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 | 99 - 294 | 1e-23 | ATP-dependent protease La (LON) substrate-binding domain |
| AAA | PF00004 | 457 - 596 | 1.3e-23 | ATPase family associated with various cellular activities (AAA) |
| AAA_5 | PF07728 | 457 - 554 | 3.1e-06 | AAA domain (dynein-related subfamily) |
| Lon_lid | PF22667 | 619 - 669 | 2e-19 | Lon protease AAA+ ATPase lid domain |
| Lon_C | PF05362 | 784 - 988 | 2.1e-74 | Lon protease (S16) C-terminal proteolytic domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 2 cut(s) | 1925, 2054 |
| Acc36I | ACCTGC | 3 cut(s) | 1925, 2054, 2257 |
| AccI | GTMKAC | 1 cut(s) | 523 |
| AccII | CGCG | 2 cut(s) | 185, 2222 |
| AciI | CCGC | 7 cut(s) | 58, 218, 313, 323, 400, 1438, 2802 |
| AclI | AACGTT | 1 cut(s) | 850 |
| AcoI | YGGCCR | 1 cut(s) | 589 |
| AcsI | RAATTY | 4 cut(s) | 1269, 1322, 2307, 2632 |
| AcuI | CTGAAG | 2 cut(s) | 20, 26 |
| AcvI | CACGTG | 2 cut(s) | 1427, 1850 |
| AcyI | GRCGYC | 1 cut(s) | 83 |
| AfaI | GTAC | 4 cut(s) | 1536, 1726, 2470, 2563 |
| AflIII | ACRYGT | 2 cut(s) | 183, 1847 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 241 |
| AjiI | CACGTC | 1 cut(s) | 2709 |
| AjnI | CCWGG | 4 cut(s) | 1220, 1387, 1522, 2274 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 926, 958 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 194, 226 |
| Alw21I | GWGCWC | 1 cut(s) | 409 |
| Alw26I | GTCTC | 5 cut(s) | 470, 1031, 1379, 1821, 2477 |
| AlwNI | CAGNNNCTG | 3 cut(s) | 2090, 2111, 2264 |
| AoxI | GGCC | 9 cut(s) | 40, 69, 231, 275, 589, 1161, 1381, 2057, 2664 |
| ApeKI | GCWGC | 6 cut(s) | 377, 785, 1003, 2006, 2159, 2825 |
| ApoI | RAATTY | 4 cut(s) | 1269, 1322, 2307, 2632 |
| AsuC2I | CCSGG | 4 cut(s) | 63, 274, 333, 444 |
| AsuHPI | GGTGA | 3 cut(s) | 886, 1628, 2330 |
| AsuII | TTCGAA | 2 cut(s) | 170, 604 |
| AvaII | GGWCC | 5 cut(s) | 65, 447, 1606, 2368, 2681 |
| BaeGI | GKGCMC | 2 cut(s) | 1264, 1432 |
| BalI | TGGCCA | 1 cut(s) | 591 |
| BamHI | GGATCC | 3 cut(s) | 361, 2516, 2787 |
| BanII | GRGCYC | 1 cut(s) | 409 |
| BbrPI | CACGTG | 2 cut(s) | 1427, 1850 |
| BbsI | GAAGAC | 3 cut(s) | 1847, 2383, 2852 |
| Bbv12I | GWGCWC | 1 cut(s) | 409 |
| BbvI | GCAGC | 6 cut(s) | 389, 772, 1015, 2018, 2171, 2837 |
| BccI | CCATC | 6 cut(s) | 610, 971, 1525, 2161, 2672, 2858 |
| BceAI | ACGGC | 1 cut(s) | 1316 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 2873, 2907 |
| BciT130I | CCWGG | 4 cut(s) | 1222, 1389, 1524, 2276 |
| BclI | TGATCA | 3 cut(s) | 640, 2413, 2703 |
| BcnI | CCSGG | 4 cut(s) | 63, 274, 333, 444 |
| BcoDI | GTCTC | 5 cut(s) | 470, 1031, 1379, 1821, 2477 |
| BfaI | CTAG | 7 cut(s) | 299, 836, 1199, 1673, 1824, 2142, 2685 |
| BfmI | CTRYAG | 4 cut(s) | 2061, 2250, 2658, 2938 |
| BfuAI | ACCTGC | 3 cut(s) | 1925, 2054, 2257 |
| BglI | GCCNNNNNGGC | 2 cut(s) | 39, 313 |
| BglII | AGATCT | 1 cut(s) | 1968 |
| BisI | GCNGC | 9 cut(s) | 219, 314, 378, 401, 786, 1004, 2007, 2160, 2826 |
| BlsI | GCNGC | 9 cut(s) | 220, 315, 379, 402, 787, 1005, 2008, 2161, 2827 |
| Bme1390I | CCNGG | 8 cut(s) | 63, 274, 333, 444, 1222, 1389, 1524, 2276 |
| Bme18I | GGWCC | 5 cut(s) | 65, 447, 1606, 2368, 2681 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 241 |
| BmgBI | CACGTC | 1 cut(s) | 2709 |
| BmiI | GGNNCC | 9 cut(s) | 363, 448, 472, 1351, 1607, 1946, 2518, 2665, 2789 |
| BmrFI | CCNGG | 8 cut(s) | 63, 274, 333, 444, 1222, 1389, 1524, 2276 |
| BmrI | ACTGGG | 3 cut(s) | 450, 1037, 2790 |
| BmsI | GCATC | 8 cut(s) | 570, 643, 961, 1068, 1504, 2018, 2278, 2873 |
| BmuI | ACTGGG | 3 cut(s) | 450, 1037, 2790 |
| BpiI | GAAGAC | 3 cut(s) | 1847, 2383, 2852 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 221, 253, 923, 955 |
| BpmI | CTGGAG | 2 cut(s) | 1410, 2229 |
| Bpu10I | CCTNAGC | 1 cut(s) | 1653 |
| Bpu14I | TTCGAA | 2 cut(s) | 170, 604 |
| BpuEI | CTTGAG | 3 cut(s) | 416, 458, 1341 |
| BpuMI | CCSGG | 4 cut(s) | 63, 274, 333, 444 |
| BsaAI | YACGTR | 4 cut(s) | 749, 1190, 1427, 1850 |
| BsaBI | GATNNNNATC | 2 cut(s) | 951, 1281 |
| BsaHI | GRCGYC | 1 cut(s) | 83 |
| BsaI | GGTCTC | 1 cut(s) | 2477 |
| BsaWI | WCCGGW | 1 cut(s) | 2422 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 561, 591, 2202, 2232 |
| Bse118I | RCCGGY | 4 cut(s) | 88, 416, 597, 1163 |
| Bse1I | ACTGG | 8 cut(s) | 456, 876, 1032, 1153, 1795, 2021, 2536, 2785 |
| Bse3DI | GCAATG | 2 cut(s) | 308, 2763 |
| Bse8I | GATNNNNATC | 2 cut(s) | 951, 1281 |
| BseBI | CCWGG | 4 cut(s) | 1222, 1389, 1524, 2276 |
| BseGI | GGATG | 4 cut(s) | 561, 952, 2293, 2683 |
| BseJI | GATNNNNATC | 2 cut(s) | 951, 1281 |
| BseMI | GCAATG | 2 cut(s) | 308, 2763 |
| BseMII | CTCAG | 6 cut(s) | 752, 1357, 1644, 2154, 2292, 2504 |
| BseNI | ACTGG | 8 cut(s) | 456, 876, 1032, 1153, 1795, 2021, 2536, 2785 |
| BseRI | GAGGAG | 1 cut(s) | 238 |
| BseSI | GKGCMC | 2 cut(s) | 1264, 1432 |
| BseXI | GCAGC | 6 cut(s) | 389, 772, 1015, 2018, 2171, 2837 |
| BsgI | GTGCAG | 1 cut(s) | 1133 |
| Bsh1236I | CGCG | 2 cut(s) | 185, 2222 |
| BshFI | GGCC | 9 cut(s) | 42, 71, 233, 277, 591, 1163, 1383, 2059, 2666 |
| BsiHKAI | GWGCWC | 1 cut(s) | 409 |
| BslFI | GGGAC | 3 cut(s) | 460, 553, 1619 |
| BsmAI | GTCTC | 5 cut(s) | 470, 1031, 1379, 1821, 2477 |
| BsmFI | GGGAC | 3 cut(s) | 460, 553, 1619 |
| BsmI | GAATGC | 1 cut(s) | 1863 |
| BsnI | GGCC | 9 cut(s) | 42, 71, 233, 277, 591, 1163, 1383, 2059, 2666 |
| Bso31I | GGTCTC | 1 cut(s) | 2477 |
| Bsp119I | TTCGAA | 2 cut(s) | 170, 604 |
| Bsp1286I | GDGCHC | 3 cut(s) | 409, 1264, 1432 |
| Bsp1407I | TGTACA | 1 cut(s) | 1724 |
| Bsp19I | CCATGG | 1 cut(s) | 2457 |
| Bsp68I | TCGCGA | 1 cut(s) | 2222 |
| BspACI | CCGC | 7 cut(s) | 58, 218, 313, 323, 400, 1438, 2802 |
| BspANI | GGCC | 9 cut(s) | 42, 71, 233, 277, 591, 1163, 1383, 2059, 2666 |
| BspCNI | CTCAG | 6 cut(s) | 751, 1356, 1645, 2155, 2293, 2503 |
| BspFNI | CGCG | 2 cut(s) | 185, 2222 |
| BspHI | TCATGA | 2 cut(s) | 696, 2185 |
| BspLI | GGNNCC | 9 cut(s) | 363, 448, 472, 1351, 1607, 1946, 2518, 2665, 2789 |
| BspMAI | CTGCAG | 3 cut(s) | 2065, 2254, 2662 |
| BspMI | ACCTGC | 3 cut(s) | 1925, 2054, 2257 |
| BspQI | GCTCTTC | 2 cut(s) | 825, 1905 |
| BspT104I | TTCGAA | 2 cut(s) | 170, 604 |
| BspTNI | GGTCTC | 1 cut(s) | 2477 |
| BsrDI | GCAATG | 2 cut(s) | 308, 2763 |
| BsrFI | RCCGGY | 4 cut(s) | 88, 416, 597, 1163 |
| BsrGI | TGTACA | 1 cut(s) | 1724 |
| BsrI | ACTGG | 8 cut(s) | 456, 876, 1032, 1153, 1795, 2021, 2536, 2785 |
| BssAI | RCCGGY | 4 cut(s) | 88, 416, 597, 1163 |
| BssNI | GRCGYC | 1 cut(s) | 83 |
| BssT1I | CCWWGG | 3 cut(s) | 565, 764, 2457 |
| Bst2UI | CCWGG | 4 cut(s) | 1222, 1389, 1524, 2276 |
| Bst4CI | ACNGT | 6 cut(s) | 295, 1235, 2183, 2335, 2581, 2942 |
| Bst6I | CTCTTC | 4 cut(s) | 25, 825, 924, 1905 |
| BstACI | GRCGYC | 1 cut(s) | 83 |
| BstAUI | TGTACA | 1 cut(s) | 1724 |
| BstBAI | YACGTR | 4 cut(s) | 749, 1190, 1427, 1850 |
| BstBI | TTCGAA | 2 cut(s) | 170, 604 |
| BstC8I | GCNNGC | 8 cut(s) | 110, 114, 151, 405, 546, 599, 2061, 2892 |
| BstDEI | CTNAG | 6 cut(s) | 738, 1343, 1653, 2163, 2301, 2490 |
| BstDSI | CCRYGG | 1 cut(s) | 2457 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1706 |
| BstF5I | GGATG | 4 cut(s) | 561, 952, 2293, 2683 |
| BstFNI | CGCG | 2 cut(s) | 185, 2222 |
| BstMAI | GTCTC | 5 cut(s) | 470, 1031, 1379, 1821, 2477 |
| BstNI | CCWGG | 4 cut(s) | 1222, 1389, 1524, 2276 |
| BstNSI | RCATGY | 1 cut(s) | 1860 |
| BstSCI | CCNGG | 8 cut(s) | 61, 272, 331, 442, 1220, 1387, 1522, 2274 |
| BstSFI | CTRYAG | 4 cut(s) | 2061, 2250, 2658, 2938 |
| BstSLI | GKGCMC | 2 cut(s) | 1264, 1432 |
| BstUI | CGCG | 2 cut(s) | 185, 2222 |
| BstV1I | GCAGC | 6 cut(s) | 389, 772, 1015, 2018, 2171, 2837 |
| BstV2I | GAAGAC | 3 cut(s) | 1847, 2383, 2852 |
| BstX2I | RGATCY | 7 cut(s) | 361, 1968, 2037, 2233, 2516, 2749, 2787 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 2378 |
| BstYI | RGATCY | 7 cut(s) | 361, 1968, 2037, 2233, 2516, 2749, 2787 |
| BsuRI | GGCC | 9 cut(s) | 42, 71, 233, 277, 591, 1163, 1383, 2059, 2666 |
| BtgI | CCRYGG | 1 cut(s) | 2457 |
| BtrI | CACGTC | 1 cut(s) | 2709 |
| BtsCI | GGATG | 4 cut(s) | 561, 952, 2293, 2683 |
| BtsIMutI | CAGTG | 4 cut(s) | 1240, 1800, 2529, 2971 |
| BtuMI | TCGCGA | 1 cut(s) | 2222 |
| BveI | ACCTGC | 3 cut(s) | 1925, 2054, 2257 |
| Cac8I | GCNNGC | 8 cut(s) | 110, 114, 151, 405, 546, 599, 2061, 2892 |
| CaiI | CAGNNNCTG | 3 cut(s) | 2090, 2111, 2264 |
| CciI | TCATGA | 2 cut(s) | 696, 2185 |
| Cfr10I | RCCGGY | 4 cut(s) | 88, 416, 597, 1163 |
| CpoI | CGGWCCG | 1 cut(s) | 65 |
| CseI | GACGC | 5 cut(s) | 72, 174, 191, 550, 1862 |
| Csp6I | GTAC | 4 cut(s) | 1535, 1725, 2469, 2562 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 2476, 2511 |
| CspI | CGGWCCG | 1 cut(s) | 65 |
| CviQI | GTAC | 4 cut(s) | 1535, 1725, 2469, 2562 |
| DdeI | CTNAG | 6 cut(s) | 738, 1343, 1653, 2163, 2301, 2490 |
| DraI | TTTAAA | 1 cut(s) | 855 |
| DriI | GACNNNNNGTC | 1 cut(s) | 241 |
| EaeI | YGGCCR | 1 cut(s) | 589 |
| Eam1104I | CTCTTC | 4 cut(s) | 25, 825, 924, 1905 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 241 |
| EarI | CTCTTC | 4 cut(s) | 25, 825, 924, 1905 |
| EciI | GGCGGA | 1 cut(s) | 47 |
| Ecl136II | GAGCTC | 1 cut(s) | 407 |
| Eco130I | CCWWGG | 3 cut(s) | 565, 764, 2457 |
| Eco24I | GRGCYC | 1 cut(s) | 409 |
| Eco31I | GGTCTC | 1 cut(s) | 2477 |
| Eco47I | GGWCC | 5 cut(s) | 65, 447, 1606, 2368, 2681 |
| Eco53kI | GAGCTC | 1 cut(s) | 407 |
| Eco57I | CTGAAG | 2 cut(s) | 20, 26 |
| Eco72I | CACGTG | 2 cut(s) | 1427, 1850 |
| EcoICRI | GAGCTC | 1 cut(s) | 407 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1706 |
| EcoRI | GAATTC | 2 cut(s) | 2307, 2632 |
| EcoRII | CCWGG | 4 cut(s) | 1220, 1387, 1522, 2274 |
| EcoT14I | CCWWGG | 3 cut(s) | 565, 764, 2457 |
| EcoT38I | GRGCYC | 1 cut(s) | 409 |
| ErhI | CCWWGG | 3 cut(s) | 565, 764, 2457 |
| FalI | AAGNNNNNCTT | 6 cut(s) | 273, 305, 567, 599, 810, 842 |
| FaqI | GGGAC | 3 cut(s) | 460, 553, 1619 |
| FauI | CCCGC | 1 cut(s) | 2795 |
| FauNDI | CATATG | 1 cut(s) | 412 |
| FbaI | TGATCA | 3 cut(s) | 640, 2413, 2703 |
| FblI | GTMKAC | 1 cut(s) | 523 |
| Fnu4HI | GCNGC | 9 cut(s) | 219, 314, 378, 401, 786, 1004, 2007, 2160, 2826 |
| FokI | GGATG | 4 cut(s) | 548, 959, 2300, 2690 |
| FriOI | GRGCYC | 1 cut(s) | 409 |
| Fsp4HI | GCNGC | 9 cut(s) | 219, 314, 378, 401, 786, 1004, 2007, 2160, 2826 |
| FspBI | CTAG | 7 cut(s) | 299, 836, 1199, 1673, 1824, 2142, 2685 |
| GluI | GCNGC | 9 cut(s) | 219, 314, 378, 401, 786, 1004, 2007, 2160, 2826 |
| GsuI | CTGGAG | 2 cut(s) | 1410, 2229 |
| HaeIII | GGCC | 9 cut(s) | 42, 71, 233, 277, 591, 1163, 1383, 2059, 2666 |
| HgaI | GACGC | 5 cut(s) | 72, 174, 191, 550, 1862 |
| Hin1I | GRCGYC | 1 cut(s) | 83 |
| HincII | GTYRAC | 4 cut(s) | 524, 1209, 2353, 2537 |
| HindII | GTYRAC | 4 cut(s) | 524, 1209, 2353, 2537 |
| HindIII | AAGCTT | 4 cut(s) | 8, 434, 2639, 2888 |
| HphI | GGTGA | 3 cut(s) | 886, 1628, 2330 |
| Hpy166II | GTNNAC | 7 cut(s) | 49, 264, 524, 1209, 2353, 2537, 2923 |
| Hpy8I | GTNNAC | 7 cut(s) | 49, 264, 524, 1209, 2353, 2537, 2923 |
| Hpy99I | CGWCG | 3 cut(s) | 88, 185, 1503 |
| HpyAV | CCTTC | 9 cut(s) | 44, 352, 437, 502, 1596, 2207, 2506, 2531, 2668 |
| HpyCH4III | ACNGT | 6 cut(s) | 295, 1235, 2183, 2335, 2581, 2942 |
| HpyCH4IV | ACGT | 9 cut(s) | 748, 850, 1189, 1426, 1509, 1689, 1849, 2471, 2708 |
| HpyF3I | CTNAG | 6 cut(s) | 738, 1343, 1653, 2163, 2301, 2490 |
| HpySE526I | ACGT | 9 cut(s) | 748, 850, 1189, 1426, 1509, 1689, 1849, 2471, 2708 |
| Hsp92I | GRCGYC | 1 cut(s) | 83 |
| KroI | GCCGGC | 1 cut(s) | 597 |
| KroNI | GCCGGC | 1 cut(s) | 599 |
| Ksp22I | TGATCA | 3 cut(s) | 640, 2413, 2703 |
| LguI | GCTCTTC | 2 cut(s) | 825, 1905 |
| LmnI | GCTCC | 3 cut(s) | 412, 782, 1639 |
| Lsp1109I | GCAGC | 6 cut(s) | 389, 772, 1015, 2018, 2171, 2837 |
| LweI | GCATC | 8 cut(s) | 570, 643, 961, 1068, 1504, 2018, 2278, 2873 |
| MaeI | CTAG | 7 cut(s) | 299, 836, 1199, 1673, 1824, 2142, 2685 |
| MaeII | ACGT | 9 cut(s) | 748, 850, 1189, 1426, 1509, 1689, 1849, 2471, 2708 |
| MaeIII | GTNAC | 5 cut(s) | 1850, 1885, 2177, 2527, 2770 |
| MfeI | CAATTG | 3 cut(s) | 924, 1419, 2796 |
| MflI | RGATCY | 7 cut(s) | 361, 1968, 2037, 2233, 2516, 2749, 2787 |
| MhlI | GDGCHC | 3 cut(s) | 409, 1264, 1432 |
| MlsI | TGGCCA | 1 cut(s) | 591 |
| MluI | ACGCGT | 1 cut(s) | 183 |
| MluNI | TGGCCA | 1 cut(s) | 591 |
| MlyI | GAGTC | 7 cut(s) | 54, 118, 230, 917, 2226, 2348, 2413 |
| MmeI | TCCRAC | 7 cut(s) | 924, 1137, 1315, 1617, 2014, 2103, 2407 |
| Mox20I | TGGCCA | 1 cut(s) | 591 |
| MroNI | GCCGGC | 1 cut(s) | 597 |
| MscI | TGGCCA | 1 cut(s) | 591 |
| MslI | CAYNNNNRTG | 3 cut(s) | 1614, 2649, 2711 |
| Msp20I | TGGCCA | 1 cut(s) | 591 |
| MspA1I | CMGCKG | 2 cut(s) | 325, 2162 |
| MspR9I | CCNGG | 8 cut(s) | 63, 274, 333, 444, 1222, 1389, 1524, 2276 |
| MunI | CAATTG | 3 cut(s) | 924, 1419, 2796 |
| Mva1269I | GAATGC | 1 cut(s) | 1863 |
| MvaI | CCWGG | 4 cut(s) | 1222, 1389, 1524, 2276 |
| MvnI | CGCG | 2 cut(s) | 185, 2222 |
| NaeI | GCCGGC | 1 cut(s) | 599 |
| NciI | CCSGG | 4 cut(s) | 63, 274, 333, 444 |
| NcoI | CCATGG | 1 cut(s) | 2457 |
| NdeI | CATATG | 1 cut(s) | 412 |
| NgoMIV | GCCGGC | 1 cut(s) | 597 |
| NlaIV | GGNNCC | 9 cut(s) | 363, 448, 472, 1351, 1607, 1946, 2518, 2665, 2789 |
| NmeAIII | GCCGAG | 6 cut(s) | 68, 84, 106, 125, 179, 1952 |
| NmuCI | GTSAC | 3 cut(s) | 1850, 1885, 2527 |
| NruI | TCGCGA | 1 cut(s) | 2222 |
| NspI | RCATGY | 1 cut(s) | 1860 |
| NspV | TTCGAA | 2 cut(s) | 170, 604 |
| PagI | TCATGA | 2 cut(s) | 696, 2185 |
| PaqCI | CACCTGC | 2 cut(s) | 1925, 2054 |
| PasI | CCCWGGG | 1 cut(s) | 1221 |
| PciSI | GCTCTTC | 2 cut(s) | 825, 1905 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 1695 |
| PctI | GAATGC | 1 cut(s) | 1863 |
| PdiI | GCCGGC | 1 cut(s) | 599 |
| PfeI | GAWTC | 5 cut(s) | 268, 901, 2224, 2279, 2406 |
| PkrI | GCNGC | 9 cut(s) | 220, 315, 379, 402, 787, 1005, 2008, 2161, 2827 |
| PleI | GAGTC | 7 cut(s) | 53, 118, 230, 916, 2225, 2348, 2413 |
| PmaCI | CACGTG | 2 cut(s) | 1427, 1850 |
| PmlI | CACGTG | 2 cut(s) | 1427, 1850 |
| PpsI | GAGTC | 7 cut(s) | 53, 118, 230, 916, 2225, 2348, 2413 |
| Ppu21I | YACGTR | 4 cut(s) | 749, 1190, 1427, 1850 |
| Psp124BI | GAGCTC | 1 cut(s) | 409 |
| Psp1406I | AACGTT | 1 cut(s) | 850 |
| Psp6I | CCWGG | 4 cut(s) | 1220, 1387, 1522, 2274 |
| PspCI | CACGTG | 2 cut(s) | 1427, 1850 |
| PspGI | CCWGG | 4 cut(s) | 1220, 1387, 1522, 2274 |
| PspN4I | GGNNCC | 9 cut(s) | 363, 448, 472, 1351, 1607, 1946, 2518, 2665, 2789 |
| PstI | CTGCAG | 3 cut(s) | 2065, 2254, 2662 |
| PstNI | CAGNNNCTG | 3 cut(s) | 2090, 2111, 2264 |
| PsuI | RGATCY | 7 cut(s) | 361, 1968, 2037, 2233, 2516, 2749, 2787 |
| PvuII | CAGCTG | 1 cut(s) | 2162 |
| RruI | TCGCGA | 1 cut(s) | 2222 |
| RsaI | GTAC | 4 cut(s) | 1536, 1726, 2470, 2563 |
| RsaNI | GTAC | 4 cut(s) | 1535, 1725, 2469, 2562 |
| RseI | CAYNNNNRTG | 3 cut(s) | 1614, 2649, 2711 |
| Rsr2I | CGGWCCG | 1 cut(s) | 65 |
| RsrII | CGGWCCG | 1 cut(s) | 65 |
| SacI | GAGCTC | 1 cut(s) | 409 |
| SalI | GTCGAC | 1 cut(s) | 522 |
| SapI | GCTCTTC | 2 cut(s) | 825, 1905 |
| SatI | GCNGC | 9 cut(s) | 219, 314, 378, 401, 786, 1004, 2007, 2160, 2826 |
| SbfI | CCTGCAGG | 2 cut(s) | 2065, 2662 |
| SchI | GAGTC | 7 cut(s) | 54, 118, 230, 917, 2226, 2348, 2413 |
| ScrFI | CCNGG | 8 cut(s) | 63, 274, 333, 444, 1222, 1389, 1524, 2276 |
| SdaI | CCTGCAGG | 2 cut(s) | 2065, 2662 |
| SduI | GDGCHC | 3 cut(s) | 409, 1264, 1432 |
| SfaNI | GCATC | 8 cut(s) | 570, 643, 961, 1068, 1504, 2018, 2278, 2873 |
| SfcI | CTRYAG | 4 cut(s) | 2061, 2250, 2658, 2938 |
| SfuI | TTCGAA | 2 cut(s) | 170, 604 |
| SinI | GGWCC | 5 cut(s) | 65, 447, 1606, 2368, 2681 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 1614, 2649, 2711 |
| SmlI | CTYRAG | 3 cut(s) | 431, 437, 1356 |
| SmoI | CTYRAG | 3 cut(s) | 431, 437, 1356 |
| Sse8387I | CCTGCAGG | 2 cut(s) | 2065, 2662 |
| SsiI | CCGC | 7 cut(s) | 58, 218, 313, 323, 400, 1438, 2802 |
| SspI | AATATT | 1 cut(s) | 760 |
| SspMI | CTAG | 7 cut(s) | 299, 836, 1199, 1673, 1824, 2142, 2685 |
| SstI | GAGCTC | 1 cut(s) | 409 |
| StyD4I | CCNGG | 8 cut(s) | 61, 272, 331, 442, 1220, 1387, 1522, 2274 |
| StyI | CCWWGG | 3 cut(s) | 565, 764, 2457 |
| TaaI | ACNGT | 6 cut(s) | 295, 1235, 2183, 2335, 2581, 2942 |
| TaiI | ACGT | 9 cut(s) | 751, 853, 1192, 1429, 1512, 1692, 1852, 2474, 2711 |
| TaqI | TCGA | 9 cut(s) | 170, 523, 604, 1275, 1501, 1698, 2360, 2601, 2883 |
| TaqII | GACCGA | 1 cut(s) | 464 |
| TatI | WGTACW | 1 cut(s) | 1724 |
| TauI | GCSGC | 3 cut(s) | 221, 316, 403 |
| TfiI | GAWTC | 5 cut(s) | 268, 901, 2224, 2279, 2406 |
| TscAI | CASTG | 4 cut(s) | 1240, 1807, 2536, 2971 |
| TseFI | GTSAC | 3 cut(s) | 1850, 1885, 2527 |
| TseI | GCWGC | 6 cut(s) | 377, 785, 1003, 2006, 2159, 2825 |
| Tsp45I | GTSAC | 3 cut(s) | 1850, 1885, 2527 |
| TspGWI | ACGGA | 2 cut(s) | 2246, 2710 |
| TspRI | CASTG | 4 cut(s) | 1240, 1807, 2536, 2971 |
| VpaK11BI | GGWCC | 5 cut(s) | 65, 447, 1606, 2368, 2681 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1706 |
| XapI | RAATTY | 4 cut(s) | 1269, 1322, 2307, 2632 |
| XbaI | TCTAGA | 1 cut(s) | 1672 |
| XceI | RCATGY | 1 cut(s) | 1860 |
| XmiI | GTMKAC | 1 cut(s) | 523 |
| XspI | CTAG | 7 cut(s) | 299, 836, 1199, 1673, 1824, 2142, 2685 |