transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Retrotran_gag_2 | PF14223 | 43 - 182 | 3.5e-20 | gag-polypeptide of LTR copia-type |
| Pol_BBD | PF22936 | 610 - 684 | 8.6e-19 | Pol polyprotein, beta-barrel domain |
| gag_pre-integrs | PF13976 | 715 - 786 | 4.6e-13 | GAG-pre-integrase domain |
| RVT_2 | PF07727 | 861 - 1013 | 2e-38 | Reverse transcriptase (RNA-dependent DNA polymerase) |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 2073 |
| AasI | GACNNNNNNGTC | 1 cut(s) | 2304 |
| Acc36I | ACCTGC | 2 cut(s) | 2073, 2104 |
| AccB1I | GGYRCC | 3 cut(s) | 2085, 2365, 2686 |
| AccB7I | CCANNNNNTGG | 1 cut(s) | 1057 |
| AccI | GTMKAC | 3 cut(s) | 451, 2834, 3416 |
| AciI | CCGC | 2 cut(s) | 1940, 2080 |
| AclWI | GGATC | 2 cut(s) | 59, 3624 |
| AcuI | CTGAAG | 3 cut(s) | 942, 3078, 3444 |
| AfaI | GTAC | 7 cut(s) | 73, 1547, 1686, 2738, 3095, 3434, 3567 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 148, 1057, 3096 |
| AflIII | ACRYGT | 1 cut(s) | 3266 |
| AjnI | CCWGG | 5 cut(s) | 67, 1196, 1972, 2507, 2614 |
| AjuI | GAANNNNNNNTTGG | 6 cut(s) | 978, 1010, 1040, 1072, 3653, 3685 |
| Alw21I | GWGCWC | 4 cut(s) | 1442, 2137, 3041, 3341 |
| Alw26I | GTCTC | 2 cut(s) | 338, 1668 |
| AlwI | GGATC | 2 cut(s) | 59, 3624 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 3242 |
| Ama87I | CYCGRG | 1 cut(s) | 1100 |
| AoxI | GGCC | 5 cut(s) | 847, 1598, 2664, 2923, 3180 |
| ApeKI | GCWGC | 7 cut(s) | 526, 857, 884, 3111, 3290, 3440, 3453 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 2810, 2842 |
| AseI | ATTAAT | 1 cut(s) | 305 |
| AspS9I | GGNCC | 4 cut(s) | 818, 2435, 2665, 3099 |
| AsuHPI | GGTGA | 4 cut(s) | 1407, 1937, 2497, 2915 |
| AvaI | CYCGRG | 1 cut(s) | 1100 |
| AvaII | GGWCC | 3 cut(s) | 818, 2435, 3099 |
| BaeGI | GKGCMC | 1 cut(s) | 2247 |
| BanI | GGYRCC | 3 cut(s) | 2085, 2365, 2686 |
| BanII | GRGCYC | 1 cut(s) | 2137 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 1131, 1163 |
| BbsI | GAAGAC | 1 cut(s) | 3066 |
| Bbv12I | GWGCWC | 4 cut(s) | 1442, 2137, 3041, 3341 |
| BbvI | GCAGC | 7 cut(s) | 513, 844, 896, 3123, 3302, 3440, 3452 |
| BccI | CCATC | 4 cut(s) | 47, 552, 1922, 2425 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 3419, 3453 |
| BciT130I | CCWGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| BciVI | GTATCC | 2 cut(s) | 1391, 1816 |
| BclI | TGATCA | 2 cut(s) | 1156, 2842 |
| BcoDI | GTCTC | 2 cut(s) | 338, 1668 |
| BfmI | CTRYAG | 7 cut(s) | 296, 348, 1148, 1175, 1283, 2194, 3078 |
| BfuAI | ACCTGC | 2 cut(s) | 2073, 2104 |
| BfuI | GTATCC | 2 cut(s) | 1391, 1816 |
| BglII | AGATCT | 1 cut(s) | 3742 |
| BisI | GCNGC | 8 cut(s) | 527, 858, 885, 2080, 3112, 3291, 3441, 3454 |
| BlpI | GCTNAGC | 1 cut(s) | 1331 |
| BlsI | GCNGC | 8 cut(s) | 528, 859, 886, 2081, 3113, 3292, 3442, 3455 |
| BmcAI | AGTACT | 1 cut(s) | 3567 |
| Bme1390I | CCNGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| Bme18I | GGWCC | 3 cut(s) | 818, 2435, 3099 |
| BmeT110I | CYCGRG | 1 cut(s) | 1100 |
| BmgT120I | GGNCC | 4 cut(s) | 818, 2435, 2665, 3099 |
| BmiI | GGNNCC | 6 cut(s) | 642, 1049, 2087, 2367, 2436, 2688 |
| BmrFI | CCNGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| BmrI | ACTGGG | 1 cut(s) | 3319 |
| BmsI | GCATC | 4 cut(s) | 183, 1927, 3292, 3471 |
| BmuI | ACTGGG | 1 cut(s) | 3319 |
| BpiI | GAAGAC | 1 cut(s) | 3066 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 3306, 3338, 3712, 3744 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 1331 |
| BpuEI | CTTGAG | 2 cut(s) | 1064, 2121 |
| BsaJI | CCNNGG | 5 cut(s) | 129, 1455, 2361, 2508, 3505 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 87, 117, 2582, 2612 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 148, 1057, 3096 |
| Bse3DI | GCAATG | 1 cut(s) | 3435 |
| BseBI | CCWGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| BseDI | CCNNGG | 5 cut(s) | 129, 1455, 2361, 2508, 3505 |
| BseGI | GGATG | 5 cut(s) | 58, 1617, 2068, 2218, 2291 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 148, 1057, 3096 |
| BseMI | GCAATG | 1 cut(s) | 3435 |
| BseRI | GAGGAG | 2 cut(s) | 146, 935 |
| BseSI | GKGCMC | 1 cut(s) | 2247 |
| BseXI | GCAGC | 7 cut(s) | 513, 844, 896, 3123, 3302, 3440, 3452 |
| BsgI | GTGCAG | 2 cut(s) | 3439, 3554 |
| BshFI | GGCC | 5 cut(s) | 849, 1600, 2666, 2925, 3182 |
| BshNI | GGYRCC | 3 cut(s) | 2085, 2365, 2686 |
| BsiHKAI | GWGCWC | 4 cut(s) | 1442, 2137, 3041, 3341 |
| BsiHKCI | CYCGRG | 1 cut(s) | 1100 |
| BslFI | GGGAC | 5 cut(s) | 775, 1972, 2310, 2448, 3181 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 148, 1057, 3096 |
| BsmAI | GTCTC | 2 cut(s) | 338, 1668 |
| BsmFI | GGGAC | 5 cut(s) | 775, 1972, 2310, 2448, 3181 |
| BsmI | GAATGC | 3 cut(s) | 932, 1983, 3735 |
| BsnI | GGCC | 5 cut(s) | 849, 1600, 2666, 2925, 3182 |
| BsoBI | CYCGRG | 1 cut(s) | 1100 |
| Bsp1286I | GDGCHC | 5 cut(s) | 1442, 2137, 2247, 3041, 3341 |
| Bsp1407I | TGTACA | 1 cut(s) | 3093 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 1331 |
| Bsp19I | CCATGG | 1 cut(s) | 1455 |
| BspACI | CCGC | 2 cut(s) | 1940, 2080 |
| BspANI | GGCC | 5 cut(s) | 849, 1600, 2666, 2925, 3182 |
| BspHI | TCATGA | 1 cut(s) | 690 |
| BspLI | GGNNCC | 6 cut(s) | 642, 1049, 2087, 2367, 2436, 2688 |
| BspMAI | CTGCAG | 1 cut(s) | 1179 |
| BspMI | ACCTGC | 2 cut(s) | 2073, 2104 |
| BspPI | GGATC | 2 cut(s) | 59, 3624 |
| BspQI | GCTCTTC | 2 cut(s) | 961, 1430 |
| BspT107I | GGYRCC | 3 cut(s) | 2085, 2365, 2686 |
| BsrDI | GCAATG | 1 cut(s) | 3435 |
| BsrGI | TGTACA | 1 cut(s) | 3093 |
| BssECI | CCNNGG | 5 cut(s) | 129, 1455, 2361, 2508, 3505 |
| BssT1I | CCWWGG | 3 cut(s) | 1455, 2361, 3505 |
| Bst2UI | CCWGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| Bst6I | CTCTTC | 6 cut(s) | 630, 961, 1059, 1430, 1458, 3011 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 3242, 3287 |
| BstAUI | TGTACA | 1 cut(s) | 3093 |
| BstC8I | GCNNGC | 4 cut(s) | 1175, 1359, 2927, 3133 |
| BstDSI | CCRYGG | 1 cut(s) | 1455 |
| BstENI | CCTNNNNNAGG | 2 cut(s) | 146, 3094 |
| BstF5I | GGATG | 5 cut(s) | 58, 1617, 2068, 2218, 2291 |
| BstMAI | GTCTC | 2 cut(s) | 338, 1668 |
| BstMWI | GCNNNNNNNGC | 9 cut(s) | 236, 611, 1327, 1799, 2085, 2384, 2693, 3242, 3287 |
| BstNI | CCWGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| BstNSI | RCATGY | 3 cut(s) | 2180, 2956, 3270 |
| BstSCI | CCNGG | 5 cut(s) | 67, 1196, 1972, 2507, 2614 |
| BstSFI | CTRYAG | 7 cut(s) | 296, 348, 1148, 1175, 1283, 2194, 3078 |
| BstSLI | GKGCMC | 1 cut(s) | 2247 |
| BstV1I | GCAGC | 7 cut(s) | 513, 844, 896, 3123, 3302, 3440, 3452 |
| BstV2I | GAAGAC | 1 cut(s) | 3066 |
| BstX2I | RGATCY | 3 cut(s) | 64, 3616, 3742 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 601 |
| BstYI | RGATCY | 3 cut(s) | 64, 3616, 3742 |
| BsuI | GTATCC | 2 cut(s) | 1391, 1816 |
| BsuRI | GGCC | 5 cut(s) | 849, 1600, 2666, 2925, 3182 |
| BtgI | CCRYGG | 1 cut(s) | 1455 |
| BtgZI | GCGATG | 1 cut(s) | 2782 |
| BtsCI | GGATG | 5 cut(s) | 58, 1617, 2068, 2218, 2291 |
| BtsI | GCAGTG | 1 cut(s) | 169 |
| BveI | ACCTGC | 2 cut(s) | 2073, 2104 |
| Cac8I | GCNNGC | 4 cut(s) | 1175, 1359, 2927, 3133 |
| CaiI | CAGNNNCTG | 1 cut(s) | 3242 |
| CciI | TCATGA | 1 cut(s) | 690 |
| Cfr13I | GGNCC | 4 cut(s) | 818, 2435, 2665, 3099 |
| CseI | GACGC | 1 cut(s) | 1014 |
| Csp6I | GTAC | 7 cut(s) | 72, 1546, 1685, 2737, 3094, 3433, 3566 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 3449, 3484 |
| CviQI | GTAC | 7 cut(s) | 72, 1546, 1685, 2737, 3094, 3433, 3566 |
| DraI | TTTAAA | 5 cut(s) | 375, 796, 1021, 1242, 1251 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 2304 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 2304 |
| Eam1104I | CTCTTC | 6 cut(s) | 630, 961, 1059, 1430, 1458, 3011 |
| EarI | CTCTTC | 6 cut(s) | 630, 961, 1059, 1430, 1458, 3011 |
| Ecl136II | GAGCTC | 1 cut(s) | 2135 |
| Eco130I | CCWWGG | 3 cut(s) | 1455, 2361, 3505 |
| Eco147I | AGGCCT | 1 cut(s) | 1600 |
| Eco24I | GRGCYC | 1 cut(s) | 2137 |
| Eco32I | GATATC | 2 cut(s) | 1001, 3602 |
| Eco47I | GGWCC | 3 cut(s) | 818, 2435, 3099 |
| Eco53kI | GAGCTC | 1 cut(s) | 2135 |
| Eco57I | CTGAAG | 3 cut(s) | 942, 3078, 3444 |
| Eco88I | CYCGRG | 1 cut(s) | 1100 |
| EcoICRI | GAGCTC | 1 cut(s) | 2135 |
| EcoNI | CCTNNNNNAGG | 2 cut(s) | 146, 3094 |
| EcoO109I | RGGNCCY | 2 cut(s) | 2435, 2665 |
| EcoRI | GAATTC | 3 cut(s) | 411, 1213, 2516 |
| EcoRII | CCWGG | 5 cut(s) | 67, 1196, 1972, 2507, 2614 |
| EcoRV | GATATC | 2 cut(s) | 1001, 3602 |
| EcoT14I | CCWWGG | 3 cut(s) | 1455, 2361, 3505 |
| EcoT38I | GRGCYC | 1 cut(s) | 2137 |
| ErhI | CCWWGG | 3 cut(s) | 1455, 2361, 3505 |
| FaqI | GGGAC | 5 cut(s) | 775, 1972, 2310, 2448, 3181 |
| FauNDI | CATATG | 2 cut(s) | 1353, 1857 |
| FbaI | TGATCA | 2 cut(s) | 1156, 2842 |
| FblI | GTMKAC | 3 cut(s) | 451, 2834, 3416 |
| Fnu4HI | GCNGC | 8 cut(s) | 527, 858, 885, 2080, 3112, 3291, 3441, 3454 |
| FokI | GGATG | 5 cut(s) | 65, 1624, 2075, 2225, 2298 |
| FriOI | GRGCYC | 1 cut(s) | 2137 |
| Fsp4HI | GCNGC | 8 cut(s) | 527, 858, 885, 2080, 3112, 3291, 3441, 3454 |
| GluI | GCNGC | 8 cut(s) | 527, 858, 885, 2080, 3112, 3291, 3441, 3454 |
| HaeIII | GGCC | 5 cut(s) | 849, 1600, 2666, 2925, 3182 |
| HgaI | GACGC | 1 cut(s) | 1014 |
| HincII | GTYRAC | 4 cut(s) | 1411, 2042, 2755, 3516 |
| HindII | GTYRAC | 4 cut(s) | 1411, 2042, 2755, 3516 |
| HindIII | AAGCTT | 1 cut(s) | 612 |
| HpaI | GTTAAC | 1 cut(s) | 3516 |
| HphI | GGTGA | 4 cut(s) | 1407, 1937, 2497, 2915 |
| HpyCH4IV | ACGT | 2 cut(s) | 202, 1401 |
| HpyF10VI | GCNNNNNNNGC | 9 cut(s) | 236, 611, 1327, 1799, 2085, 2384, 2693, 3242, 3287 |
| HpySE526I | ACGT | 2 cut(s) | 202, 1401 |
| Ksp22I | TGATCA | 2 cut(s) | 1156, 2842 |
| KspAI | GTTAAC | 1 cut(s) | 3516 |
| LguI | GCTCTTC | 2 cut(s) | 961, 1430 |
| LmnI | GCTCC | 2 cut(s) | 1302, 2875 |
| Lsp1109I | GCAGC | 7 cut(s) | 513, 844, 896, 3123, 3302, 3440, 3452 |
| LweI | GCATC | 4 cut(s) | 183, 1927, 3292, 3471 |
| MaeII | ACGT | 2 cut(s) | 202, 1401 |
| MaeIII | GTNAC | 6 cut(s) | 1231, 1900, 1915, 2189, 2712, 3043 |
| MfeI | CAATTG | 1 cut(s) | 2143 |
| MflI | RGATCY | 3 cut(s) | 64, 3616, 3742 |
| MhlI | GDGCHC | 5 cut(s) | 1442, 2137, 2247, 3041, 3341 |
| MlyI | GAGTC | 5 cut(s) | 962, 1112, 1406, 1766, 3203 |
| MmeI | TCCRAC | 2 cut(s) | 845, 1384 |
| MslI | CAYNNNNRTG | 2 cut(s) | 1575, 3461 |
| MspA1I | CMGCKG | 1 cut(s) | 3443 |
| MspR9I | CCNGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| MssI | GTTTAAAC | 1 cut(s) | 796 |
| MunI | CAATTG | 1 cut(s) | 2143 |
| Mva1269I | GAATGC | 3 cut(s) | 932, 1983, 3735 |
| MvaI | CCWGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| MwoI | GCNNNNNNNGC | 9 cut(s) | 236, 611, 1327, 1799, 2085, 2384, 2693, 3242, 3287 |
| NcoI | CCATGG | 1 cut(s) | 1455 |
| NdeI | CATATG | 2 cut(s) | 1353, 1857 |
| NlaIV | GGNNCC | 6 cut(s) | 642, 1049, 2087, 2367, 2436, 2688 |
| NmeAIII | GCCGAG | 2 cut(s) | 154, 3454 |
| NmuCI | GTSAC | 2 cut(s) | 2712, 3043 |
| NspI | RCATGY | 3 cut(s) | 2180, 2956, 3270 |
| PaeR7I | CTCGAG | 1 cut(s) | 1100 |
| PagI | TCATGA | 1 cut(s) | 690 |
| PaqCI | CACCTGC | 1 cut(s) | 2073 |
| PceI | AGGCCT | 1 cut(s) | 1600 |
| PciI | ACATGT | 1 cut(s) | 3266 |
| PciSI | GCTCTTC | 2 cut(s) | 961, 1430 |
| PctI | GAATGC | 3 cut(s) | 932, 1983, 3735 |
| PflMI | CCANNNNNTGG | 1 cut(s) | 1057 |
| PfoI | TCCNGGA | 2 cut(s) | 1196, 1972 |
| PkrI | GCNGC | 8 cut(s) | 528, 859, 886, 2081, 3113, 3292, 3442, 3455 |
| PleI | GAGTC | 5 cut(s) | 962, 1111, 1406, 1766, 3202 |
| PmeI | GTTTAAAC | 1 cut(s) | 796 |
| PpsI | GAGTC | 5 cut(s) | 962, 1111, 1406, 1766, 3202 |
| PpuMI | RGGWCCY | 1 cut(s) | 2435 |
| PscI | ACATGT | 1 cut(s) | 3266 |
| PshBI | ATTAAT | 1 cut(s) | 305 |
| Psp124BI | GAGCTC | 1 cut(s) | 2137 |
| Psp5II | RGGWCCY | 1 cut(s) | 2435 |
| Psp6I | CCWGG | 5 cut(s) | 67, 1196, 1972, 2507, 2614 |
| PspGI | CCWGG | 5 cut(s) | 67, 1196, 1972, 2507, 2614 |
| PspN4I | GGNNCC | 6 cut(s) | 642, 1049, 2087, 2367, 2436, 2688 |
| PspPI | GGNCC | 4 cut(s) | 818, 2435, 2665, 3099 |
| PspPPI | RGGWCCY | 1 cut(s) | 2435 |
| PstI | CTGCAG | 1 cut(s) | 1179 |
| PstNI | CAGNNNCTG | 1 cut(s) | 3242 |
| PsuI | RGATCY | 3 cut(s) | 64, 3616, 3742 |
| PvuII | CAGCTG | 1 cut(s) | 3443 |
| RsaI | GTAC | 7 cut(s) | 73, 1547, 1686, 2738, 3095, 3434, 3567 |
| RsaNI | GTAC | 7 cut(s) | 72, 1546, 1685, 2737, 3094, 3433, 3566 |
| RseI | CAYNNNNRTG | 2 cut(s) | 1575, 3461 |
| SacI | GAGCTC | 1 cut(s) | 2137 |
| SapI | GCTCTTC | 2 cut(s) | 961, 1430 |
| SatI | GCNGC | 8 cut(s) | 527, 858, 885, 2080, 3112, 3291, 3441, 3454 |
| Sau96I | GGNCC | 4 cut(s) | 818, 2435, 2665, 3099 |
| ScaI | AGTACT | 1 cut(s) | 3567 |
| SchI | GAGTC | 5 cut(s) | 962, 1112, 1406, 1766, 3203 |
| ScrFI | CCNGG | 5 cut(s) | 69, 1198, 1974, 2509, 2616 |
| SduI | GDGCHC | 5 cut(s) | 1442, 2137, 2247, 3041, 3341 |
| SfaNI | GCATC | 4 cut(s) | 183, 1927, 3292, 3471 |
| SfcI | CTRYAG | 7 cut(s) | 296, 348, 1148, 1175, 1283, 2194, 3078 |
| Sfr274I | CTCGAG | 1 cut(s) | 1100 |
| SinI | GGWCC | 3 cut(s) | 818, 2435, 3099 |
| SlaI | CTCGAG | 1 cut(s) | 1100 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 1575, 3461 |
| SmlI | CTYRAG | 3 cut(s) | 1079, 1100, 2136 |
| SmoI | CTYRAG | 3 cut(s) | 1079, 1100, 2136 |
| SseBI | AGGCCT | 1 cut(s) | 1600 |
| SsiI | CCGC | 2 cut(s) | 1940, 2080 |
| SspI | AATATT | 1 cut(s) | 1183 |
| SstI | GAGCTC | 1 cut(s) | 2137 |
| StuI | AGGCCT | 1 cut(s) | 1600 |
| StyD4I | CCNGG | 5 cut(s) | 67, 1196, 1972, 2507, 2614 |
| StyI | CCWWGG | 3 cut(s) | 1455, 2361, 3505 |
| TaiI | ACGT | 2 cut(s) | 205, 1404 |
| TaqI | TCGA | 6 cut(s) | 1101, 1206, 1317, 2131, 2409, 3226 |
| TatI | WGTACW | 5 cut(s) | 1545, 1684, 3093, 3432, 3565 |
| TauI | GCSGC | 1 cut(s) | 2082 |
| TseFI | GTSAC | 2 cut(s) | 2712, 3043 |
| TseI | GCWGC | 7 cut(s) | 526, 857, 884, 3111, 3290, 3440, 3453 |
| Tsp45I | GTSAC | 2 cut(s) | 2712, 3043 |
| Van91I | CCANNNNNTGG | 1 cut(s) | 1057 |
| VpaK11BI | GGWCC | 3 cut(s) | 818, 2435, 3099 |
| VspI | ATTAAT | 1 cut(s) | 305 |
| XagI | CCTNNNNNAGG | 2 cut(s) | 146, 3094 |
| XbaI | TCTAGA | 4 cut(s) | 652, 731, 2498, 2741 |
| XceI | RCATGY | 3 cut(s) | 2180, 2956, 3270 |
| XhoI | CTCGAG | 1 cut(s) | 1100 |
| XmiI | GTMKAC | 3 cut(s) | 451, 2834, 3416 |
| ZrmI | AGTACT | 1 cut(s) | 3567 |