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 | 15 - 56 | 2.1e-06 | ATP-dependent protease La (LON) substrate-binding domain |
| AAA | PF00004 | 209 - 346 | 8.8e-24 | ATPase family associated with various cellular activities (AAA) |
| Lon_lid | PF22667 | 370 - 421 | 2.7e-18 | Lon protease AAA+ ATPase lid domain |
| Lon_C | PF05362 | 519 - 723 | 2e-76 | Lon protease (S16) C-terminal proteolytic domain |
| ChlI | PF13541 | 572 - 692 | 5.6e-06 | Subunit ChlI of Mg-chelatase |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AatII | GACGTC | 1 cut(s) | 1229 |
| Acc16I | TGCGCA | 1 cut(s) | 552 |
| Acc36I | ACCTGC | 2 cut(s) | 2044, 2101 |
| AccB7I | CCANNNNNTGG | 3 cut(s) | 419, 2642, 2654 |
| AccI | GTMKAC | 1 cut(s) | 1762 |
| AclWI | GGATC | 9 cut(s) | 359, 372, 449, 626, 639, 1628, 1658, 2746, 2759 |
| AcoI | YGGCCR | 3 cut(s) | 124, 2547, 2718 |
| AcsI | RAATTY | 5 cut(s) | 84, 1190, 1284, 1337, 2271 |
| AcuI | CTGAAG | 5 cut(s) | 237, 761, 932, 2262, 2847 |
| AcvI | CACGTG | 2 cut(s) | 1442, 1865 |
| AcyI | GRCGYC | 1 cut(s) | 1226 |
| AdeI | CACNNNGTG | 1 cut(s) | 2545 |
| AfaI | GTAC | 5 cut(s) | 544, 890, 1741, 2055, 2527 |
| AfeI | AGCGCT | 1 cut(s) | 2484 |
| AflII | CTTAAG | 1 cut(s) | 727 |
| AflIII | ACRYGT | 2 cut(s) | 1202, 1862 |
| AhlI | ACTAGT | 1 cut(s) | 746 |
| AjnI | CCWGG | 4 cut(s) | 334, 1235, 1402, 1537 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 1533, 1565 |
| Alw21I | GWGCWC | 2 cut(s) | 116, 1659 |
| Alw26I | GTCTC | 4 cut(s) | 567, 1046, 1394, 2441 |
| AlwI | GGATC | 9 cut(s) | 359, 372, 449, 626, 639, 1628, 1658, 2746, 2759 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 476, 2240 |
| Ama87I | CYCGRG | 1 cut(s) | 2564 |
| Aor51HI | AGCGCT | 1 cut(s) | 2484 |
| ApaI | GGGCCC | 1 cut(s) | 53 |
| ApeKI | GCWGC | 6 cut(s) | 830, 1018, 1910, 2234, 2789, 2858 |
| ApoI | RAATTY | 5 cut(s) | 84, 1190, 1284, 1337, 2271 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 1284, 2585 |
| AspLEI | GCGC | 2 cut(s) | 553, 2485 |
| AspS9I | GGNCC | 9 cut(s) | 49, 50, 61, 69, 135, 1297, 1397, 2628, 2645 |
| AsuC2I | CCSGG | 6 cut(s) | 68, 73, 104, 152, 447, 1274 |
| AsuHPI | GGTGA | 6 cut(s) | 69, 242, 445, 806, 1643, 2345 |
| AsuNHI | GCTAGC | 1 cut(s) | 376 |
| AvaI | CYCGRG | 1 cut(s) | 2564 |
| AvaII | GGWCC | 1 cut(s) | 1297 |
| BaeGI | GKGCMC | 1 cut(s) | 53 |
| BalI | TGGCCA | 2 cut(s) | 2549, 2720 |
| BamHI | GGATCC | 3 cut(s) | 364, 631, 2751 |
| BanII | GRGCYC | 3 cut(s) | 53, 116, 1659 |
| BbrPI | CACGTG | 2 cut(s) | 1442, 1865 |
| BbsI | GAAGAC | 4 cut(s) | 749, 1862, 2786, 2816 |
| Bbv12I | GWGCWC | 2 cut(s) | 116, 1659 |
| BbvCI | CCTCAGC | 1 cut(s) | 237 |
| BbvI | GCAGC | 6 cut(s) | 817, 1030, 1922, 2246, 2801, 2870 |
| BccI | CCATC | 7 cut(s) | 221, 613, 663, 925, 1540, 2636, 2822 |
| BceAI | ACGGC | 3 cut(s) | 79, 196, 972 |
| BciT130I | CCWGG | 4 cut(s) | 336, 1237, 1404, 1539 |
| BclI | TGATCA | 2 cut(s) | 2077, 2667 |
| BcnI | CCSGG | 6 cut(s) | 68, 73, 104, 152, 447, 1274 |
| BcoDI | GTCTC | 4 cut(s) | 567, 1046, 1394, 2441 |
| BcuI | ACTAGT | 1 cut(s) | 746 |
| BfmI | CTRYAG | 5 cut(s) | 258, 2094, 2154, 2232, 2622 |
| BfoI | RGCGCY | 1 cut(s) | 2486 |
| BfrI | CTTAAG | 1 cut(s) | 727 |
| BfuAI | ACCTGC | 2 cut(s) | 2044, 2101 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 215 |
| BglII | AGATCT | 1 cut(s) | 1983 |
| Bme18I | GGWCC | 1 cut(s) | 1297 |
| BmeT110I | CYCGRG | 1 cut(s) | 2564 |
| BmgT120I | GGNCC | 9 cut(s) | 49, 50, 61, 69, 135, 1297, 1397, 2628, 2645 |
| BmiI | GGNNCC | 8 cut(s) | 51, 184, 366, 633, 1961, 2431, 2629, 2753 |
| BmsI | GCATC | 4 cut(s) | 160, 573, 2107, 2379 |
| BmtI | GCTAGC | 1 cut(s) | 380 |
| BpiI | GAAGAC | 4 cut(s) | 749, 1862, 2786, 2816 |
| BpmI | CTGGAG | 2 cut(s) | 441, 1425 |
| Bpu10I | CCTNAGC | 2 cut(s) | 237, 243 |
| BpuEI | CTTGAG | 2 cut(s) | 644, 2439 |
| BpuMI | CCSGG | 6 cut(s) | 68, 73, 104, 152, 447, 1274 |
| BsaAI | YACGTR | 3 cut(s) | 1205, 1442, 1865 |
| BsaBI | GATNNNNATC | 2 cut(s) | 935, 1695 |
| BsaHI | GRCGYC | 1 cut(s) | 1226 |
| BsaI | GGTCTC | 2 cut(s) | 567, 2441 |
| BsaJI | CCNNGG | 9 cut(s) | 210, 335, 446, 568, 809, 1235, 1236, 1722, 2421 |
| BsaWI | WCCGGW | 1 cut(s) | 2386 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 214, 244, 564, 594 |
| Bse1I | ACTGG | 8 cut(s) | 127, 1179, 2067, 2297, 2351, 2500, 2685, 2749 |
| Bse3DI | GCAATG | 3 cut(s) | 311, 1800, 1833 |
| Bse8I | GATNNNNATC | 2 cut(s) | 935, 1695 |
| BseBI | CCWGG | 4 cut(s) | 336, 1237, 1404, 1539 |
| BseDI | CCNNGG | 9 cut(s) | 210, 335, 446, 568, 809, 1235, 1236, 1722, 2421 |
| BseGI | GGATG | 7 cut(s) | 175, 445, 564, 688, 1708, 2647, 2672 |
| BseJI | GATNNNNATC | 2 cut(s) | 935, 1695 |
| BseMI | GCAATG | 3 cut(s) | 311, 1800, 1833 |
| BseMII | CTCAG | 5 cut(s) | 101, 228, 797, 1372, 2279 |
| BseNI | ACTGG | 8 cut(s) | 127, 1179, 2067, 2297, 2351, 2500, 2685, 2749 |
| BseRI | GAGGAG | 2 cut(s) | 1761, 2812 |
| BseSI | GKGCMC | 1 cut(s) | 53 |
| BseXI | GCAGC | 6 cut(s) | 817, 1030, 1922, 2246, 2801, 2870 |
| BseYI | CCCAGC | 1 cut(s) | 1805 |
| BsgI | GTGCAG | 1 cut(s) | 2151 |
| BsiHKAI | GWGCWC | 2 cut(s) | 116, 1659 |
| BsiHKCI | CYCGRG | 1 cut(s) | 2564 |
| BslFI | GGGAC | 4 cut(s) | 463, 1521, 1856, 2204 |
| BsmAI | GTCTC | 4 cut(s) | 567, 1046, 1394, 2441 |
| BsmFI | GGGAC | 4 cut(s) | 463, 1521, 1856, 2204 |
| Bso31I | GGTCTC | 2 cut(s) | 567, 2441 |
| BsoBI | CYCGRG | 1 cut(s) | 2564 |
| Bsp120I | GGGCCC | 1 cut(s) | 49 |
| Bsp1286I | GDGCHC | 3 cut(s) | 53, 116, 1659 |
| Bsp1407I | TGTACA | 2 cut(s) | 888, 1739 |
| Bsp19I | CCATGG | 1 cut(s) | 2421 |
| BspCNI | CTCAG | 5 cut(s) | 102, 229, 796, 1371, 2278 |
| BspHI | TCATGA | 1 cut(s) | 2182 |
| BspLI | GGNNCC | 8 cut(s) | 51, 184, 366, 633, 1961, 2431, 2629, 2753 |
| BspMAI | CTGCAG | 4 cut(s) | 2098, 2158, 2236, 2626 |
| BspMI | ACCTGC | 2 cut(s) | 2044, 2101 |
| BspOI | GCTAGC | 1 cut(s) | 380 |
| BspPI | GGATC | 9 cut(s) | 359, 372, 449, 626, 639, 1628, 1658, 2746, 2759 |
| BspQI | GCTCTTC | 3 cut(s) | 870, 1143, 1920 |
| BspTI | CTTAAG | 1 cut(s) | 727 |
| BspTNI | GGTCTC | 2 cut(s) | 567, 2441 |
| BsrDI | GCAATG | 3 cut(s) | 311, 1800, 1833 |
| BsrGI | TGTACA | 2 cut(s) | 888, 1739 |
| BsrI | ACTGG | 8 cut(s) | 127, 1179, 2067, 2297, 2351, 2500, 2685, 2749 |
| BssECI | CCNNGG | 9 cut(s) | 210, 335, 446, 568, 809, 1235, 1236, 1722, 2421 |
| BssNAI | GTATAC | 1 cut(s) | 1763 |
| BssNI | GRCGYC | 1 cut(s) | 1226 |
| BssT1I | CCWWGG | 4 cut(s) | 210, 568, 1722, 2421 |
| Bst1107I | GTATAC | 1 cut(s) | 1763 |
| Bst2UI | CCWGG | 4 cut(s) | 336, 1237, 1404, 1539 |
| Bst4CI | ACNGT | 6 cut(s) | 298, 643, 1250, 2025, 2439, 2545 |
| Bst6I | CTCTTC | 6 cut(s) | 22, 870, 969, 1143, 1612, 1920 |
| BstACI | GRCGYC | 1 cut(s) | 1226 |
| BstAFI | CTTAAG | 1 cut(s) | 727 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 1076, 2102 |
| BstAUI | TGTACA | 2 cut(s) | 888, 1739 |
| BstBAI | YACGTR | 3 cut(s) | 1205, 1442, 1865 |
| BstDEI | CTNAG | 6 cut(s) | 110, 237, 243, 783, 1358, 2265 |
| BstDSI | CCRYGG | 1 cut(s) | 2421 |
| BstEII | GGTNACC | 1 cut(s) | 75 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1721 |
| BstF5I | GGATG | 7 cut(s) | 175, 445, 564, 688, 1708, 2647, 2672 |
| BstH2I | RGCGCY | 1 cut(s) | 2486 |
| BstHHI | GCGC | 2 cut(s) | 553, 2485 |
| BstMAI | GTCTC | 4 cut(s) | 567, 1046, 1394, 2441 |
| BstNI | CCWGG | 4 cut(s) | 336, 1237, 1404, 1539 |
| BstNSI | RCATGY | 2 cut(s) | 349, 1628 |
| BstPI | GGTNACC | 1 cut(s) | 75 |
| BstSFI | CTRYAG | 5 cut(s) | 258, 2094, 2154, 2232, 2622 |
| BstSLI | GKGCMC | 1 cut(s) | 53 |
| BstV1I | GCAGC | 6 cut(s) | 817, 1030, 1922, 2246, 2801, 2870 |
| BstV2I | GAAGAC | 4 cut(s) | 749, 1862, 2786, 2816 |
| BstX2I | RGATCY | 5 cut(s) | 364, 631, 1663, 1983, 2751 |
| BstYI | RGATCY | 5 cut(s) | 364, 631, 1663, 1983, 2751 |
| BstZ17I | GTATAC | 1 cut(s) | 1763 |
| BtgI | CCRYGG | 1 cut(s) | 2421 |
| BtgZI | GCGATG | 1 cut(s) | 1496 |
| BtsCI | GGATG | 7 cut(s) | 175, 445, 564, 688, 1708, 2647, 2672 |
| BtsI | GCAGTG | 2 cut(s) | 863, 2218 |
| BtsIMutI | CAGTG | 8 cut(s) | 635, 863, 1255, 1815, 2218, 2435, 2541, 2692 |
| BveI | ACCTGC | 2 cut(s) | 2044, 2101 |
| CaiI | CAGNNNCTG | 2 cut(s) | 476, 2240 |
| CciI | TCATGA | 1 cut(s) | 2182 |
| CfoI | GCGC | 2 cut(s) | 553, 2485 |
| Cfr13I | GGNCC | 9 cut(s) | 49, 50, 61, 69, 135, 1297, 1397, 2628, 2645 |
| Csp6I | GTAC | 5 cut(s) | 543, 889, 1740, 2054, 2526 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 2440, 2475 |
| CviQI | GTAC | 5 cut(s) | 543, 889, 1740, 2054, 2526 |
| DdeI | CTNAG | 6 cut(s) | 110, 237, 243, 783, 1358, 2265 |
| DraIII | CACNNNGTG | 1 cut(s) | 2545 |
| EaeI | YGGCCR | 3 cut(s) | 124, 2547, 2718 |
| Eam1104I | CTCTTC | 6 cut(s) | 22, 870, 969, 1143, 1612, 1920 |
| EarI | CTCTTC | 6 cut(s) | 22, 870, 969, 1143, 1612, 1920 |
| EciI | GGCGGA | 1 cut(s) | 2781 |
| Ecl136II | GAGCTC | 2 cut(s) | 114, 1657 |
| Eco130I | CCWWGG | 4 cut(s) | 210, 568, 1722, 2421 |
| Eco24I | GRGCYC | 3 cut(s) | 53, 116, 1659 |
| Eco31I | GGTCTC | 2 cut(s) | 567, 2441 |
| Eco47I | GGWCC | 1 cut(s) | 1297 |
| Eco47III | AGCGCT | 1 cut(s) | 2484 |
| Eco53kI | GAGCTC | 2 cut(s) | 114, 1657 |
| Eco57I | CTGAAG | 5 cut(s) | 237, 761, 932, 2262, 2847 |
| Eco72I | CACGTG | 2 cut(s) | 1442, 1865 |
| Eco88I | CYCGRG | 1 cut(s) | 2564 |
| Eco91I | GGTNACC | 1 cut(s) | 75 |
| EcoICRI | GAGCTC | 2 cut(s) | 114, 1657 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1721 |
| EcoO109I | RGGNCCY | 1 cut(s) | 50 |
| EcoO65I | GGTNACC | 1 cut(s) | 75 |
| EcoRII | CCWGG | 4 cut(s) | 334, 1235, 1402, 1537 |
| EcoT14I | CCWWGG | 4 cut(s) | 210, 568, 1722, 2421 |
| EcoT38I | GRGCYC | 3 cut(s) | 53, 116, 1659 |
| ErhI | CCWWGG | 4 cut(s) | 210, 568, 1722, 2421 |
| FalI | AAGNNNNNCTT | 8 cut(s) | 570, 602, 1137, 1169, 2469, 2501, 2862, 2894 |
| FaqI | GGGAC | 4 cut(s) | 463, 1521, 1856, 2204 |
| FauI | CCCGC | 3 cut(s) | 211, 1942, 2071 |
| FauNDI | CATATG | 1 cut(s) | 415 |
| FbaI | TGATCA | 2 cut(s) | 2077, 2667 |
| FblI | GTMKAC | 1 cut(s) | 1762 |
| FokI | GGATG | 7 cut(s) | 182, 452, 551, 695, 1715, 2654, 2659 |
| FriOI | GRGCYC | 3 cut(s) | 53, 116, 1659 |
| FspI | TGCGCA | 1 cut(s) | 552 |
| GlaI | GCGC | 2 cut(s) | 552, 2484 |
| GsaI | CCCAGC | 1 cut(s) | 1809 |
| GsuI | CTGGAG | 2 cut(s) | 441, 1425 |
| HaeII | RGCGCY | 1 cut(s) | 2486 |
| HhaI | GCGC | 2 cut(s) | 553, 2485 |
| Hin1I | GRCGYC | 1 cut(s) | 1226 |
| Hin6I | GCGC | 2 cut(s) | 551, 2483 |
| HinP1I | GCGC | 2 cut(s) | 551, 2483 |
| HincII | GTYRAC | 5 cut(s) | 625, 652, 1224, 1897, 2501 |
| HindII | GTYRAC | 5 cut(s) | 625, 652, 1224, 1897, 2501 |
| HindIII | AAGCTT | 3 cut(s) | 8, 944, 2603 |
| HphI | GGTGA | 6 cut(s) | 69, 242, 445, 806, 1643, 2345 |
| Hpy99I | CGWCG | 2 cut(s) | 94, 182 |
| HpyAV | CCTTC | 8 cut(s) | 355, 430, 1030, 1973, 2765, 2767, 2833, 2867 |
| HpyCH4III | ACNGT | 6 cut(s) | 298, 643, 1250, 2025, 2439, 2545 |
| HpyCH4IV | ACGT | 4 cut(s) | 1204, 1226, 1441, 1864 |
| HpyF3I | CTNAG | 6 cut(s) | 110, 237, 243, 783, 1358, 2265 |
| HpySE526I | ACGT | 4 cut(s) | 1204, 1226, 1441, 1864 |
| Hsp92I | GRCGYC | 1 cut(s) | 1226 |
| HspAI | GCGC | 2 cut(s) | 551, 2483 |
| Ksp22I | TGATCA | 2 cut(s) | 2077, 2667 |
| LguI | GCTCTTC | 3 cut(s) | 870, 1143, 1920 |
| LmnI | GCTCC | 9 cut(s) | 105, 188, 415, 422, 827, 1654, 1662, 1774, 2480 |
| Lsp1109I | GCAGC | 6 cut(s) | 817, 1030, 1922, 2246, 2801, 2870 |
| LweI | GCATC | 4 cut(s) | 160, 573, 2107, 2379 |
| MaeII | ACGT | 4 cut(s) | 1204, 1226, 1441, 1864 |
| MaeIII | GTNAC | 5 cut(s) | 75, 794, 1198, 2333, 2734 |
| MfeI | CAATTG | 3 cut(s) | 1434, 1710, 2760 |
| MflI | RGATCY | 5 cut(s) | 364, 631, 1663, 1983, 2751 |
| MhlI | GDGCHC | 3 cut(s) | 53, 116, 1659 |
| MlsI | TGGCCA | 2 cut(s) | 2549, 2720 |
| MluNI | TGGCCA | 2 cut(s) | 2549, 2720 |
| MlyI | GAGTC | 2 cut(s) | 2171, 2377 |
| MmeI | TCCRAC | 5 cut(s) | 1152, 1330, 1456, 1549, 1632 |
| Mox20I | TGGCCA | 2 cut(s) | 2549, 2720 |
| MroXI | GAANNNNTTC | 2 cut(s) | 1284, 2585 |
| MscI | TGGCCA | 2 cut(s) | 2549, 2720 |
| MseI | TTAA | 8 cut(s) | 503, 522, 728, 1023, 1194, 1310, 1560, 2706 |
| MslI | CAYNNNNRTG | 5 cut(s) | 792, 1629, 2187, 2613, 2675 |
| Msp20I | TGGCCA | 2 cut(s) | 2549, 2720 |
| MspA1I | CMGCKG | 1 cut(s) | 1168 |
| MspCI | CTTAAG | 1 cut(s) | 727 |
| MunI | CAATTG | 3 cut(s) | 1434, 1710, 2760 |
| MvaI | CCWGG | 4 cut(s) | 336, 1237, 1404, 1539 |
| NciI | CCSGG | 6 cut(s) | 68, 73, 104, 152, 447, 1274 |
| NcoI | CCATGG | 1 cut(s) | 2421 |
| NdeI | CATATG | 1 cut(s) | 415 |
| NheI | GCTAGC | 1 cut(s) | 376 |
| NlaIV | GGNNCC | 8 cut(s) | 51, 184, 366, 633, 1961, 2431, 2629, 2753 |
| NmuCI | GTSAC | 4 cut(s) | 75, 794, 1198, 2333 |
| NsbI | TGCGCA | 1 cut(s) | 552 |
| NspI | RCATGY | 2 cut(s) | 349, 1628 |
| PaeR7I | CTCGAG | 1 cut(s) | 2564 |
| PagI | TCATGA | 1 cut(s) | 2182 |
| PasI | CCCWGGG | 1 cut(s) | 1236 |
| PciSI | GCTCTTC | 3 cut(s) | 870, 1143, 1920 |
| PdmI | GAANNNNTTC | 2 cut(s) | 1284, 2585 |
| PfeI | GAWTC | 8 cut(s) | 130, 901, 1365, 1450, 2108, 2252, 2321, 2597 |
| PflFI | GACNNNGTC | 1 cut(s) | 689 |
| PflMI | CCANNNNNTGG | 3 cut(s) | 419, 2642, 2654 |
| PfoI | TCCNGGA | 1 cut(s) | 1402 |
| PleI | GAGTC | 2 cut(s) | 2170, 2377 |
| PmaCI | CACGTG | 2 cut(s) | 1442, 1865 |
| PmlI | CACGTG | 2 cut(s) | 1442, 1865 |
| PpsI | GAGTC | 2 cut(s) | 2170, 2377 |
| Ppu21I | YACGTR | 3 cut(s) | 1205, 1442, 1865 |
| Psp124BI | GAGCTC | 2 cut(s) | 116, 1659 |
| Psp6I | CCWGG | 4 cut(s) | 334, 1235, 1402, 1537 |
| PspCI | CACGTG | 2 cut(s) | 1442, 1865 |
| PspEI | GGTNACC | 1 cut(s) | 75 |
| PspFI | CCCAGC | 1 cut(s) | 1805 |
| PspGI | CCWGG | 4 cut(s) | 334, 1235, 1402, 1537 |
| PspN4I | GGNNCC | 8 cut(s) | 51, 184, 366, 633, 1961, 2431, 2629, 2753 |
| PspOMI | GGGCCC | 1 cut(s) | 49 |
| PspPI | GGNCC | 9 cut(s) | 49, 50, 61, 69, 135, 1297, 1397, 2628, 2645 |
| PstI | CTGCAG | 4 cut(s) | 2098, 2158, 2236, 2626 |
| PstNI | CAGNNNCTG | 2 cut(s) | 476, 2240 |
| PsuI | RGATCY | 5 cut(s) | 364, 631, 1663, 1983, 2751 |
| PsyI | GACNNNGTC | 1 cut(s) | 689 |
| PvuII | CAGCTG | 1 cut(s) | 1168 |
| RsaI | GTAC | 5 cut(s) | 544, 890, 1741, 2055, 2527 |
| RsaNI | GTAC | 5 cut(s) | 543, 889, 1740, 2054, 2526 |
| RseI | CAYNNNNRTG | 5 cut(s) | 792, 1629, 2187, 2613, 2675 |
| SacI | GAGCTC | 2 cut(s) | 116, 1659 |
| SapI | GCTCTTC | 3 cut(s) | 870, 1143, 1920 |
| SaqAI | TTAA | 8 cut(s) | 503, 522, 728, 1023, 1194, 1310, 1560, 2706 |
| Sau96I | GGNCC | 9 cut(s) | 49, 50, 61, 69, 135, 1297, 1397, 2628, 2645 |
| SbfI | CCTGCAGG | 1 cut(s) | 2626 |
| SchI | GAGTC | 2 cut(s) | 2171, 2377 |
| SdaI | CCTGCAGG | 1 cut(s) | 2626 |
| SduI | GDGCHC | 3 cut(s) | 53, 116, 1659 |
| SfaNI | GCATC | 4 cut(s) | 160, 573, 2107, 2379 |
| SfcI | CTRYAG | 5 cut(s) | 258, 2094, 2154, 2232, 2622 |
| Sfr274I | CTCGAG | 1 cut(s) | 2564 |
| SinI | GGWCC | 1 cut(s) | 1297 |
| SlaI | CTCGAG | 1 cut(s) | 2564 |
| SmiMI | CAYNNNNRTG | 5 cut(s) | 792, 1629, 2187, 2613, 2675 |
| SmlI | CTYRAG | 4 cut(s) | 659, 727, 2454, 2564 |
| SmoI | CTYRAG | 4 cut(s) | 659, 727, 2454, 2564 |
| SpeI | ACTAGT | 1 cut(s) | 746 |
| Sse8387I | CCTGCAGG | 1 cut(s) | 2626 |
| SspI | AATATT | 1 cut(s) | 2559 |
| SstI | GAGCTC | 2 cut(s) | 116, 1659 |
| StyI | CCWWGG | 4 cut(s) | 210, 568, 1722, 2421 |
| TaaI | ACNGT | 6 cut(s) | 298, 643, 1250, 2025, 2439, 2545 |
| TaiI | ACGT | 4 cut(s) | 1207, 1229, 1444, 1867 |
| TaqI | TCGA | 7 cut(s) | 116, 1184, 1605, 1755, 1942, 2565, 2928 |
| TatI | WGTACW | 4 cut(s) | 888, 1739, 2053, 2525 |
| TauI | GCSGC | 6 cut(s) | 218, 319, 383, 604, 1002, 1878 |
| TfiI | GAWTC | 8 cut(s) | 130, 901, 1365, 1450, 2108, 2252, 2321, 2597 |
| Tru1I | TTAA | 8 cut(s) | 503, 522, 728, 1023, 1194, 1310, 1560, 2706 |
| Tru9I | TTAA | 8 cut(s) | 503, 522, 728, 1023, 1194, 1310, 1560, 2706 |
| TscAI | CASTG | 8 cut(s) | 642, 863, 1255, 1822, 2218, 2442, 2548, 2692 |
| TseFI | GTSAC | 4 cut(s) | 75, 794, 1198, 2333 |
| TseI | GCWGC | 6 cut(s) | 830, 1018, 1910, 2234, 2789, 2858 |
| Tsp45I | GTSAC | 4 cut(s) | 75, 794, 1198, 2333 |
| TspGWI | ACGGA | 3 cut(s) | 497, 622, 1320 |
| TspRI | CASTG | 8 cut(s) | 642, 863, 1255, 1822, 2218, 2442, 2548, 2692 |
| Tth111I | GACNNNGTC | 1 cut(s) | 689 |
| Van91I | CCANNNNNTGG | 3 cut(s) | 419, 2642, 2654 |
| Vha464I | CTTAAG | 1 cut(s) | 727 |
| VpaK11BI | GGWCC | 1 cut(s) | 1297 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1721 |
| XapI | RAATTY | 5 cut(s) | 84, 1190, 1284, 1337, 2271 |
| XbaI | TCTAGA | 1 cut(s) | 1687 |
| XceI | RCATGY | 2 cut(s) | 349, 1628 |
| XhoI | CTCGAG | 1 cut(s) | 2564 |
| XmiI | GTMKAC | 1 cut(s) | 1762 |
| XmnI | GAANNNNTTC | 2 cut(s) | 1284, 2585 |
| ZraI | GACGTC | 1 cut(s) | 1227 |