transposition, RNA-mediated
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Ty3_capsid | PF19259 | 76 - 238 | 4.5e-13 | Ty3 transposon capsid-like protein |
| Retrotrans_gag | PF03732 | 115 - 210 | 2e-17 | Retrotransposon gag protein |
| RVP_2 | PF08284 | 358 - 460 | 3.5e-06 | Retroviral aspartyl protease |
| Asp_protease_2 | PF13650 | 359 - 446 | 5.2e-11 | Aspartyl protease |
| gag-asp_proteas | PF13975 | 359 - 446 | 9.5e-11 | gag-polyprotein putative aspartyl protease |
| RVT_1 | PF00078 | 604 - 763 | 8.5e-42 | Reverse transcriptase (RNA-dependent DNA polymerase) |
| RT_RNaseH_2 | PF17919 | 826 - 920 | 4.6e-35 | RNase H-like domain found in reverse transcriptase |
| RT_RNaseH | PF17917 | 851 - 950 | 1.4e-34 | RNase H-like domain found in reverse transcriptase |
| Integrase_H2C2 | PF17921 | 1036 - 1090 | 4.8e-22 | Integrase zinc binding domain |
| rve | PF00665 | 1107 - 1205 | 3e-07 | Integrase core domain |
| SH3_Tf2-1 | PF24626 | 1323 - 1386 | 7.3e-19 | Tf2-1-like, SH3 domain |
| Chromo | PF00385 | 1412 - 1465 | 2e-10 | Chromo (CHRromatin Organisation MOdifier) domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 1766 |
| AasI | GACNNNNNNGTC | 3 cut(s) | 1085, 1532, 3272 |
| AatII | GACGTC | 1 cut(s) | 655 |
| Acc16I | TGCGCA | 2 cut(s) | 1976, 2256 |
| Acc36I | ACCTGC | 1 cut(s) | 3672 |
| AccB1I | GGYRCC | 6 cut(s) | 1414, 1600, 1705, 1790, 2625, 4201 |
| AccB7I | CCANNNNNTGG | 3 cut(s) | 378, 2167, 3487 |
| AccI | GTMKAC | 4 cut(s) | 1077, 1644, 2480, 4239 |
| AccIII | TCCGGA | 1 cut(s) | 3316 |
| AclWI | GGATC | 5 cut(s) | 300, 1032, 1882, 2984, 3296 |
| AcoI | YGGCCR | 5 cut(s) | 690, 1569, 2892, 3154, 3206 |
| AcsI | RAATTY | 2 cut(s) | 1334, 2033 |
| AcuI | CTGAAG | 1 cut(s) | 4368 |
| AcvI | CACGTG | 2 cut(s) | 3952, 4138 |
| AcyI | GRCGYC | 7 cut(s) | 330, 597, 652, 696, 1706, 1791, 2898 |
| AdeI | CACNNNGTG | 3 cut(s) | 1383, 3487, 3676 |
| AfeI | AGCGCT | 1 cut(s) | 4385 |
| AflII | CTTAAG | 4 cut(s) | 455, 812, 3109, 4115 |
| AflIII | ACRYGT | 1 cut(s) | 3245 |
| AhlI | ACTAGT | 1 cut(s) | 4033 |
| AjnI | CCWGG | 1 cut(s) | 3160 |
| AleI | CACNNNNGTG | 1 cut(s) | 2357 |
| Alw21I | GWGCWC | 8 cut(s) | 422, 530, 570, 1003, 2249, 3660, 3876, 4026 |
| Alw26I | GTCTC | 8 cut(s) | 626, 771, 1286, 1983, 2654, 3316, 3343, 3525 |
| Alw44I | GTGCAC | 3 cut(s) | 418, 999, 4022 |
| AlwI | GGATC | 5 cut(s) | 300, 1032, 1882, 2984, 3296 |
| Ama87I | CYCGRG | 5 cut(s) | 473, 820, 1242, 3050, 3888 |
| Aor13HI | TCCGGA | 1 cut(s) | 3316 |
| Aor51HI | AGCGCT | 1 cut(s) | 4385 |
| ApaLI | GTGCAC | 3 cut(s) | 418, 999, 4022 |
| ApeKI | GCWGC | 8 cut(s) | 197, 347, 1066, 1624, 2945, 3434, 3790, 3908 |
| ApoI | RAATTY | 2 cut(s) | 1334, 2033 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 221, 253 |
| Asp700I | GAANNNNTTC | 1 cut(s) | 2564 |
| AspA2I | CCTAGG | 1 cut(s) | 1324 |
| AspS9I | GGNCC | 8 cut(s) | 179, 905, 1671, 2206, 2430, 2979, 3699, 4052 |
| AsuC2I | CCSGG | 6 cut(s) | 1668, 1796, 1850, 2874, 3288, 4199 |
| AsuHPI | GGTGA | 7 cut(s) | 352, 983, 1206, 1219, 1876, 1882, 1930 |
| AsuII | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| AsuNHI | GCTAGC | 3 cut(s) | 2920, 2948, 3811 |
| AvaI | CYCGRG | 5 cut(s) | 473, 820, 1242, 3050, 3888 |
| AvaII | GGWCC | 3 cut(s) | 179, 2206, 2979 |
| AvrII | CCTAGG | 1 cut(s) | 1324 |
| AxyI | CCTNAGG | 2 cut(s) | 2717, 4013 |
| BaeGI | GKGCMC | 7 cut(s) | 422, 1003, 1855, 2283, 2628, 4026, 4204 |
| BalI | TGGCCA | 2 cut(s) | 3156, 3208 |
| BanI | GGYRCC | 6 cut(s) | 1414, 1600, 1705, 1790, 2625, 4201 |
| BanII | GRGCYC | 4 cut(s) | 502, 1196, 3660, 3839 |
| BarI | GAAGNNNNNNTAC | 4 cut(s) | 1865, 1897, 3410, 3442 |
| BauI | CACGAG | 5 cut(s) | 92, 187, 261, 1547, 3869 |
| BbrPI | CACGTG | 2 cut(s) | 3952, 4138 |
| BbsI | GAAGAC | 6 cut(s) | 497, 1055, 3038, 4123, 4179, 4356 |
| Bbv12I | GWGCWC | 8 cut(s) | 422, 530, 570, 1003, 2249, 3660, 3876, 4026 |
| BbvI | GCAGC | 8 cut(s) | 184, 359, 1053, 1611, 2932, 3421, 3802, 3895 |
| BceAI | ACGGC | 6 cut(s) | 293, 527, 2504, 3803, 4039, 4224 |
| BcgI | CGANNNNNNTGC | 8 cut(s) | 153, 187, 1048, 1082, 1220, 1254, 4232, 4266 |
| BciT130I | CCWGG | 1 cut(s) | 3162 |
| BciVI | GTATCC | 1 cut(s) | 1955 |
| BclI | TGATCA | 3 cut(s) | 2757, 3018, 3123 |
| BcnI | CCSGG | 6 cut(s) | 1668, 1796, 1850, 2874, 3288, 4199 |
| BcoDI | GTCTC | 8 cut(s) | 626, 771, 1286, 1983, 2654, 3316, 3343, 3525 |
| BcuI | ACTAGT | 1 cut(s) | 4033 |
| BfaI | CTAG | 9 cut(s) | 1325, 1919, 2387, 2540, 2921, 2949, 3812, 4034, 4423 |
| BfoI | RGCGCY | 7 cut(s) | 114, 681, 1695, 1709, 1794, 2674, 4387 |
| BfrI | CTTAAG | 4 cut(s) | 455, 812, 3109, 4115 |
| BfuAI | ACCTGC | 1 cut(s) | 3672 |
| BfuI | GTATCC | 1 cut(s) | 1955 |
| BglII | AGATCT | 2 cut(s) | 2097, 2372 |
| BlnI | CCTAGG | 1 cut(s) | 1324 |
| BlpI | GCTNAGC | 1 cut(s) | 1256 |
| Bme1390I | CCNGG | 7 cut(s) | 1668, 1796, 1850, 2874, 3162, 3288, 4199 |
| Bme18I | GGWCC | 3 cut(s) | 179, 2206, 2979 |
| BmeT110I | CYCGRG | 5 cut(s) | 473, 820, 1242, 3050, 3888 |
| BmgT120I | GGNCC | 8 cut(s) | 179, 905, 1671, 2206, 2430, 2979, 3699, 4052 |
| BmrFI | CCNGG | 7 cut(s) | 1668, 1796, 1850, 2874, 3162, 3288, 4199 |
| BmrI | ACTGGG | 1 cut(s) | 3706 |
| BmtI | GCTAGC | 3 cut(s) | 2924, 2952, 3815 |
| BmuI | ACTGGG | 1 cut(s) | 3706 |
| BoxI | GACNNNNGTC | 1 cut(s) | 4211 |
| BpiI | GAAGAC | 6 cut(s) | 497, 1055, 3038, 4123, 4179, 4356 |
| BplI | GAGNNNNNCTC | 8 cut(s) | 334, 366, 1098, 1130, 2231, 2263, 3323, 3355 |
| Bpu10I | CCTNAGC | 1 cut(s) | 2903 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 1256 |
| Bpu14I | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| BpuEI | CTTGAG | 5 cut(s) | 500, 1499, 2209, 2438, 4165 |
| BpuMI | CCSGG | 6 cut(s) | 1668, 1796, 1850, 2874, 3288, 4199 |
| Bsa29I | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| BsaAI | YACGTR | 4 cut(s) | 417, 3238, 3952, 4138 |
| BsaHI | GRCGYC | 7 cut(s) | 330, 597, 652, 696, 1706, 1791, 2898 |
| BsaI | GGTCTC | 4 cut(s) | 626, 2654, 3316, 3525 |
| BsaWI | WCCGGW | 2 cut(s) | 3316, 4126 |
| BsaXI | ACNNNNNCTCC | 6 cut(s) | 1264, 1294, 1391, 1421, 3311, 3341 |
| Bse1I | ACTGG | 1 cut(s) | 3701 |
| Bse21I | CCTNAGG | 2 cut(s) | 2717, 4013 |
| Bse3DI | GCAATG | 4 cut(s) | 1000, 1189, 2710, 3009 |
| BseAI | TCCGGA | 1 cut(s) | 3316 |
| BseBI | CCWGG | 1 cut(s) | 3162 |
| BseCI | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| BseMI | GCAATG | 4 cut(s) | 1000, 1189, 2710, 3009 |
| BseMII | CTCAG | 1 cut(s) | 3363 |
| BseNI | ACTGG | 1 cut(s) | 3701 |
| BsePI | GCGCGC | 1 cut(s) | 1928 |
| BseRI | GAGGAG | 9 cut(s) | 47, 68, 143, 338, 812, 1260, 2619, 3245, 3958 |
| BseSI | GKGCMC | 7 cut(s) | 422, 1003, 1855, 2283, 2628, 4026, 4204 |
| BseX3I | CGGCCG | 1 cut(s) | 690 |
| BseXI | GCAGC | 8 cut(s) | 184, 359, 1053, 1611, 2932, 3421, 3802, 3895 |
| Bsh1285I | CGRYCG | 6 cut(s) | 693, 875, 1296, 2119, 3529, 4215 |
| BshNI | GGYRCC | 6 cut(s) | 1414, 1600, 1705, 1790, 2625, 4201 |
| BshVI | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| BsiEI | CGRYCG | 6 cut(s) | 693, 875, 1296, 2119, 3529, 4215 |
| BsiHKAI | GWGCWC | 8 cut(s) | 422, 530, 570, 1003, 2249, 3660, 3876, 4026 |
| BsiHKCI | CYCGRG | 5 cut(s) | 473, 820, 1242, 3050, 3888 |
| BsiSI | CCGG | 8 cut(s) | 1667, 1796, 1849, 2873, 3287, 3317, 4127, 4198 |
| BslFI | GGGAC | 6 cut(s) | 1520, 2796, 2992, 3595, 3798, 3994 |
| BsmAI | GTCTC | 8 cut(s) | 626, 771, 1286, 1983, 2654, 3316, 3343, 3525 |
| BsmBI | CGTCTC | 1 cut(s) | 1983 |
| BsmFI | GGGAC | 6 cut(s) | 1520, 2796, 2992, 3595, 3798, 3994 |
| BsmI | GAATGC | 3 cut(s) | 484, 2321, 3845 |
| Bso31I | GGTCTC | 4 cut(s) | 626, 2654, 3316, 3525 |
| BsoBI | CYCGRG | 5 cut(s) | 473, 820, 1242, 3050, 3888 |
| Bsp119I | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| Bsp13I | TCCGGA | 1 cut(s) | 3316 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 1256 |
| Bsp19I | CCATGG | 2 cut(s) | 201, 629 |
| Bsp68I | TCGCGA | 5 cut(s) | 51, 74, 1433, 4404, 4418 |
| BspCNI | CTCAG | 1 cut(s) | 3364 |
| BspDI | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| BspEI | TCCGGA | 1 cut(s) | 3316 |
| BspHI | TCATGA | 3 cut(s) | 2304, 2760, 3136 |
| BspMI | ACCTGC | 1 cut(s) | 3672 |
| BspOI | GCTAGC | 3 cut(s) | 2924, 2952, 3815 |
| BspPI | GGATC | 5 cut(s) | 300, 1032, 1882, 2984, 3296 |
| BspQI | GCTCTTC | 1 cut(s) | 3827 |
| BspT104I | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| BspT107I | GGYRCC | 6 cut(s) | 1414, 1600, 1705, 1790, 2625, 4201 |
| BspTI | CTTAAG | 4 cut(s) | 455, 812, 3109, 4115 |
| BspTNI | GGTCTC | 4 cut(s) | 626, 2654, 3316, 3525 |
| BsrDI | GCAATG | 4 cut(s) | 1000, 1189, 2710, 3009 |
| BsrI | ACTGG | 1 cut(s) | 3701 |
| BssHII | GCGCGC | 1 cut(s) | 1928 |
| BssNI | GRCGYC | 7 cut(s) | 330, 597, 652, 696, 1706, 1791, 2898 |
| BssSI | CACGAG | 5 cut(s) | 92, 187, 261, 1547, 3869 |
| Bst2BI | CACGAG | 5 cut(s) | 92, 187, 261, 1547, 3869 |
| Bst2UI | CCWGG | 1 cut(s) | 3162 |
| Bst4CI | ACNGT | 4 cut(s) | 1870, 2680, 3327, 3567 |
| Bst6I | CTCTTC | 4 cut(s) | 1913, 3827, 3935, 4267 |
| BstACI | GRCGYC | 7 cut(s) | 330, 597, 652, 696, 1706, 1791, 2898 |
| BstAFI | CTTAAG | 4 cut(s) | 455, 812, 3109, 4115 |
| BstBAI | YACGTR | 4 cut(s) | 417, 3238, 3952, 4138 |
| BstBI | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| BstDSI | CCRYGG | 5 cut(s) | 201, 309, 629, 687, 3326 |
| BstENI | CCTNNNNNAGG | 2 cut(s) | 1547, 4016 |
| BstH2I | RGCGCY | 7 cut(s) | 114, 681, 1695, 1709, 1794, 2674, 4387 |
| BstMAI | GTCTC | 8 cut(s) | 626, 771, 1286, 1983, 2654, 3316, 3343, 3525 |
| BstMCI | CGRYCG | 6 cut(s) | 693, 875, 1296, 2119, 3529, 4215 |
| BstNI | CCWGG | 1 cut(s) | 3162 |
| BstNSI | RCATGY | 3 cut(s) | 1928, 3249, 4147 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 4211 |
| BstSCI | CCNGG | 7 cut(s) | 1666, 1794, 1848, 2872, 3160, 3286, 4197 |
| BstSLI | GKGCMC | 7 cut(s) | 422, 1003, 1855, 2283, 2628, 4026, 4204 |
| BstV1I | GCAGC | 8 cut(s) | 184, 359, 1053, 1611, 2932, 3421, 3802, 3895 |
| BstV2I | GAAGAC | 6 cut(s) | 497, 1055, 3038, 4123, 4179, 4356 |
| BstX2I | RGATCY | 2 cut(s) | 2097, 2372 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1091 |
| BstYI | RGATCY | 2 cut(s) | 2097, 2372 |
| BstZI | CGGCCG | 1 cut(s) | 690 |
| Bsu15I | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| Bsu36I | CCTNAGG | 2 cut(s) | 2717, 4013 |
| BsuI | GTATCC | 1 cut(s) | 1955 |
| BsuTUI | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| BtgI | CCRYGG | 5 cut(s) | 201, 309, 629, 687, 3326 |
| BtgZI | GCGATG | 6 cut(s) | 301, 1475, 1882, 3029, 4399, 4419 |
| BtuMI | TCGCGA | 5 cut(s) | 51, 74, 1433, 4404, 4418 |
| BveI | ACCTGC | 1 cut(s) | 3672 |
| CciI | TCATGA | 3 cut(s) | 2304, 2760, 3136 |
| Cfr13I | GGNCC | 8 cut(s) | 179, 905, 1671, 2206, 2430, 2979, 3699, 4052 |
| Cfr42I | CCGCGG | 1 cut(s) | 690 |
| ClaI | ATCGAT | 3 cut(s) | 1361, 1752, 3406 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 1548, 1583 |
| DinI | GGCGCC | 2 cut(s) | 1707, 1792 |
| DraIII | CACNNNGTG | 3 cut(s) | 1383, 3487, 3676 |
| DrdI | GACNNNNNNGTC | 3 cut(s) | 1085, 1532, 3272 |
| DseDI | GACNNNNNNGTC | 3 cut(s) | 1085, 1532, 3272 |
| EaeI | YGGCCR | 5 cut(s) | 690, 1569, 2892, 3154, 3206 |
| EagI | CGGCCG | 1 cut(s) | 690 |
| Eam1104I | CTCTTC | 4 cut(s) | 1913, 3827, 3935, 4267 |
| EarI | CTCTTC | 4 cut(s) | 1913, 3827, 3935, 4267 |
| EciI | GGCGGA | 3 cut(s) | 2930, 3947, 4095 |
| Ecl136II | GAGCTC | 1 cut(s) | 3658 |
| EclXI | CGGCCG | 1 cut(s) | 690 |
| Eco147I | AGGCCT | 2 cut(s) | 818, 1771 |
| Eco24I | GRGCYC | 4 cut(s) | 502, 1196, 3660, 3839 |
| Eco31I | GGTCTC | 4 cut(s) | 626, 2654, 3316, 3525 |
| Eco47I | GGWCC | 3 cut(s) | 179, 2206, 2979 |
| Eco47III | AGCGCT | 1 cut(s) | 4385 |
| Eco52I | CGGCCG | 1 cut(s) | 690 |
| Eco53kI | GAGCTC | 1 cut(s) | 3658 |
| Eco57I | CTGAAG | 1 cut(s) | 4368 |
| Eco72I | CACGTG | 2 cut(s) | 3952, 4138 |
| Eco81I | CCTNAGG | 2 cut(s) | 2717, 4013 |
| Eco88I | CYCGRG | 5 cut(s) | 473, 820, 1242, 3050, 3888 |
| EcoICRI | GAGCTC | 1 cut(s) | 3658 |
| EcoNI | CCTNNNNNAGG | 2 cut(s) | 1547, 4016 |
| EcoO109I | RGGNCCY | 1 cut(s) | 2206 |
| EcoRI | GAATTC | 2 cut(s) | 1334, 2033 |
| EcoRII | CCWGG | 1 cut(s) | 3160 |
| EcoT38I | GRGCYC | 4 cut(s) | 502, 1196, 3660, 3839 |
| EgeI | GGCGCC | 2 cut(s) | 1707, 1792 |
| EheI | GGCGCC | 2 cut(s) | 1707, 1792 |
| Esp3I | CGTCTC | 1 cut(s) | 1983 |
| FalI | AAGNNNNNCTT | 8 cut(s) | 585, 617, 1934, 1966, 2234, 2266, 2823, 2855 |
| FaqI | GGGAC | 6 cut(s) | 1520, 2796, 2992, 3595, 3798, 3994 |
| FauI | CCCGC | 6 cut(s) | 21, 1225, 1690, 1750, 3543, 3847 |
| FbaI | TGATCA | 3 cut(s) | 2757, 3018, 3123 |
| FblI | GTMKAC | 4 cut(s) | 1077, 1644, 2480, 4239 |
| FriOI | GRGCYC | 4 cut(s) | 502, 1196, 3660, 3839 |
| FspAI | RTGCGCAY | 1 cut(s) | 1976 |
| FspBI | CTAG | 9 cut(s) | 1325, 1919, 2387, 2540, 2921, 2949, 3812, 4034, 4423 |
| FspI | TGCGCA | 2 cut(s) | 1976, 2256 |
| HaeII | RGCGCY | 7 cut(s) | 114, 681, 1695, 1709, 1794, 2674, 4387 |
| HapII | CCGG | 8 cut(s) | 1667, 1796, 1849, 2873, 3287, 3317, 4127, 4198 |
| Hin1I | GRCGYC | 7 cut(s) | 330, 597, 652, 696, 1706, 1791, 2898 |
| HincII | GTYRAC | 2 cut(s) | 1645, 2481 |
| HindII | GTYRAC | 2 cut(s) | 1645, 2481 |
| HindIII | AAGCTT | 2 cut(s) | 452, 4222 |
| HpaII | CCGG | 8 cut(s) | 1667, 1796, 1849, 2873, 3287, 3317, 4127, 4198 |
| HphI | GGTGA | 7 cut(s) | 352, 983, 1206, 1219, 1876, 1882, 1930 |
| HpyCH4III | ACNGT | 4 cut(s) | 1870, 2680, 3327, 3567 |
| Hsp92I | GRCGYC | 7 cut(s) | 330, 597, 652, 696, 1706, 1791, 2898 |
| KasI | GGCGCC | 2 cut(s) | 1705, 1790 |
| Kpn2I | TCCGGA | 1 cut(s) | 3316 |
| Ksp22I | TGATCA | 3 cut(s) | 2757, 3018, 3123 |
| KspI | CCGCGG | 1 cut(s) | 690 |
| LguI | GCTCTTC | 1 cut(s) | 3827 |
| Lsp1109I | GCAGC | 8 cut(s) | 184, 359, 1053, 1611, 2932, 3421, 3802, 3895 |
| MaeI | CTAG | 9 cut(s) | 1325, 1919, 2387, 2540, 2921, 2949, 3812, 4034, 4423 |
| MaeIII | GTNAC | 2 cut(s) | 1864, 4216 |
| MfeI | CAATTG | 1 cut(s) | 1736 |
| MflI | RGATCY | 2 cut(s) | 2097, 2372 |
| MlsI | TGGCCA | 2 cut(s) | 3156, 3208 |
| MluCI | AATT | 7 cut(s) | 1334, 1466, 1736, 2033, 3722, 4001, 4364 |
| MluNI | TGGCCA | 2 cut(s) | 3156, 3208 |
| Mly113I | GGCGCC | 2 cut(s) | 1706, 1791 |
| MmeI | TCCRAC | 4 cut(s) | 649, 1548, 2613, 2940 |
| Mox20I | TGGCCA | 2 cut(s) | 3156, 3208 |
| MroI | TCCGGA | 1 cut(s) | 3316 |
| MroXI | GAANNNNTTC | 1 cut(s) | 2564 |
| MscI | TGGCCA | 2 cut(s) | 3156, 3208 |
| MseI | TTAA | 6 cut(s) | 146, 456, 813, 2441, 3110, 4116 |
| MslI | CAYNNNNRTG | 7 cut(s) | 371, 2087, 2150, 2357, 2933, 3014, 3392 |
| Msp20I | TGGCCA | 2 cut(s) | 3156, 3208 |
| MspA1I | CMGCKG | 1 cut(s) | 689 |
| MspCI | CTTAAG | 4 cut(s) | 455, 812, 3109, 4115 |
| MspI | CCGG | 8 cut(s) | 1667, 1796, 1849, 2873, 3287, 3317, 4127, 4198 |
| MspR9I | CCNGG | 7 cut(s) | 1668, 1796, 1850, 2874, 3162, 3288, 4199 |
| MunI | CAATTG | 1 cut(s) | 1736 |
| Mva1269I | GAATGC | 3 cut(s) | 484, 2321, 3845 |
| MvaI | CCWGG | 1 cut(s) | 3162 |
| NarI | GGCGCC | 2 cut(s) | 1706, 1791 |
| NciI | CCSGG | 6 cut(s) | 1668, 1796, 1850, 2874, 3288, 4199 |
| NcoI | CCATGG | 2 cut(s) | 201, 629 |
| NheI | GCTAGC | 3 cut(s) | 2920, 2948, 3811 |
| NmeAIII | GCCGAG | 2 cut(s) | 508, 1009 |
| NmuCI | GTSAC | 2 cut(s) | 1864, 4216 |
| NruI | TCGCGA | 5 cut(s) | 51, 74, 1433, 4404, 4418 |
| NsbI | TGCGCA | 2 cut(s) | 1976, 2256 |
| NspI | RCATGY | 3 cut(s) | 1928, 3249, 4147 |
| NspV | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| OliI | CACNNNNGTG | 1 cut(s) | 2357 |
| PaeI | GCATGC | 1 cut(s) | 1928 |
| PaeR7I | CTCGAG | 3 cut(s) | 1242, 3050, 3888 |
| PagI | TCATGA | 3 cut(s) | 2304, 2760, 3136 |
| PauI | GCGCGC | 1 cut(s) | 1928 |
| PceI | AGGCCT | 2 cut(s) | 818, 1771 |
| PciI | ACATGT | 1 cut(s) | 3245 |
| PciSI | GCTCTTC | 1 cut(s) | 3827 |
| PcsI | WCGNNNNNNNCGW | 5 cut(s) | 259, 576, 702, 1430, 3234 |
| PctI | GAATGC | 3 cut(s) | 484, 2321, 3845 |
| PdmI | GAANNNNTTC | 1 cut(s) | 2564 |
| PfeI | GAWTC | 2 cut(s) | 46, 3408 |
| PflMI | CCANNNNNTGG | 3 cut(s) | 378, 2167, 3487 |
| Ple19I | CGATCG | 3 cut(s) | 1296, 2119, 3529 |
| PluTI | GGCGCC | 2 cut(s) | 1709, 1794 |
| PmaCI | CACGTG | 2 cut(s) | 3952, 4138 |
| PmlI | CACGTG | 2 cut(s) | 3952, 4138 |
| Ppu21I | YACGTR | 4 cut(s) | 417, 3238, 3952, 4138 |
| PpuMI | RGGWCCY | 1 cut(s) | 2206 |
| PscI | ACATGT | 1 cut(s) | 3245 |
| PshAI | GACNNNNGTC | 1 cut(s) | 4211 |
| PsiI | TTATAA | 1 cut(s) | 1766 |
| Psp124BI | GAGCTC | 1 cut(s) | 3660 |
| Psp5II | RGGWCCY | 1 cut(s) | 2206 |
| Psp6I | CCWGG | 1 cut(s) | 3160 |
| PspCI | CACGTG | 2 cut(s) | 3952, 4138 |
| PspGI | CCWGG | 1 cut(s) | 3160 |
| PspPI | GGNCC | 8 cut(s) | 179, 905, 1671, 2206, 2430, 2979, 3699, 4052 |
| PspPPI | RGGWCCY | 1 cut(s) | 2206 |
| PspXI | VCTCGAGB | 3 cut(s) | 1242, 3050, 3888 |
| PsrI | GAACNNNNNNTAC | 4 cut(s) | 2012, 2044, 4230, 4262 |
| PsuI | RGATCY | 2 cut(s) | 2097, 2372 |
| PteI | GCGCGC | 1 cut(s) | 1928 |
| PvuI | CGATCG | 3 cut(s) | 1296, 2119, 3529 |
| RruI | TCGCGA | 5 cut(s) | 51, 74, 1433, 4404, 4418 |
| RseI | CAYNNNNRTG | 7 cut(s) | 371, 2087, 2150, 2357, 2933, 3014, 3392 |
| SacI | GAGCTC | 1 cut(s) | 3660 |
| SacII | CCGCGG | 1 cut(s) | 690 |
| SalI | GTCGAC | 2 cut(s) | 1643, 2479 |
| SapI | GCTCTTC | 1 cut(s) | 3827 |
| SaqAI | TTAA | 6 cut(s) | 146, 456, 813, 2441, 3110, 4116 |
| Sau96I | GGNCC | 8 cut(s) | 179, 905, 1671, 2206, 2430, 2979, 3699, 4052 |
| ScrFI | CCNGG | 7 cut(s) | 1668, 1796, 1850, 2874, 3162, 3288, 4199 |
| SfoI | GGCGCC | 2 cut(s) | 1707, 1792 |
| Sfr274I | CTCGAG | 3 cut(s) | 1242, 3050, 3888 |
| Sfr303I | CCGCGG | 1 cut(s) | 690 |
| SfuI | TTCGAA | 3 cut(s) | 1775, 2031, 4059 |
| SgrBI | CCGCGG | 1 cut(s) | 690 |
| SinI | GGWCC | 3 cut(s) | 179, 2206, 2979 |
| SlaI | CTCGAG | 3 cut(s) | 1242, 3050, 3888 |
| SmiMI | CAYNNNNRTG | 7 cut(s) | 371, 2087, 2150, 2357, 2933, 3014, 3392 |
| SpeI | ACTAGT | 1 cut(s) | 4033 |
| SphI | GCATGC | 1 cut(s) | 1928 |
| Sse9I | AATT | 7 cut(s) | 1334, 1466, 1736, 2033, 3722, 4001, 4364 |
| SseBI | AGGCCT | 2 cut(s) | 818, 1771 |
| SspDI | GGCGCC | 2 cut(s) | 1705, 1790 |
| SspI | AATATT | 1 cut(s) | 299 |
| SspMI | CTAG | 9 cut(s) | 1325, 1919, 2387, 2540, 2921, 2949, 3812, 4034, 4423 |
| SstI | GAGCTC | 1 cut(s) | 3660 |
| StuI | AGGCCT | 2 cut(s) | 818, 1771 |
| StyD4I | CCNGG | 7 cut(s) | 1666, 1794, 1848, 2872, 3160, 3286, 4197 |
| TaaI | ACNGT | 4 cut(s) | 1870, 2680, 3327, 3567 |
| TaqII | GACCGA | 4 cut(s) | 656, 889, 2678, 2780 |
| TasI | AATT | 7 cut(s) | 1334, 1466, 1736, 2033, 3722, 4001, 4364 |
| TatI | WGTACW | 3 cut(s) | 947, 1576, 3976 |
| TfiI | GAWTC | 2 cut(s) | 46, 3408 |
| Tru1I | TTAA | 6 cut(s) | 146, 456, 813, 2441, 3110, 4116 |
| Tru9I | TTAA | 6 cut(s) | 146, 456, 813, 2441, 3110, 4116 |
| TseFI | GTSAC | 2 cut(s) | 1864, 4216 |
| TseI | GCWGC | 8 cut(s) | 197, 347, 1066, 1624, 2945, 3434, 3790, 3908 |
| Tsp45I | GTSAC | 2 cut(s) | 1864, 4216 |
| TspGWI | ACGGA | 4 cut(s) | 718, 2201, 3575, 3647 |
| Van91I | CCANNNNNTGG | 3 cut(s) | 378, 2167, 3487 |
| Vha464I | CTTAAG | 4 cut(s) | 455, 812, 3109, 4115 |
| VneI | GTGCAC | 3 cut(s) | 418, 999, 4022 |
| VpaK11BI | GGWCC | 3 cut(s) | 179, 2206, 2979 |
| XagI | CCTNNNNNAGG | 2 cut(s) | 1547, 4016 |
| XapI | RAATTY | 2 cut(s) | 1334, 2033 |
| XceI | RCATGY | 3 cut(s) | 1928, 3249, 4147 |
| XhoI | CTCGAG | 3 cut(s) | 1242, 3050, 3888 |
| XmaJI | CCTAGG | 1 cut(s) | 1324 |
| XmiI | GTMKAC | 4 cut(s) | 1077, 1644, 2480, 4239 |
| XmnI | GAANNNNTTC | 1 cut(s) | 2564 |
| XspI | CTAG | 9 cut(s) | 1325, 1919, 2387, 2540, 2921, 2949, 3812, 4034, 4423 |
| ZraI | GACGTC | 1 cut(s) | 653 |