transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 36 - 203 | 4e-22 | gag-polypeptide of LTR copia-type |
| Pol_BBD | PF22936 | 642 - 716 | 4.3e-21 | Pol polyprotein, beta-barrel domain |
| gag_pre-integrs | PF13976 | 748 - 818 | 3.7e-16 | GAG-pre-integrase domain |
| rve | PF00665 | 832 - 936 | 1.2e-14 | Integrase core domain |
| SH3_retrovirus | PF25597 | 1010 - 1066 | 4.9e-14 | Retroviral polymerase SH3-like domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 2 cut(s) | 921, 3138 |
| AasI | GACNNNNNNGTC | 2 cut(s) | 1578, 3092 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 2359 |
| AccI | GTMKAC | 2 cut(s) | 1610, 2489 |
| AccIII | TCCGGA | 1 cut(s) | 722 |
| AciI | CCGC | 3 cut(s) | 1767, 2004, 2807 |
| AclWI | GGATC | 4 cut(s) | 1152, 2223, 2529, 3371 |
| AcuI | CTGAAG | 3 cut(s) | 2325, 3278, 3290 |
| AcyI | GRCGYC | 1 cut(s) | 2332 |
| AfaI | GTAC | 4 cut(s) | 1100, 2567, 3234, 3356 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 994, 2359, 2382, 2937 |
| AflIII | ACRYGT | 2 cut(s) | 1849, 1877 |
| AgeI | ACCGGT | 1 cut(s) | 2420 |
| AjnI | CCWGG | 1 cut(s) | 2068 |
| AleI | CACNNNNGTG | 3 cut(s) | 189, 1548, 2606 |
| Alw21I | GWGCWC | 3 cut(s) | 490, 1062, 3201 |
| Alw26I | GTCTC | 6 cut(s) | 22, 930, 1244, 1623, 1768, 3181 |
| AlwI | GGATC | 4 cut(s) | 1152, 2223, 2529, 3371 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1096 |
| Ama87I | CYCGRG | 1 cut(s) | 1708 |
| Aor13HI | TCCGGA | 1 cut(s) | 722 |
| AoxI | GGCC | 1 cut(s) | 3273 |
| ApeKI | GCWGC | 6 cut(s) | 221, 896, 1492, 3027, 3265, 3348 |
| AseI | ATTAAT | 1 cut(s) | 3171 |
| AsiGI | ACCGGT | 1 cut(s) | 2420 |
| Asp700I | GAANNNNTTC | 4 cut(s) | 288, 845, 1801, 3151 |
| AspS9I | GGNCC | 3 cut(s) | 4, 1598, 2531 |
| AsuHPI | GGTGA | 9 cut(s) | 331, 455, 863, 1535, 1928, 1973, 2033, 2374, 2620 |
| AvaI | CYCGRG | 1 cut(s) | 1708 |
| AvaII | GGWCC | 3 cut(s) | 4, 1598, 2531 |
| BanII | GRGCYC | 1 cut(s) | 490 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 1903, 1935 |
| BbsI | GAAGAC | 3 cut(s) | 660, 813, 1817 |
| Bbv12I | GWGCWC | 3 cut(s) | 490, 1062, 3201 |
| BbvI | GCAGC | 6 cut(s) | 208, 883, 1479, 3039, 3252, 3360 |
| BccI | CCATC | 6 cut(s) | 44, 79, 785, 2189, 2939, 3154 |
| BciT130I | CCWGG | 1 cut(s) | 2070 |
| BciVI | GTATCC | 1 cut(s) | 2084 |
| BclI | TGATCA | 3 cut(s) | 181, 2719, 3226 |
| BcoDI | GTCTC | 6 cut(s) | 22, 930, 1244, 1623, 1768, 3181 |
| BfaI | CTAG | 6 cut(s) | 21, 498, 674, 1908, 1947, 2595 |
| BfmI | CTRYAG | 2 cut(s) | 208, 3043 |
| BfuI | GTATCC | 1 cut(s) | 2084 |
| BglII | AGATCT | 1 cut(s) | 538 |
| BisI | GCNGC | 6 cut(s) | 222, 897, 1493, 3028, 3266, 3349 |
| BlpI | GCTNAGC | 1 cut(s) | 510 |
| BlsI | GCNGC | 6 cut(s) | 223, 898, 1494, 3029, 3267, 3350 |
| Bme1390I | CCNGG | 1 cut(s) | 2070 |
| Bme18I | GGWCC | 3 cut(s) | 4, 1598, 2531 |
| BmeT110I | CYCGRG | 1 cut(s) | 1708 |
| BmgT120I | GGNCC | 3 cut(s) | 4, 1598, 2531 |
| BmiI | GGNNCC | 2 cut(s) | 763, 2796 |
| BmrFI | CCNGG | 1 cut(s) | 2070 |
| BmsI | GCATC | 2 cut(s) | 2623, 3064 |
| BpiI | GAAGAC | 3 cut(s) | 660, 813, 1817 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 1061, 1093, 2669, 2701 |
| BpmI | CTGGAG | 1 cut(s) | 1464 |
| Bpu10I | CCTNAGC | 1 cut(s) | 2551 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 510 |
| BpuEI | CTTGAG | 3 cut(s) | 87, 519, 1326 |
| Bsa29I | ATCGAT | 1 cut(s) | 789 |
| BsaBI | GATNNNNATC | 1 cut(s) | 669 |
| BsaHI | GRCGYC | 1 cut(s) | 2332 |
| BsaJI | CCNNGG | 1 cut(s) | 1065 |
| BsaWI | WCCGGW | 2 cut(s) | 722, 2420 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 949, 979 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 994, 2359, 2382, 2937 |
| Bse118I | RCCGGY | 1 cut(s) | 2420 |
| Bse1I | ACTGG | 2 cut(s) | 3328, 3345 |
| Bse3DI | GCAATG | 2 cut(s) | 1869, 2923 |
| Bse8I | GATNNNNATC | 1 cut(s) | 669 |
| BseAI | TCCGGA | 1 cut(s) | 722 |
| BseBI | CCWGG | 1 cut(s) | 2070 |
| BseCI | ATCGAT | 1 cut(s) | 789 |
| BseDI | CCNNGG | 1 cut(s) | 1065 |
| BseGI | GGATG | 5 cut(s) | 385, 1517, 1753, 1979, 3258 |
| BseJI | GATNNNNATC | 1 cut(s) | 669 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 994, 2359, 2382, 2937 |
| BseMI | GCAATG | 2 cut(s) | 1869, 2923 |
| BseMII | CTCAG | 7 cut(s) | 992, 1050, 1122, 1176, 1603, 2168, 2291 |
| BseNI | ACTGG | 2 cut(s) | 3328, 3345 |
| BseRI | GAGGAG | 4 cut(s) | 27, 1082, 1444, 2287 |
| BseXI | GCAGC | 6 cut(s) | 208, 883, 1479, 3039, 3252, 3360 |
| Bsh1285I | CGRYCG | 1 cut(s) | 2954 |
| BshFI | GGCC | 1 cut(s) | 3275 |
| BshTI | ACCGGT | 1 cut(s) | 2420 |
| BshVI | ATCGAT | 1 cut(s) | 789 |
| BsiEI | CGRYCG | 1 cut(s) | 2954 |
| BsiHKAI | GWGCWC | 3 cut(s) | 490, 1062, 3201 |
| BsiHKCI | CYCGRG | 1 cut(s) | 1708 |
| BsiSI | CCGG | 2 cut(s) | 723, 2421 |
| BslFI | GGGAC | 2 cut(s) | 1430, 1493 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 994, 2359, 2382, 2937 |
| BsmAI | GTCTC | 6 cut(s) | 22, 930, 1244, 1623, 1768, 3181 |
| BsmFI | GGGAC | 2 cut(s) | 1430, 1493 |
| BsmI | GAATGC | 1 cut(s) | 1276 |
| BsnI | GGCC | 1 cut(s) | 3275 |
| BsoBI | CYCGRG | 1 cut(s) | 1708 |
| Bsp1286I | GDGCHC | 3 cut(s) | 490, 1062, 3201 |
| Bsp13I | TCCGGA | 1 cut(s) | 722 |
| Bsp1407I | TGTACA | 1 cut(s) | 1098 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 510 |
| BspACI | CCGC | 3 cut(s) | 1767, 2004, 2807 |
| BspANI | GGCC | 1 cut(s) | 3275 |
| BspCNI | CTCAG | 7 cut(s) | 991, 1049, 1123, 1177, 1602, 2169, 2290 |
| BspDI | ATCGAT | 1 cut(s) | 789 |
| BspEI | TCCGGA | 1 cut(s) | 722 |
| BspHI | TCATGA | 2 cut(s) | 301, 1621 |
| BspLI | GGNNCC | 2 cut(s) | 763, 2796 |
| BspPI | GGATC | 4 cut(s) | 1152, 2223, 2529, 3371 |
| BspQI | GCTCTTC | 2 cut(s) | 495, 693 |
| BsrDI | GCAATG | 2 cut(s) | 1869, 2923 |
| BsrFI | RCCGGY | 1 cut(s) | 2420 |
| BsrGI | TGTACA | 1 cut(s) | 1098 |
| BsrI | ACTGG | 2 cut(s) | 3328, 3345 |
| BssAI | RCCGGY | 1 cut(s) | 2420 |
| BssECI | CCNNGG | 1 cut(s) | 1065 |
| BssNI | GRCGYC | 1 cut(s) | 2332 |
| Bst2UI | CCWGG | 1 cut(s) | 2070 |
| Bst4CI | ACNGT | 3 cut(s) | 8, 702, 1098 |
| Bst6I | CTCTTC | 9 cut(s) | 495, 693, 742, 987, 1906, 2151, 2278, 2692, 2854 |
| BstACI | GRCGYC | 1 cut(s) | 2332 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 2922, 3033 |
| BstAUI | TGTACA | 1 cut(s) | 1098 |
| BstC8I | GCNNGC | 3 cut(s) | 205, 2441, 2923 |
| BstF5I | GGATG | 5 cut(s) | 385, 1517, 1753, 1979, 3258 |
| BstMAI | GTCTC | 6 cut(s) | 22, 930, 1244, 1623, 1768, 3181 |
| BstMCI | CGRYCG | 1 cut(s) | 2954 |
| BstMWI | GCNNNNNNNGC | 7 cut(s) | 905, 1013, 1895, 2449, 2885, 2922, 3033 |
| BstNI | CCWGG | 1 cut(s) | 2070 |
| BstNSI | RCATGY | 3 cut(s) | 1853, 1881, 2572 |
| BstSCI | CCNGG | 1 cut(s) | 2068 |
| BstSFI | CTRYAG | 2 cut(s) | 208, 3043 |
| BstV1I | GCAGC | 6 cut(s) | 208, 883, 1479, 3039, 3252, 3360 |
| BstV2I | GAAGAC | 3 cut(s) | 660, 813, 1817 |
| BstX2I | RGATCY | 2 cut(s) | 538, 2521 |
| BstYI | RGATCY | 2 cut(s) | 538, 2521 |
| Bsu15I | ATCGAT | 1 cut(s) | 789 |
| BsuI | GTATCC | 1 cut(s) | 2084 |
| BsuRI | GGCC | 1 cut(s) | 3275 |
| BsuTUI | ATCGAT | 1 cut(s) | 789 |
| BtsCI | GGATG | 5 cut(s) | 385, 1517, 1753, 1979, 3258 |
| Cac8I | GCNNGC | 3 cut(s) | 205, 2441, 2923 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1096 |
| CciI | TCATGA | 2 cut(s) | 301, 1621 |
| Cfr10I | RCCGGY | 1 cut(s) | 2420 |
| Cfr13I | GGNCC | 3 cut(s) | 4, 1598, 2531 |
| ClaI | ATCGAT | 1 cut(s) | 789 |
| CseI | GACGC | 1 cut(s) | 2340 |
| Csp6I | GTAC | 4 cut(s) | 1099, 2566, 3233, 3355 |
| CspAI | ACCGGT | 1 cut(s) | 2420 |
| CspCI | CAANNNNNGTGG | 4 cut(s) | 2025, 2060, 2389, 2424 |
| CviQI | GTAC | 4 cut(s) | 1099, 2566, 3233, 3355 |
| DraI | TTTAAA | 3 cut(s) | 946, 1777, 2085 |
| DrdI | GACNNNNNNGTC | 2 cut(s) | 1578, 3092 |
| DseDI | GACNNNNNNGTC | 2 cut(s) | 1578, 3092 |
| Eam1104I | CTCTTC | 9 cut(s) | 495, 693, 742, 987, 1906, 2151, 2278, 2692, 2854 |
| EarI | CTCTTC | 9 cut(s) | 495, 693, 742, 987, 1906, 2151, 2278, 2692, 2854 |
| Ecl136II | GAGCTC | 1 cut(s) | 488 |
| Eco24I | GRGCYC | 1 cut(s) | 490 |
| Eco47I | GGWCC | 3 cut(s) | 4, 1598, 2531 |
| Eco53kI | GAGCTC | 1 cut(s) | 488 |
| Eco57I | CTGAAG | 3 cut(s) | 2325, 3278, 3290 |
| Eco88I | CYCGRG | 1 cut(s) | 1708 |
| EcoICRI | GAGCTC | 1 cut(s) | 488 |
| EcoRII | CCWGG | 1 cut(s) | 2068 |
| EcoT22I | ATGCAT | 3 cut(s) | 1234, 2517, 2702 |
| EcoT38I | GRGCYC | 1 cut(s) | 490 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 2106, 2138 |
| FaqI | GGGAC | 2 cut(s) | 1430, 1493 |
| FauNDI | CATATG | 1 cut(s) | 2517 |
| FbaI | TGATCA | 3 cut(s) | 181, 2719, 3226 |
| FblI | GTMKAC | 2 cut(s) | 1610, 2489 |
| Fnu4HI | GCNGC | 6 cut(s) | 222, 897, 1493, 3028, 3266, 3349 |
| FokI | GGATG | 5 cut(s) | 392, 1504, 1740, 1966, 3265 |
| FriOI | GRGCYC | 1 cut(s) | 490 |
| Fsp4HI | GCNGC | 6 cut(s) | 222, 897, 1493, 3028, 3266, 3349 |
| FspBI | CTAG | 6 cut(s) | 21, 498, 674, 1908, 1947, 2595 |
| GluI | GCNGC | 6 cut(s) | 222, 897, 1493, 3028, 3266, 3349 |
| GsuI | CTGGAG | 1 cut(s) | 1464 |
| HaeIII | GGCC | 1 cut(s) | 3275 |
| HapII | CCGG | 2 cut(s) | 723, 2421 |
| HgaI | GACGC | 1 cut(s) | 2340 |
| Hin1I | GRCGYC | 1 cut(s) | 2332 |
| HindIII | AAGCTT | 4 cut(s) | 273, 2441, 2548, 3290 |
| HpaII | CCGG | 2 cut(s) | 723, 2421 |
| HphI | GGTGA | 9 cut(s) | 331, 455, 863, 1535, 1928, 1973, 2033, 2374, 2620 |
| Hpy166II | GTNNAC | 6 cut(s) | 1611, 2222, 2347, 2490, 2601, 3333 |
| Hpy8I | GTNNAC | 6 cut(s) | 1611, 2222, 2347, 2490, 2601, 3333 |
| HpyCH4III | ACNGT | 3 cut(s) | 8, 702, 1098 |
| HpyF10VI | GCNNNNNNNGC | 7 cut(s) | 905, 1013, 1895, 2449, 2885, 2922, 3033 |
| Hsp92I | GRCGYC | 1 cut(s) | 2332 |
| Kpn2I | TCCGGA | 1 cut(s) | 722 |
| Ksp22I | TGATCA | 3 cut(s) | 181, 2719, 3226 |
| LguI | GCTCTTC | 2 cut(s) | 495, 693 |
| LmnI | GCTCC | 3 cut(s) | 1457, 2071, 2800 |
| Lsp1109I | GCAGC | 6 cut(s) | 208, 883, 1479, 3039, 3252, 3360 |
| LweI | GCATC | 2 cut(s) | 2623, 3064 |
| MaeI | CTAG | 6 cut(s) | 21, 498, 674, 1908, 1947, 2595 |
| MaeIII | GTNAC | 8 cut(s) | 308, 418, 1541, 2011, 2021, 2059, 2473, 3083 |
| MfeI | CAATTG | 4 cut(s) | 624, 1365, 2138, 3192 |
| MflI | RGATCY | 2 cut(s) | 538, 2521 |
| MhlI | GDGCHC | 3 cut(s) | 490, 1062, 3201 |
| MlyI | GAGTC | 9 cut(s) | 24, 599, 1040, 1246, 1859, 2103, 2143, 3102, 3182 |
| MmeI | TCCRAC | 6 cut(s) | 119, 210, 287, 590, 1008, 2509 |
| Mph1103I | ATGCAT | 3 cut(s) | 1234, 2517, 2702 |
| MroI | TCCGGA | 1 cut(s) | 722 |
| MroXI | GAANNNNTTC | 4 cut(s) | 288, 845, 1801, 3151 |
| MslI | CAYNNNNRTG | 3 cut(s) | 189, 1548, 2606 |
| MspA1I | CMGCKG | 2 cut(s) | 1769, 2004 |
| MspI | CCGG | 2 cut(s) | 723, 2421 |
| MspR9I | CCNGG | 1 cut(s) | 2070 |
| MunI | CAATTG | 4 cut(s) | 624, 1365, 2138, 3192 |
| Mva1269I | GAATGC | 1 cut(s) | 1276 |
| MvaI | CCWGG | 1 cut(s) | 2070 |
| MwoI | GCNNNNNNNGC | 7 cut(s) | 905, 1013, 1895, 2449, 2885, 2922, 3033 |
| NdeI | CATATG | 1 cut(s) | 2517 |
| NlaIV | GGNNCC | 2 cut(s) | 763, 2796 |
| NmeAIII | GCCGAG | 1 cut(s) | 2771 |
| NmuCI | GTSAC | 5 cut(s) | 1541, 2011, 2021, 2473, 3083 |
| NsiI | ATGCAT | 3 cut(s) | 1234, 2517, 2702 |
| NspI | RCATGY | 3 cut(s) | 1853, 1881, 2572 |
| OliI | CACNNNNGTG | 3 cut(s) | 189, 1548, 2606 |
| PagI | TCATGA | 2 cut(s) | 301, 1621 |
| PciI | ACATGT | 2 cut(s) | 1849, 1877 |
| PciSI | GCTCTTC | 2 cut(s) | 495, 693 |
| PctI | GAATGC | 1 cut(s) | 1276 |
| PdmI | GAANNNNTTC | 4 cut(s) | 288, 845, 1801, 3151 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 2359 |
| PinAI | ACCGGT | 1 cut(s) | 2420 |
| PkrI | GCNGC | 6 cut(s) | 223, 898, 1494, 3029, 3267, 3350 |
| Ple19I | CGATCG | 1 cut(s) | 2954 |
| PleI | GAGTC | 9 cut(s) | 23, 598, 1039, 1246, 1859, 2103, 2142, 3101, 3182 |
| PpsI | GAGTC | 9 cut(s) | 23, 598, 1039, 1246, 1859, 2103, 2142, 3101, 3182 |
| PscI | ACATGT | 2 cut(s) | 1849, 1877 |
| PshBI | ATTAAT | 1 cut(s) | 3171 |
| PsiI | TTATAA | 2 cut(s) | 921, 3138 |
| Psp124BI | GAGCTC | 1 cut(s) | 490 |
| Psp6I | CCWGG | 1 cut(s) | 2068 |
| PspGI | CCWGG | 1 cut(s) | 2068 |
| PspN4I | GGNNCC | 2 cut(s) | 763, 2796 |
| PspPI | GGNCC | 3 cut(s) | 4, 1598, 2531 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1096 |
| PsuI | RGATCY | 2 cut(s) | 538, 2521 |
| PvuI | CGATCG | 1 cut(s) | 2954 |
| RsaI | GTAC | 4 cut(s) | 1100, 2567, 3234, 3356 |
| RsaNI | GTAC | 4 cut(s) | 1099, 2566, 3233, 3355 |
| RseI | CAYNNNNRTG | 3 cut(s) | 189, 1548, 2606 |
| SacI | GAGCTC | 1 cut(s) | 490 |
| SapI | GCTCTTC | 2 cut(s) | 495, 693 |
| SatI | GCNGC | 6 cut(s) | 222, 897, 1493, 3028, 3266, 3349 |
| Sau96I | GGNCC | 3 cut(s) | 4, 1598, 2531 |
| SchI | GAGTC | 9 cut(s) | 24, 599, 1040, 1246, 1859, 2103, 2143, 3102, 3182 |
| ScrFI | CCNGG | 1 cut(s) | 2070 |
| SduI | GDGCHC | 3 cut(s) | 490, 1062, 3201 |
| SfaNI | GCATC | 2 cut(s) | 2623, 3064 |
| SfcI | CTRYAG | 2 cut(s) | 208, 3043 |
| SinI | GGWCC | 3 cut(s) | 4, 1598, 2531 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 189, 1548, 2606 |
| SmlI | CTYRAG | 3 cut(s) | 102, 534, 1341 |
| SmoI | CTYRAG | 3 cut(s) | 102, 534, 1341 |
| SsiI | CCGC | 3 cut(s) | 1767, 2004, 2807 |
| SspMI | CTAG | 6 cut(s) | 21, 498, 674, 1908, 1947, 2595 |
| SstI | GAGCTC | 1 cut(s) | 490 |
| StyD4I | CCNGG | 1 cut(s) | 2068 |
| TaaI | ACNGT | 3 cut(s) | 8, 702, 1098 |
| TaqI | TCGA | 5 cut(s) | 484, 789, 2300, 2583, 2950 |
| TatI | WGTACW | 3 cut(s) | 1098, 2565, 3354 |
| TseFI | GTSAC | 5 cut(s) | 1541, 2011, 2021, 2473, 3083 |
| TseI | GCWGC | 6 cut(s) | 221, 896, 1492, 3027, 3265, 3348 |
| Tsp45I | GTSAC | 5 cut(s) | 1541, 2011, 2021, 2473, 3083 |
| TspDTI | ATGAA | 8 cut(s) | 396, 1005, 1056, 1519, 1638, 1742, 1893, 3099 |
| TspGWI | ACGGA | 1 cut(s) | 2040 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 2359 |
| VpaK11BI | GGWCC | 3 cut(s) | 4, 1598, 2531 |
| VspI | ATTAAT | 1 cut(s) | 3171 |
| XbaI | TCTAGA | 2 cut(s) | 673, 1907 |
| XceI | RCATGY | 3 cut(s) | 1853, 1881, 2572 |
| XmiI | GTMKAC | 2 cut(s) | 1610, 2489 |
| XmnI | GAANNNNTTC | 4 cut(s) | 288, 845, 1801, 3151 |
| XspI | CTAG | 6 cut(s) | 21, 498, 674, 1908, 1947, 2595 |
| Zsp2I | ATGCAT | 3 cut(s) | 1234, 2517, 2702 |