
| Eco88I | CYCGRG | 2 cut(s) | 1609, 4150 |
| EcoICRI | GAGCTC | 1 cut(s) | 422 |
| EcoRI | GAATTC | 1 cut(s) | 3665 |
| EcoRII | CCWGG | 1 cut(s) | 1969 |
| EcoRV | GATATC | 2 cut(s) | 3983, 4409 |
| EcoT14I | CCWWGG | 1 cut(s) | 3840 |
| EcoT22I | ATGCAT | 2 cut(s) | 1135, 2264 |
| EcoT38I | GRGCYC | 1 cut(s) | 424 |
| ErhI | CCWWGG | 1 cut(s) | 3840 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 2007, 2039, 3213, 3245 |
| FaqI | GGGAC | 1 cut(s) | 1394 |
| FauI | CCCGC | 1 cut(s) | 3221 |
| FbaI | TGATCA | 3 cut(s) | 2281, 2734, 3889 |
| FblI | GTMKAC | 1 cut(s) | 1511 |
| Fnu4HI | GCNGC | 6 cut(s) | 156, 831, 2775, 2858, 3819, 4248 |
| FriOI | GRGCYC | 1 cut(s) | 424 |
| Fsp4HI | GCNGC | 6 cut(s) | 156, 831, 2775, 2858, 3819, 4248 |
| GluI | GCNGC | 6 cut(s) | 156, 831, 2775, 2858, 3819, 4248 |
| GsuI | CTGGAG | 1 cut(s) | 1365 |
| HaeIII | GGCC | 1 cut(s) | 2784 |
| HapII | CCGG | 2 cut(s) | 2152, 3143 |
| HindIII | AAGCTT | 3 cut(s) | 207, 2799, 3919 |
| HpaII | CCGG | 2 cut(s) | 2152, 3143 |
| HphI | GGTGA | 9 cut(s) | 265, 389, 797, 1436, 1829, 1874, 1934, 2182, 2909 |
| Hpy166II | GTNNAC | 6 cut(s) | 1512, 2163, 2842, 4069, 4071, 4491 |
| Hpy8I | GTNNAC | 6 cut(s) | 1512, 2163, 2842, 4069, 4071, 4491 |
| HpyCH4III | ACNGT | 4 cut(s) | 8, 636, 4211, 4555 |
| HpyF10VI | GCNNNNNNNGC | 9 cut(s) | 839, 947, 1796, 2447, 2541, 3053, 3290, 3500, 3824 |
| Ksp22I | TGATCA | 3 cut(s) | 2281, 2734, 3889 |
| LguI | GCTCTTC | 2 cut(s) | 429, 627 |
| LmnI | GCTCC | 4 cut(s) | 1003, 1358, 1972, 2362 |
| Lsp1109I | GCAGC | 6 cut(s) | 142, 817, 2761, 2869, 3805, 4259 |
| LweI | GCATC | 9 cut(s) | 718, 2086, 2185, 2572, 2992, 3009, 3805, 4035, 4423 |
| MaeIII | GTNAC | 8 cut(s) | 242, 352, 1442, 1912, 1922, 1960, 2591, 4334 |
| MfeI | CAATTG | 6 cut(s) | 558, 1266, 2039, 2700, 3558, 4475 |
| MflI | RGATCY | 3 cut(s) | 472, 1271, 3433 |
| MhlI | GDGCHC | 4 cut(s) | 424, 996, 2709, 4550 |
| MmeI | TCCRAC | 5 cut(s) | 144, 221, 524, 942, 3766 |
| Mph1103I | ATGCAT | 2 cut(s) | 1135, 2264 |
| MroXI | GAANNNNTTC | 7 cut(s) | 222, 779, 1702, 2659, 3306, 3850, 4458 |
| MslI | CAYNNNNRTG | 3 cut(s) | 1449, 2168, 4268 |
| MspA1I | CMGCKG | 3 cut(s) | 1670, 1905, 4250 |
| MspCI | CTTAAG | 1 cut(s) | 3464 |
| MspI | CCGG | 2 cut(s) | 2152, 3143 |
| MspR9I | CCNGG | 1 cut(s) | 1971 |
| MunI | CAATTG | 6 cut(s) | 558, 1266, 2039, 2700, 3558, 4475 |
| Mva1269I | GAATGC | 1 cut(s) | 1177 |
| MvaI | CCWGG | 1 cut(s) | 1971 |
| MwoI | GCNNNNNNNGC | 9 cut(s) | 839, 947, 1796, 2447, 2541, 3053, 3290, 3500, 3824 |
| NcoI | CCATGG | 1 cut(s) | 3840 |
| NheI | GCTAGC | 2 cut(s) | 1006, 3938 |
| NlaIV | GGNNCC | 3 cut(s) | 697, 2358, 3135 |
| NmeAIII | GCCGAG | 2 cut(s) | 2333, 4261 |
| NmuCI | GTSAC | 5 cut(s) | 1442, 1912, 1922, 2591, 4334 |
| NsiI | ATGCAT | 2 cut(s) | 1135, 2264 |
| NspI | RCATGY | 3 cut(s) | 1754, 1782, 3333 |
| OliI | CACNNNNGTG | 2 cut(s) | 1449, 2168 |
| PagI | TCATGA | 3 cut(s) | 235, 1522, 3678 |
| PciI | ACATGT | 2 cut(s) | 1750, 1778 |
| PciSI | GCTCTTC | 2 cut(s) | 429, 627 |
| PctI | GAATGC | 1 cut(s) | 1177 |
| PdmI | GAANNNNTTC | 7 cut(s) | 222, 779, 1702, 2659, 3306, 3850, 4458 |
| PinAI | ACCGGT | 1 cut(s) | 2151 |
| PkrI | GCNGC | 6 cut(s) | 157, 832, 2776, 2859, 3820, 4249 |
| PscI | ACATGT | 2 cut(s) | 1750, 1778 |
| PshBI | ATTAAT | 1 cut(s) | 2679 |
| PsiI | TTATAA | 2 cut(s) | 855, 2646 |
| Psp124BI | GAGCTC | 1 cut(s) | 424 |
| Psp6I | CCWGG | 1 cut(s) | 1969 |
| PspGI | CCWGG | 1 cut(s) | 1969 |
| PspN4I | GGNNCC | 3 cut(s) | 697, 2358, 3135 |
| PspPI | GGNCC | 2 cut(s) | 4, 1499 |
| PstI | CTGCAG | 1 cut(s) | 3424 |
| PsuI | RGATCY | 3 cut(s) | 472, 1271, 3433 |
| PvuII | CAGCTG | 1 cut(s) | 4250 |
| RsaI | GTAC | 5 cut(s) | 2742, 2865, 3929, 4070, 4241 |
| RsaNI | GTAC | 5 cut(s) | 2741, 2864, 3928, 4069, 4240 |
| RseI | CAYNNNNRTG | 3 cut(s) | 1449, 2168, 4268 |
| SacI | GAGCTC | 1 cut(s) | 424 |
| SapI | GCTCTTC | 2 cut(s) | 429, 627 |
| SatI | GCNGC | 6 cut(s) | 156, 831, 2775, 2858, 3819, 4248 |
| Sau96I | GGNCC | 2 cut(s) | 4, 1499 |
| SbfI | CCTGCAGG | 1 cut(s) | 3424 |
| ScrFI | CCNGG | 1 cut(s) | 1971 |
| SdaI | CCTGCAGG | 1 cut(s) | 3424 |
| SduI | GDGCHC | 4 cut(s) | 424, 996, 2709, 4550 |
| SfaNI | GCATC | 9 cut(s) | 718, 2086, 2185, 2572, 2992, 3009, 3805, 4035, 4423 |
| SfcI | CTRYAG | 3 cut(s) | 142, 2551, 3420 |
| SinI | GGWCC | 2 cut(s) | 4, 1499 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 1449, 2168, 4268 |
| SmlI | CTYRAG | 9 cut(s) | 102, 468, 1242, 3237, 3249, 3464, 3609, 4311, 4445 |
| SmoI | CTYRAG | 9 cut(s) | 102, 468, 1242, 3237, 3249, 3464, 3609, 4311, 4445 |
| SpeI | ACTAGT | 2 cut(s) | 3848, 4343 |
| Sse8387I | CCTGCAGG | 1 cut(s) | 3424 |
| SsiI | CCGC | 4 cut(s) | 1668, 1905, 2369, 3214 |
| SstI | GAGCTC | 1 cut(s) | 424 |
| StyD4I | CCNGG | 1 cut(s) | 1969 |
| StyI | CCWWGG | 1 cut(s) | 3840 |
| TaaI | ACNGT | 4 cut(s) | 8, 636, 4211, 4555 |
| TaqI | TCGA | 5 cut(s) | 418, 723, 2748, 4138, 4405 |
| TatI | WGTACW | 3 cut(s) | 2863, 4068, 4239 |
| TscAI | CASTG | 1 cut(s) | 4471 |
| TseFI | GTSAC | 5 cut(s) | 1442, 1912, 1922, 2591, 4334 |
| TseI | GCWGC | 6 cut(s) | 155, 830, 2774, 2857, 3818, 4247 |
| Tsp45I | GTSAC | 5 cut(s) | 1442, 1912, 1922, 2591, 4334 |
| TspGWI | ACGGA | 2 cut(s) | 1331, 1941 |
| TspRI | CASTG | 1 cut(s) | 4471 |
| Vha464I | CTTAAG | 1 cut(s) | 3464 |
| VpaK11BI | GGWCC | 2 cut(s) | 4, 1499 |
| VspI | ATTAAT | 1 cut(s) | 2679 |
| XbaI | TCTAGA | 2 cut(s) | 607, 1808 |
| XceI | RCATGY | 3 cut(s) | 1754, 1782, 3333 |
| XmiI | GTMKAC | 1 cut(s) | 1511 |
| XmnI | GAANNNNTTC | 7 cut(s) | 222, 779, 1702, 2659, 3306, 3850, 4458 |
| Zsp2I | ATGCAT | 2 cut(s) | 1135, 2264 |