ATP-dependent serine protease that mediates the selective degradation of misfolded, unassembled or oxidatively damaged polypeptides as well as certain short-lived regulatory proteins in the mitochondrial matrix. May also have a chaperone function in the assembly of inner membrane protein complexes. Participates in the regulation of mitochondrial gene expression and in the maintenance of the integrity of the mitochondrial genome. Binds to mitochondrial DNA in a site-specific manner
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| LON_substr_bdg | PF02190 | 101 - 310 | 3.9e-36 | ATP-dependent protease La (LON) substrate-binding domain |
| AAA | PF00004 | 463 - 600 | 7.2e-23 | ATPase family associated with various cellular activities (AAA) |
| Lon_lid | PF22667 | 624 - 675 | 4.3e-18 | Lon protease AAA+ ATPase lid domain |
| Lon_C | PF05362 | 785 - 989 | 1.8e-76 | Lon protease (S16) C-terminal proteolytic domain |
| ChlI | PF13541 | 837 - 958 | 8.3e-06 | Subunit ChlI of Mg-chelatase |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 1943 |
| AatII | GACGTC | 1 cut(s) | 1232 |
| Acc36I | ACCTGC | 2 cut(s) | 1943, 2104 |
| AccB7I | CCANNNNNTGG | 4 cut(s) | 55, 422, 2681, 2693 |
| AciI | CCGC | 7 cut(s) | 72, 320, 383, 1003, 1878, 2402, 2805 |
| AclI | AACGTT | 1 cut(s) | 898 |
| AcoI | YGGCCR | 3 cut(s) | 73, 124, 2586 |
| AcsI | RAATTY | 5 cut(s) | 1085, 1193, 1287, 1340, 2310 |
| AcuI | CTGAAG | 5 cut(s) | 240, 764, 935, 2268, 2886 |
| AcvI | CACGTG | 2 cut(s) | 1445, 1868 |
| AcyI | GRCGYC | 1 cut(s) | 1229 |
| AdeI | CACNNNGTG | 1 cut(s) | 2584 |
| AfaI | GTAC | 5 cut(s) | 547, 893, 1744, 2058, 2566 |
| AfeI | AGCGCT | 1 cut(s) | 2523 |
| AflII | CTTAAG | 1 cut(s) | 730 |
| AflIII | ACRYGT | 3 cut(s) | 888, 1205, 1865 |
| AhlI | ACTAGT | 1 cut(s) | 749 |
| AjiI | CACGTC | 1 cut(s) | 889 |
| AjnI | CCWGG | 5 cut(s) | 337, 448, 1238, 1405, 1540 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 1536, 1568 |
| Alw26I | GTCTC | 6 cut(s) | 1049, 1397, 1839, 2067, 2480, 2827 |
| AlwNI | CAGNNNCTG | 5 cut(s) | 455, 479, 1174, 2114, 2267 |
| Ama87I | CYCGRG | 1 cut(s) | 2603 |
| Aor51HI | AGCGCT | 1 cut(s) | 2523 |
| ApaI | GGGCCC | 1 cut(s) | 62 |
| ApeKI | GCWGC | 5 cut(s) | 833, 1021, 1171, 1913, 2828 |
| ApoI | RAATTY | 5 cut(s) | 1085, 1193, 1287, 1340, 2310 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 1287, 2624 |
| AspLEI | GCGC | 1 cut(s) | 2524 |
| AspS9I | GGNCC | 7 cut(s) | 58, 59, 78, 135, 1400, 2667, 2684 |
| AsuC2I | CCSGG | 1 cut(s) | 152 |
| AsuHPI | GGTGA | 8 cut(s) | 112, 448, 809, 934, 1646, 2282, 2333, 2384 |
| AsuII | TTCGAA | 1 cut(s) | 610 |
| AsuNHI | GCTAGC | 1 cut(s) | 379 |
| AvaI | CYCGRG | 1 cut(s) | 2603 |
| BaeGI | GKGCMC | 1 cut(s) | 62 |
| BalI | TGGCCA | 1 cut(s) | 2588 |
| BamHI | GGATCC | 3 cut(s) | 367, 634, 2790 |
| BanII | GRGCYC | 2 cut(s) | 49, 62 |
| BauI | CACGAG | 1 cut(s) | 28 |
| BbrPI | CACGTG | 2 cut(s) | 1445, 1868 |
| BbsI | GAAGAC | 5 cut(s) | 752, 1305, 1865, 2825, 2855 |
| BbvCI | CCTCAGC | 3 cut(s) | 228, 234, 240 |
| BbvI | GCAGC | 5 cut(s) | 820, 1033, 1158, 1925, 2840 |
| BccI | CCATC | 6 cut(s) | 616, 666, 928, 1543, 2675, 2861 |
| BceAI | ACGGC | 4 cut(s) | 79, 196, 422, 975 |
| BciT130I | CCWGG | 5 cut(s) | 339, 450, 1240, 1407, 1542 |
| BciVI | GTATCC | 2 cut(s) | 578, 2284 |
| BclI | TGATCA | 1 cut(s) | 2706 |
| BcnI | CCSGG | 1 cut(s) | 152 |
| BcoDI | GTCTC | 6 cut(s) | 1049, 1397, 1839, 2067, 2480, 2827 |
| BcuI | ACTAGT | 1 cut(s) | 749 |
| BfmI | CTRYAG | 6 cut(s) | 35, 261, 1166, 2040, 2097, 2157 |
| BfoI | RGCGCY | 1 cut(s) | 2525 |
| BfrI | CTTAAG | 1 cut(s) | 730 |
| BfuAI | ACCTGC | 2 cut(s) | 1943, 2104 |
| BfuI | GTATCC | 2 cut(s) | 578, 2284 |
| BglII | AGATCT | 1 cut(s) | 1986 |
| Bme1390I | CCNGG | 6 cut(s) | 152, 339, 450, 1240, 1407, 1542 |
| BmeT110I | CYCGRG | 1 cut(s) | 2603 |
| BmgBI | CACGTC | 1 cut(s) | 889 |
| BmgT120I | GGNCC | 7 cut(s) | 58, 59, 78, 135, 1400, 2667, 2684 |
| BmiI | GGNNCC | 9 cut(s) | 46, 60, 184, 369, 636, 1964, 2470, 2668, 2792 |
| BmrFI | CCNGG | 6 cut(s) | 152, 339, 450, 1240, 1407, 1542 |
| BmrI | ACTGGG | 1 cut(s) | 1055 |
| BmsI | GCATC | 3 cut(s) | 1890, 2035, 2418 |
| BmtI | GCTAGC | 1 cut(s) | 383 |
| BmuI | ACTGGG | 1 cut(s) | 1055 |
| BpiI | GAAGAC | 5 cut(s) | 752, 1305, 1865, 2825, 2855 |
| BpmI | CTGGAG | 4 cut(s) | 444, 1196, 1428, 2259 |
| Bpu10I | CCTNAGC | 4 cut(s) | 228, 234, 240, 246 |
| Bpu14I | TTCGAA | 1 cut(s) | 610 |
| BpuEI | CTTGAG | 1 cut(s) | 647 |
| BpuMI | CCSGG | 1 cut(s) | 152 |
| Bsa29I | ATCGAT | 1 cut(s) | 529 |
| BsaAI | YACGTR | 3 cut(s) | 1208, 1445, 1868 |
| BsaBI | GATNNNNATC | 3 cut(s) | 633, 938, 1698 |
| BsaHI | GRCGYC | 1 cut(s) | 1229 |
| BsaI | GGTCTC | 1 cut(s) | 2480 |
| BsaJI | CCNNGG | 8 cut(s) | 210, 338, 449, 571, 812, 1238, 1239, 2460 |
| BsaWI | WCCGGW | 1 cut(s) | 2425 |
| Bse118I | RCCGGY | 2 cut(s) | 75, 122 |
| Bse1I | ACTGG | 8 cut(s) | 1050, 1182, 2242, 2272, 2336, 2390, 2539, 2788 |
| Bse3DI | GCAATG | 4 cut(s) | 314, 1836, 2724, 2766 |
| Bse8I | GATNNNNATC | 3 cut(s) | 633, 938, 1698 |
| BseBI | CCWGG | 5 cut(s) | 339, 450, 1240, 1407, 1542 |
| BseCI | ATCGAT | 1 cut(s) | 529 |
| BseDI | CCNNGG | 8 cut(s) | 210, 338, 449, 571, 812, 1238, 1239, 2460 |
| BseGI | GGATG | 4 cut(s) | 448, 691, 2686, 2711 |
| BseJI | GATNNNNATC | 3 cut(s) | 633, 938, 1698 |
| BseMI | GCAATG | 4 cut(s) | 314, 1836, 2724, 2766 |
| BseMII | CTCAG | 8 cut(s) | 213, 219, 225, 231, 800, 1375, 2318, 2507 |
| BseNI | ACTGG | 8 cut(s) | 1050, 1182, 2242, 2272, 2336, 2390, 2539, 2788 |
| BseRI | GAGGAG | 2 cut(s) | 16, 1764 |
| BseSI | GKGCMC | 1 cut(s) | 62 |
| BseX3I | CGGCCG | 2 cut(s) | 73, 124 |
| BseXI | GCAGC | 5 cut(s) | 820, 1033, 1158, 1925, 2840 |
| BseYI | CCCAGC | 2 cut(s) | 215, 1808 |
| Bsh1285I | CGRYCG | 2 cut(s) | 76, 127 |
| BshVI | ATCGAT | 1 cut(s) | 529 |
| BsiEI | CGRYCG | 2 cut(s) | 76, 127 |
| BsiHKCI | CYCGRG | 1 cut(s) | 2603 |
| BsiSI | CCGG | 8 cut(s) | 42, 76, 123, 127, 151, 400, 1640, 2426 |
| BslFI | GGGAC | 3 cut(s) | 232, 466, 1524 |
| BsmAI | GTCTC | 6 cut(s) | 1049, 1397, 1839, 2067, 2480, 2827 |
| BsmBI | CGTCTC | 1 cut(s) | 2827 |
| BsmFI | GGGAC | 3 cut(s) | 232, 466, 1524 |
| BsmI | GAATGC | 1 cut(s) | 2281 |
| Bso31I | GGTCTC | 1 cut(s) | 2480 |
| BsoBI | CYCGRG | 1 cut(s) | 2603 |
| Bsp119I | TTCGAA | 1 cut(s) | 610 |
| Bsp120I | GGGCCC | 1 cut(s) | 58 |
| Bsp1286I | GDGCHC | 2 cut(s) | 49, 62 |
| Bsp1407I | TGTACA | 2 cut(s) | 891, 1742 |
| Bsp19I | CCATGG | 1 cut(s) | 2460 |
| BspACI | CCGC | 7 cut(s) | 72, 320, 383, 1003, 1878, 2402, 2805 |
| BspCNI | CTCAG | 8 cut(s) | 214, 220, 226, 232, 799, 1374, 2317, 2506 |
| BspDI | ATCGAT | 1 cut(s) | 529 |
| BspLI | GGNNCC | 9 cut(s) | 46, 60, 184, 369, 636, 1964, 2470, 2668, 2792 |
| BspMAI | CTGCAG | 2 cut(s) | 2101, 2161 |
| BspMI | ACCTGC | 2 cut(s) | 1943, 2104 |
| BspOI | GCTAGC | 1 cut(s) | 383 |
| BspQI | GCTCTTC | 2 cut(s) | 873, 1146 |
| BspT104I | TTCGAA | 1 cut(s) | 610 |
| BspTI | CTTAAG | 1 cut(s) | 730 |
| BspTNI | GGTCTC | 1 cut(s) | 2480 |
| BsrDI | GCAATG | 4 cut(s) | 314, 1836, 2724, 2766 |
| BsrFI | RCCGGY | 2 cut(s) | 75, 122 |
| BsrGI | TGTACA | 2 cut(s) | 891, 1742 |
| BsrI | ACTGG | 8 cut(s) | 1050, 1182, 2242, 2272, 2336, 2390, 2539, 2788 |
| BssAI | RCCGGY | 2 cut(s) | 75, 122 |
| BssECI | CCNNGG | 8 cut(s) | 210, 338, 449, 571, 812, 1238, 1239, 2460 |
| BssNI | GRCGYC | 1 cut(s) | 1229 |
| BssSI | CACGAG | 1 cut(s) | 28 |
| BssT1I | CCWWGG | 3 cut(s) | 210, 571, 2460 |
| Bst2BI | CACGAG | 1 cut(s) | 28 |
| Bst2UI | CCWGG | 5 cut(s) | 339, 450, 1240, 1407, 1542 |
| Bst4CI | ACNGT | 8 cut(s) | 53, 301, 646, 1253, 1994, 2028, 2061, 2584 |
| Bst6I | CTCTTC | 4 cut(s) | 22, 873, 972, 1146 |
| BstACI | GRCGYC | 1 cut(s) | 1229 |
| BstAFI | CTTAAG | 1 cut(s) | 730 |
| BstAPI | GCANNNNNTGC | 3 cut(s) | 1079, 1922, 2105 |
| BstAUI | TGTACA | 2 cut(s) | 891, 1742 |
| BstBAI | YACGTR | 3 cut(s) | 1208, 1445, 1868 |
| BstBI | TTCGAA | 1 cut(s) | 610 |
| BstDEI | CTNAG | 9 cut(s) | 222, 228, 234, 240, 246, 786, 1361, 2304, 2493 |
| BstDSI | CCRYGG | 1 cut(s) | 2460 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1724 |
| BstF5I | GGATG | 4 cut(s) | 448, 691, 2686, 2711 |
| BstH2I | RGCGCY | 1 cut(s) | 2525 |
| BstHHI | GCGC | 1 cut(s) | 2524 |
| BstMAI | GTCTC | 6 cut(s) | 1049, 1397, 1839, 2067, 2480, 2827 |
| BstMCI | CGRYCG | 2 cut(s) | 76, 127 |
| BstNI | CCWGG | 5 cut(s) | 339, 450, 1240, 1407, 1542 |
| BstNSI | RCATGY | 3 cut(s) | 352, 1631, 1878 |
| BstSCI | CCNGG | 6 cut(s) | 150, 337, 448, 1238, 1405, 1540 |
| BstSFI | CTRYAG | 6 cut(s) | 35, 261, 1166, 2040, 2097, 2157 |
| BstSLI | GKGCMC | 1 cut(s) | 62 |
| BstV1I | GCAGC | 5 cut(s) | 820, 1033, 1158, 1925, 2840 |
| BstV2I | GAAGAC | 5 cut(s) | 752, 1305, 1865, 2825, 2855 |
| BstX2I | RGATCY | 4 cut(s) | 367, 634, 1986, 2790 |
| BstYI | RGATCY | 4 cut(s) | 367, 634, 1986, 2790 |
| BstZI | CGGCCG | 2 cut(s) | 73, 124 |
| Bsu15I | ATCGAT | 1 cut(s) | 529 |
| BsuI | GTATCC | 2 cut(s) | 578, 2284 |
| BsuTUI | ATCGAT | 1 cut(s) | 529 |
| BtgI | CCRYGG | 1 cut(s) | 2460 |
| BtgZI | GCGATG | 1 cut(s) | 1499 |
| BtrI | CACGTC | 1 cut(s) | 889 |
| BtsCI | GGATG | 4 cut(s) | 448, 691, 2686, 2711 |
| BtsI | GCAGTG | 1 cut(s) | 866 |
| BtsIMutI | CAGTG | 3 cut(s) | 866, 2580, 2974 |
| BveI | ACCTGC | 2 cut(s) | 1943, 2104 |
| CaiI | CAGNNNCTG | 5 cut(s) | 455, 479, 1174, 2114, 2267 |
| CfoI | GCGC | 1 cut(s) | 2524 |
| Cfr10I | RCCGGY | 2 cut(s) | 75, 122 |
| Cfr13I | GGNCC | 7 cut(s) | 58, 59, 78, 135, 1400, 2667, 2684 |
| ClaI | ATCGAT | 1 cut(s) | 529 |
| Csp6I | GTAC | 5 cut(s) | 546, 892, 1743, 2057, 2565 |
| CviQI | GTAC | 5 cut(s) | 546, 892, 1743, 2057, 2565 |
| DdeI | CTNAG | 9 cut(s) | 222, 228, 234, 240, 246, 786, 1361, 2304, 2493 |
| DraI | TTTAAA | 1 cut(s) | 903 |
| DraIII | CACNNNGTG | 1 cut(s) | 2584 |
| EaeI | YGGCCR | 3 cut(s) | 73, 124, 2586 |
| EagI | CGGCCG | 2 cut(s) | 73, 124 |
| Eam1104I | CTCTTC | 4 cut(s) | 22, 873, 972, 1146 |
| EarI | CTCTTC | 4 cut(s) | 22, 873, 972, 1146 |
| EclXI | CGGCCG | 2 cut(s) | 73, 124 |
| Eco130I | CCWWGG | 3 cut(s) | 210, 571, 2460 |
| Eco24I | GRGCYC | 2 cut(s) | 49, 62 |
| Eco31I | GGTCTC | 1 cut(s) | 2480 |
| Eco47III | AGCGCT | 1 cut(s) | 2523 |
| Eco52I | CGGCCG | 2 cut(s) | 73, 124 |
| Eco57I | CTGAAG | 5 cut(s) | 240, 764, 935, 2268, 2886 |
| Eco72I | CACGTG | 2 cut(s) | 1445, 1868 |
| Eco88I | CYCGRG | 1 cut(s) | 2603 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1724 |
| EcoO109I | RGGNCCY | 1 cut(s) | 59 |
| EcoRII | CCWGG | 5 cut(s) | 337, 448, 1238, 1405, 1540 |
| EcoT14I | CCWWGG | 3 cut(s) | 210, 571, 2460 |
| EcoT22I | ATGCAT | 1 cut(s) | 2283 |
| EcoT38I | GRGCYC | 2 cut(s) | 49, 62 |
| ErhI | CCWWGG | 3 cut(s) | 210, 571, 2460 |
| Esp3I | CGTCTC | 1 cut(s) | 2827 |
| FalI | AAGNNNNNCTT | 8 cut(s) | 573, 605, 1140, 1172, 2508, 2540, 2901, 2933 |
| FaqI | GGGAC | 3 cut(s) | 232, 466, 1524 |
| FauI | CCCGC | 1 cut(s) | 2798 |
| FauNDI | CATATG | 1 cut(s) | 418 |
| FbaI | TGATCA | 1 cut(s) | 2706 |
| FokI | GGATG | 4 cut(s) | 455, 698, 2693, 2698 |
| FriOI | GRGCYC | 2 cut(s) | 49, 62 |
| FseI | GGCCGGCC | 1 cut(s) | 79 |
| GlaI | GCGC | 1 cut(s) | 2523 |
| GsaI | CCCAGC | 2 cut(s) | 219, 1812 |
| GsuI | CTGGAG | 4 cut(s) | 444, 1196, 1428, 2259 |
| HaeII | RGCGCY | 1 cut(s) | 2525 |
| HapII | CCGG | 8 cut(s) | 42, 76, 123, 127, 151, 400, 1640, 2426 |
| HhaI | GCGC | 1 cut(s) | 2524 |
| Hin1I | GRCGYC | 1 cut(s) | 1229 |
| Hin6I | GCGC | 1 cut(s) | 2522 |
| HinP1I | GCGC | 1 cut(s) | 2522 |
| HincII | GTYRAC | 3 cut(s) | 655, 1227, 2540 |
| HindII | GTYRAC | 3 cut(s) | 655, 1227, 2540 |
| HindIII | AAGCTT | 3 cut(s) | 8, 947, 2642 |
| HinfI | GANTC | 9 cut(s) | 130, 170, 1368, 1453, 2165, 2360, 2422, 2636, 2980 |
| HpaII | CCGG | 8 cut(s) | 42, 76, 123, 127, 151, 400, 1640, 2426 |
| HphI | GGTGA | 8 cut(s) | 112, 448, 809, 934, 1646, 2282, 2333, 2384 |
| Hpy166II | GTNNAC | 8 cut(s) | 270, 655, 892, 1124, 1227, 2273, 2540, 2926 |
| Hpy8I | GTNNAC | 8 cut(s) | 270, 655, 892, 1124, 1227, 2273, 2540, 2926 |
| Hpy99I | CGWCG | 1 cut(s) | 182 |
| HpyAV | CCTTC | 8 cut(s) | 358, 433, 1033, 2498, 2743, 2804, 2872, 2906 |
| HpyCH4III | ACNGT | 8 cut(s) | 53, 301, 646, 1253, 1994, 2028, 2061, 2584 |
| HpyCH4IV | ACGT | 8 cut(s) | 707, 888, 898, 1200, 1207, 1229, 1444, 1867 |
| HpyF3I | CTNAG | 9 cut(s) | 222, 228, 234, 240, 246, 786, 1361, 2304, 2493 |
| HpySE526I | ACGT | 8 cut(s) | 707, 888, 898, 1200, 1207, 1229, 1444, 1867 |
| Hsp92I | GRCGYC | 1 cut(s) | 1229 |
| HspAI | GCGC | 1 cut(s) | 2522 |
| KroI | GCCGGC | 1 cut(s) | 75 |
| KroNI | GCCGGC | 1 cut(s) | 77 |
| Ksp22I | TGATCA | 1 cut(s) | 2706 |
| LguI | GCTCTTC | 2 cut(s) | 873, 1146 |
| LmnI | GCTCC | 9 cut(s) | 44, 188, 418, 425, 830, 1657, 1777, 2240, 2519 |
| Lsp1109I | GCAGC | 5 cut(s) | 820, 1033, 1158, 1925, 2840 |
| LweI | GCATC | 3 cut(s) | 1890, 2035, 2418 |
| MaeII | ACGT | 8 cut(s) | 707, 888, 898, 1200, 1207, 1229, 1444, 1867 |
| MaeIII | GTNAC | 7 cut(s) | 96, 797, 1201, 1903, 2218, 2372, 2773 |
| MfeI | CAATTG | 2 cut(s) | 1437, 2799 |
| MflI | RGATCY | 4 cut(s) | 367, 634, 1986, 2790 |
| MhlI | GDGCHC | 2 cut(s) | 49, 62 |
| MlsI | TGGCCA | 1 cut(s) | 2588 |
| MluNI | TGGCCA | 1 cut(s) | 2588 |
| MlyI | GAGTC | 1 cut(s) | 2416 |
| MmeI | TCCRAC | 6 cut(s) | 183, 1333, 1459, 1552, 1635, 2410 |
| Mox20I | TGGCCA | 1 cut(s) | 2588 |
| Mph1103I | ATGCAT | 1 cut(s) | 2283 |
| MroNI | GCCGGC | 1 cut(s) | 75 |
| MroXI | GAANNNNTTC | 2 cut(s) | 1287, 2624 |
| MscI | TGGCCA | 1 cut(s) | 2588 |
| MslI | CAYNNNNRTG | 5 cut(s) | 795, 1632, 2652, 2714, 2729 |
| Msp20I | TGGCCA | 1 cut(s) | 2588 |
| MspA1I | CMGCKG | 1 cut(s) | 1171 |
| MspCI | CTTAAG | 1 cut(s) | 730 |
| MspI | CCGG | 8 cut(s) | 42, 76, 123, 127, 151, 400, 1640, 2426 |
| MspR9I | CCNGG | 6 cut(s) | 152, 339, 450, 1240, 1407, 1542 |
| MunI | CAATTG | 2 cut(s) | 1437, 2799 |
| Mva1269I | GAATGC | 1 cut(s) | 2281 |
| MvaI | CCWGG | 5 cut(s) | 339, 450, 1240, 1407, 1542 |
| NaeI | GCCGGC | 1 cut(s) | 77 |
| NciI | CCSGG | 1 cut(s) | 152 |
| NcoI | CCATGG | 1 cut(s) | 2460 |
| NdeI | CATATG | 1 cut(s) | 418 |
| NgoMIV | GCCGGC | 1 cut(s) | 75 |
| NheI | GCTAGC | 1 cut(s) | 379 |
| NlaIV | GGNNCC | 9 cut(s) | 46, 60, 184, 369, 636, 1964, 2470, 2668, 2792 |
| NmeAIII | GCCGAG | 1 cut(s) | 1970 |
| NmuCI | GTSAC | 5 cut(s) | 797, 1201, 1903, 2218, 2372 |
| NsiI | ATGCAT | 1 cut(s) | 2283 |
| NspI | RCATGY | 3 cut(s) | 352, 1631, 1878 |
| NspV | TTCGAA | 1 cut(s) | 610 |
| PaeI | GCATGC | 1 cut(s) | 1878 |
| PaeR7I | CTCGAG | 1 cut(s) | 2603 |
| PaqCI | CACCTGC | 1 cut(s) | 1943 |
| PasI | CCCWGGG | 1 cut(s) | 1239 |
| PciSI | GCTCTTC | 2 cut(s) | 873, 1146 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 1314 |
| PctI | GAATGC | 1 cut(s) | 2281 |
| PdiI | GCCGGC | 1 cut(s) | 77 |
| PdmI | GAANNNNTTC | 2 cut(s) | 1287, 2624 |
| PfeI | GAWTC | 8 cut(s) | 130, 170, 1368, 1453, 2165, 2360, 2636, 2980 |
| PflMI | CCANNNNNTGG | 4 cut(s) | 55, 422, 2681, 2693 |
| PfoI | TCCNGGA | 1 cut(s) | 1405 |
| PleI | GAGTC | 1 cut(s) | 2416 |
| PmaCI | CACGTG | 2 cut(s) | 1445, 1868 |
| PmlI | CACGTG | 2 cut(s) | 1445, 1868 |
| PpsI | GAGTC | 1 cut(s) | 2416 |
| Ppu21I | YACGTR | 3 cut(s) | 1208, 1445, 1868 |
| Psp1406I | AACGTT | 1 cut(s) | 898 |
| Psp6I | CCWGG | 5 cut(s) | 337, 448, 1238, 1405, 1540 |
| PspCI | CACGTG | 2 cut(s) | 1445, 1868 |
| PspFI | CCCAGC | 2 cut(s) | 215, 1808 |
| PspGI | CCWGG | 5 cut(s) | 337, 448, 1238, 1405, 1540 |
| PspN4I | GGNNCC | 9 cut(s) | 46, 60, 184, 369, 636, 1964, 2470, 2668, 2792 |
| PspOMI | GGGCCC | 1 cut(s) | 58 |
| PspPI | GGNCC | 7 cut(s) | 58, 59, 78, 135, 1400, 2667, 2684 |
| PstI | CTGCAG | 2 cut(s) | 2101, 2161 |
| PstNI | CAGNNNCTG | 5 cut(s) | 455, 479, 1174, 2114, 2267 |
| PsuI | RGATCY | 4 cut(s) | 367, 634, 1986, 2790 |
| PvuII | CAGCTG | 1 cut(s) | 1171 |
| RigI | GGCCGGCC | 1 cut(s) | 79 |
| RsaI | GTAC | 5 cut(s) | 547, 893, 1744, 2058, 2566 |
| RsaNI | GTAC | 5 cut(s) | 546, 892, 1743, 2057, 2565 |
| RseI | CAYNNNNRTG | 5 cut(s) | 795, 1632, 2652, 2714, 2729 |
| SapI | GCTCTTC | 2 cut(s) | 873, 1146 |
| Sau96I | GGNCC | 7 cut(s) | 58, 59, 78, 135, 1400, 2667, 2684 |
| SchI | GAGTC | 1 cut(s) | 2416 |
| ScrFI | CCNGG | 6 cut(s) | 152, 339, 450, 1240, 1407, 1542 |
| SduI | GDGCHC | 2 cut(s) | 49, 62 |
| SfaNI | GCATC | 3 cut(s) | 1890, 2035, 2418 |
| SfcI | CTRYAG | 6 cut(s) | 35, 261, 1166, 2040, 2097, 2157 |
| Sfr274I | CTCGAG | 1 cut(s) | 2603 |
| SfuI | TTCGAA | 1 cut(s) | 610 |
| SlaI | CTCGAG | 1 cut(s) | 2603 |
| SmiMI | CAYNNNNRTG | 5 cut(s) | 795, 1632, 2652, 2714, 2729 |
| SmlI | CTYRAG | 3 cut(s) | 662, 730, 2603 |
| SmoI | CTYRAG | 3 cut(s) | 662, 730, 2603 |
| SpeI | ACTAGT | 1 cut(s) | 749 |
| SphI | GCATGC | 1 cut(s) | 1878 |
| SsiI | CCGC | 7 cut(s) | 72, 320, 383, 1003, 1878, 2402, 2805 |
| SspI | AATATT | 1 cut(s) | 2598 |
| StyD4I | CCNGG | 6 cut(s) | 150, 337, 448, 1238, 1405, 1540 |
| StyI | CCWWGG | 3 cut(s) | 210, 571, 2460 |
| TaaI | ACNGT | 8 cut(s) | 53, 301, 646, 1253, 1994, 2028, 2061, 2584 |
| TaiI | ACGT | 8 cut(s) | 710, 891, 901, 1203, 1210, 1232, 1447, 1870 |
| TatI | WGTACW | 3 cut(s) | 891, 1742, 2056 |
| TauI | GCSGC | 5 cut(s) | 75, 322, 386, 1005, 1881 |
| TfiI | GAWTC | 8 cut(s) | 130, 170, 1368, 1453, 2165, 2360, 2636, 2980 |
| TscAI | CASTG | 3 cut(s) | 866, 2587, 2974 |
| TseFI | GTSAC | 5 cut(s) | 797, 1201, 1903, 2218, 2372 |
| TseI | GCWGC | 5 cut(s) | 833, 1021, 1171, 1913, 2828 |
| Tsp45I | GTSAC | 5 cut(s) | 797, 1201, 1903, 2218, 2372 |
| TspGWI | ACGGA | 2 cut(s) | 1323, 2851 |
| TspRI | CASTG | 3 cut(s) | 866, 2587, 2974 |
| Van91I | CCANNNNNTGG | 4 cut(s) | 55, 422, 2681, 2693 |
| Vha464I | CTTAAG | 1 cut(s) | 730 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1724 |
| XapI | RAATTY | 5 cut(s) | 1085, 1193, 1287, 1340, 2310 |
| XbaI | TCTAGA | 1 cut(s) | 1690 |
| XceI | RCATGY | 3 cut(s) | 352, 1631, 1878 |
| XhoI | CTCGAG | 1 cut(s) | 2603 |
| XmnI | GAANNNNTTC | 2 cut(s) | 1287, 2624 |
| ZraI | GACGTC | 1 cut(s) | 1230 |
| Zsp2I | ATGCAT | 1 cut(s) | 2283 |