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 | 96 - 305 | 3.5e-36 | ATP-dependent protease La (LON) substrate-binding domain |
| AAA | PF00004 | 458 - 595 | 2e-23 | ATPase family associated with various cellular activities (AAA) |
| Lon_lid | PF22667 | 621 - 670 | 2.5e-19 | Lon protease AAA+ ATPase lid domain |
| Lon_C | PF05362 | 782 - 986 | 1e-75 | Lon protease (S16) C-terminal proteolytic domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 879 |
| AarI | CACCTGC | 1 cut(s) | 1928 |
| AasI | GACNNNNNNGTC | 2 cut(s) | 51, 569 |
| Acc16I | TGCGCA | 1 cut(s) | 540 |
| Acc36I | ACCTGC | 1 cut(s) | 1928 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 190, 2672 |
| AccBSI | CCGCTC | 1 cut(s) | 60 |
| AcoI | YGGCCR | 2 cut(s) | 65, 2527 |
| AcsI | RAATTY | 4 cut(s) | 1178, 1272, 1325, 2626 |
| AcuI | CTGAAG | 3 cut(s) | 20, 26, 668 |
| AcvI | CACGTG | 2 cut(s) | 1430, 1853 |
| AfaI | GTAC | 3 cut(s) | 1539, 1729, 2557 |
| AfeI | AGCGCT | 1 cut(s) | 1059 |
| AflII | CTTAAG | 1 cut(s) | 715 |
| AflIII | ACRYGT | 2 cut(s) | 1190, 1850 |
| AhlI | ACTAGT | 1 cut(s) | 904 |
| AjnI | CCWGG | 4 cut(s) | 62, 183, 1390, 1525 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 185, 217 |
| Alw26I | GTCTC | 6 cut(s) | 59, 461, 555, 1034, 1824, 2471 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 2282 |
| Ama87I | CYCGRG | 1 cut(s) | 1655 |
| Aor51HI | AGCGCT | 1 cut(s) | 1059 |
| AoxI | GGCC | 9 cut(s) | 65, 222, 266, 1164, 1384, 1609, 2060, 2527, 2658 |
| ApeKI | GCWGC | 6 cut(s) | 368, 1006, 1153, 1898, 2819, 2858 |
| ApoI | RAATTY | 4 cut(s) | 1178, 1272, 1325, 2626 |
| AspLEI | GCGC | 4 cut(s) | 541, 987, 1060, 1267 |
| AspS9I | GGNCC | 9 cut(s) | 216, 267, 438, 571, 1385, 1609, 2060, 2658, 2675 |
| AsuC2I | CCSGG | 3 cut(s) | 265, 324, 435 |
| AsuHPI | GGTGA | 5 cut(s) | 794, 989, 1631, 2343, 2549 |
| AsuII | TTCGAA | 1 cut(s) | 595 |
| AvaI | CYCGRG | 1 cut(s) | 1655 |
| AvaII | GGWCC | 4 cut(s) | 216, 438, 571, 2675 |
| BaeGI | GKGCMC | 1 cut(s) | 1435 |
| BalI | TGGCCA | 1 cut(s) | 2529 |
| BamHI | GGATCC | 3 cut(s) | 352, 2510, 2781 |
| BbrPI | CACGTG | 2 cut(s) | 1430, 1853 |
| BbsI | GAAGAC | 5 cut(s) | 12, 228, 1850, 2377, 2846 |
| BbvI | GCAGC | 6 cut(s) | 380, 1018, 1165, 1910, 2831, 2870 |
| BccI | CCATC | 7 cut(s) | 601, 651, 1025, 1528, 2051, 2666, 2852 |
| BceAI | ACGGC | 1 cut(s) | 1319 |
| BcgI | CGANNNNNNTGC | 4 cut(s) | 1646, 1680, 2867, 2901 |
| BciT130I | CCWGG | 4 cut(s) | 64, 185, 1392, 1527 |
| BclI | TGATCA | 3 cut(s) | 2035, 2407, 2697 |
| BcnI | CCSGG | 3 cut(s) | 265, 324, 435 |
| BcoDI | GTCTC | 6 cut(s) | 59, 461, 555, 1034, 1824, 2471 |
| BcuI | ACTAGT | 1 cut(s) | 904 |
| BfaI | CTAG | 8 cut(s) | 132, 869, 905, 1202, 1676, 1827, 2145, 2679 |
| BfmI | CTRYAG | 7 cut(s) | 1151, 1234, 2064, 2160, 2253, 2856, 2932 |
| BfoI | RGCGCY | 2 cut(s) | 988, 1061 |
| BfrI | CTTAAG | 1 cut(s) | 715 |
| BfuAI | ACCTGC | 1 cut(s) | 1928 |
| BglII | AGATCT | 1 cut(s) | 1971 |
| BlpI | GCTNAGC | 1 cut(s) | 75 |
| Bme1390I | CCNGG | 7 cut(s) | 64, 185, 265, 324, 435, 1392, 1527 |
| Bme18I | GGWCC | 4 cut(s) | 216, 438, 571, 2675 |
| BmeT110I | CYCGRG | 1 cut(s) | 1655 |
| BmgT120I | GGNCC | 9 cut(s) | 216, 267, 438, 571, 1385, 1609, 2060, 2658, 2675 |
| BmrFI | CCNGG | 7 cut(s) | 64, 185, 265, 324, 435, 1392, 1527 |
| BmrI | ACTGGG | 4 cut(s) | 441, 1040, 2411, 2784 |
| BmsI | GCATC | 6 cut(s) | 561, 1507, 1885, 2021, 2269, 2296 |
| BmuI | ACTGGG | 4 cut(s) | 441, 1040, 2411, 2784 |
| BoxI | GACNNNNGTC | 1 cut(s) | 2934 |
| BpiI | GAAGAC | 5 cut(s) | 12, 228, 1850, 2377, 2846 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 224, 256, 711, 743 |
| BpmI | CTGGAG | 2 cut(s) | 1413, 2232 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 75 |
| Bpu14I | TTCGAA | 1 cut(s) | 595 |
| BpuEI | CTTGAG | 3 cut(s) | 407, 713, 1344 |
| BpuMI | CCSGG | 3 cut(s) | 265, 324, 435 |
| BsaAI | YACGTR | 3 cut(s) | 1193, 1430, 1853 |
| BsaBI | GATNNNNATC | 2 cut(s) | 923, 1284 |
| BsaI | GGTCTC | 2 cut(s) | 555, 2471 |
| BsaJI | CCNNGG | 9 cut(s) | 219, 225, 263, 323, 434, 556, 797, 1223, 2451 |
| BsaWI | WCCGGW | 1 cut(s) | 1452 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 552, 582, 2205, 2235 |
| Bse118I | RCCGGY | 3 cut(s) | 88, 407, 1616 |
| Bse1I | ACTGG | 6 cut(s) | 447, 1035, 1167, 2417, 2530, 2779 |
| Bse3DI | GCAATG | 5 cut(s) | 299, 371, 1788, 1821, 2757 |
| Bse8I | GATNNNNATC | 2 cut(s) | 923, 1284 |
| BseBI | CCWGG | 4 cut(s) | 64, 185, 1392, 1527 |
| BseDI | CCNNGG | 9 cut(s) | 219, 225, 263, 323, 434, 556, 797, 1223, 2451 |
| BseGI | GGATG | 5 cut(s) | 552, 676, 1756, 2311, 2702 |
| BseJI | GATNNNNATC | 2 cut(s) | 923, 1284 |
| BseMI | GCAATG | 5 cut(s) | 299, 371, 1788, 1821, 2757 |
| BseMII | CTCAG | 5 cut(s) | 66, 785, 1360, 2157, 2498 |
| BseNI | ACTGG | 6 cut(s) | 447, 1035, 1167, 2417, 2530, 2779 |
| BseRI | GAGGAG | 1 cut(s) | 2842 |
| BseSI | GKGCMC | 1 cut(s) | 1435 |
| BseXI | GCAGC | 6 cut(s) | 380, 1018, 1165, 1910, 2831, 2870 |
| BseYI | CCCAGC | 2 cut(s) | 79, 2654 |
| BshFI | GGCC | 9 cut(s) | 67, 224, 268, 1166, 1386, 1611, 2062, 2529, 2660 |
| BsiHKCI | CYCGRG | 1 cut(s) | 1655 |
| BslFI | GGGAC | 3 cut(s) | 54, 229, 451 |
| BsmAI | GTCTC | 6 cut(s) | 59, 461, 555, 1034, 1824, 2471 |
| BsmFI | GGGAC | 3 cut(s) | 54, 229, 451 |
| BsmI | GAATGC | 1 cut(s) | 1866 |
| BsnI | GGCC | 9 cut(s) | 67, 224, 268, 1166, 1386, 1611, 2062, 2529, 2660 |
| Bso31I | GGTCTC | 2 cut(s) | 555, 2471 |
| BsoBI | CYCGRG | 1 cut(s) | 1655 |
| Bsp119I | TTCGAA | 1 cut(s) | 595 |
| Bsp1286I | GDGCHC | 1 cut(s) | 1435 |
| Bsp1407I | TGTACA | 1 cut(s) | 1727 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 75 |
| Bsp19I | CCATGG | 1 cut(s) | 2451 |
| BspANI | GGCC | 9 cut(s) | 67, 224, 268, 1166, 1386, 1611, 2062, 2529, 2660 |
| BspCNI | CTCAG | 5 cut(s) | 67, 784, 1359, 2158, 2497 |
| BspMAI | CTGCAG | 2 cut(s) | 1155, 2860 |
| BspMI | ACCTGC | 1 cut(s) | 1928 |
| BspQI | GCTCTTC | 3 cut(s) | 858, 1131, 1908 |
| BspT104I | TTCGAA | 1 cut(s) | 595 |
| BspTI | CTTAAG | 1 cut(s) | 715 |
| BspTNI | GGTCTC | 2 cut(s) | 555, 2471 |
| BsrBI | CCGCTC | 1 cut(s) | 60 |
| BsrDI | GCAATG | 5 cut(s) | 299, 371, 1788, 1821, 2757 |
| BsrFI | RCCGGY | 3 cut(s) | 88, 407, 1616 |
| BsrGI | TGTACA | 1 cut(s) | 1727 |
| BsrI | ACTGG | 6 cut(s) | 447, 1035, 1167, 2417, 2530, 2779 |
| BssAI | RCCGGY | 3 cut(s) | 88, 407, 1616 |
| BssECI | CCNNGG | 9 cut(s) | 219, 225, 263, 323, 434, 556, 797, 1223, 2451 |
| BssT1I | CCWWGG | 4 cut(s) | 556, 797, 1223, 2451 |
| Bst2UI | CCWGG | 4 cut(s) | 64, 185, 1392, 1527 |
| Bst6I | CTCTTC | 4 cut(s) | 858, 957, 1131, 1908 |
| BstAFI | CTTAAG | 1 cut(s) | 715 |
| BstAUI | TGTACA | 1 cut(s) | 1727 |
| BstBAI | YACGTR | 3 cut(s) | 1193, 1430, 1853 |
| BstBI | TTCGAA | 1 cut(s) | 595 |
| BstC8I | GCNNGC | 8 cut(s) | 72, 90, 110, 114, 142, 396, 409, 2886 |
| BstDEI | CTNAG | 5 cut(s) | 75, 771, 1346, 2166, 2484 |
| BstDSI | CCRYGG | 1 cut(s) | 2451 |
| BstENI | CCTNNNNNAGG | 2 cut(s) | 422, 1709 |
| BstF5I | GGATG | 5 cut(s) | 552, 676, 1756, 2311, 2702 |
| BstH2I | RGCGCY | 2 cut(s) | 988, 1061 |
| BstHHI | GCGC | 4 cut(s) | 541, 987, 1060, 1267 |
| BstMAI | GTCTC | 6 cut(s) | 59, 461, 555, 1034, 1824, 2471 |
| BstNI | CCWGG | 4 cut(s) | 64, 185, 1392, 1527 |
| BstNSI | RCATGY | 1 cut(s) | 337 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 2934 |
| BstSCI | CCNGG | 7 cut(s) | 62, 183, 263, 322, 433, 1390, 1525 |
| BstSFI | CTRYAG | 7 cut(s) | 1151, 1234, 2064, 2160, 2253, 2856, 2932 |
| BstSLI | GKGCMC | 1 cut(s) | 1435 |
| BstV1I | GCAGC | 6 cut(s) | 380, 1018, 1165, 1910, 2831, 2870 |
| BstV2I | GAAGAC | 5 cut(s) | 12, 228, 1850, 2377, 2846 |
| BstX2I | RGATCY | 5 cut(s) | 352, 1971, 2236, 2510, 2781 |
| BstYI | RGATCY | 5 cut(s) | 352, 1971, 2236, 2510, 2781 |
| BsuRI | GGCC | 9 cut(s) | 67, 224, 268, 1166, 1386, 1611, 2062, 2529, 2660 |
| BtgI | CCRYGG | 1 cut(s) | 2451 |
| BtsCI | GGATG | 5 cut(s) | 552, 676, 1756, 2311, 2702 |
| BtsIMutI | CAGTG | 6 cut(s) | 314, 1243, 1803, 2091, 2523, 2965 |
| BveI | ACCTGC | 1 cut(s) | 1928 |
| Cac8I | GCNNGC | 8 cut(s) | 72, 90, 110, 114, 142, 396, 409, 2886 |
| CaiI | CAGNNNCTG | 1 cut(s) | 2282 |
| CfoI | GCGC | 4 cut(s) | 541, 987, 1060, 1267 |
| Cfr10I | RCCGGY | 3 cut(s) | 88, 407, 1616 |
| Cfr13I | GGNCC | 9 cut(s) | 216, 267, 438, 571, 1385, 1609, 2060, 2658, 2675 |
| CsiI | ACCWGGT | 1 cut(s) | 183 |
| Csp6I | GTAC | 3 cut(s) | 1538, 1728, 2556 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 2470, 2505 |
| CviQI | GTAC | 3 cut(s) | 1538, 1728, 2556 |
| DdeI | CTNAG | 5 cut(s) | 75, 771, 1346, 2166, 2484 |
| DraI | TTTAAA | 1 cut(s) | 888 |
| DrdI | GACNNNNNNGTC | 2 cut(s) | 51, 569 |
| DseDI | GACNNNNNNGTC | 2 cut(s) | 51, 569 |
| EaeI | YGGCCR | 2 cut(s) | 65, 2527 |
| Eam1104I | CTCTTC | 4 cut(s) | 858, 957, 1131, 1908 |
| EarI | CTCTTC | 4 cut(s) | 858, 957, 1131, 1908 |
| EciI | GGCGGA | 2 cut(s) | 232, 245 |
| Eco130I | CCWWGG | 4 cut(s) | 556, 797, 1223, 2451 |
| Eco31I | GGTCTC | 2 cut(s) | 555, 2471 |
| Eco47I | GGWCC | 4 cut(s) | 216, 438, 571, 2675 |
| Eco47III | AGCGCT | 1 cut(s) | 1059 |
| Eco57I | CTGAAG | 3 cut(s) | 20, 26, 668 |
| Eco72I | CACGTG | 2 cut(s) | 1430, 1853 |
| Eco88I | CYCGRG | 1 cut(s) | 1655 |
| EcoNI | CCTNNNNNAGG | 2 cut(s) | 422, 1709 |
| EcoRII | CCWGG | 4 cut(s) | 62, 183, 1390, 1525 |
| EcoT14I | CCWWGG | 4 cut(s) | 556, 797, 1223, 2451 |
| ErhI | CCWWGG | 4 cut(s) | 556, 797, 1223, 2451 |
| FaqI | GGGAC | 3 cut(s) | 54, 229, 451 |
| FauI | CCCGC | 3 cut(s) | 79, 205, 2789 |
| FauNDI | CATATG | 1 cut(s) | 403 |
| FbaI | TGATCA | 3 cut(s) | 2035, 2407, 2697 |
| FokI | GGATG | 5 cut(s) | 539, 683, 1743, 2318, 2689 |
| FspBI | CTAG | 8 cut(s) | 132, 869, 905, 1202, 1676, 1827, 2145, 2679 |
| FspI | TGCGCA | 1 cut(s) | 540 |
| GlaI | GCGC | 4 cut(s) | 540, 986, 1059, 1266 |
| GsaI | CCCAGC | 2 cut(s) | 83, 2658 |
| GsuI | CTGGAG | 2 cut(s) | 1413, 2232 |
| HaeII | RGCGCY | 2 cut(s) | 988, 1061 |
| HaeIII | GGCC | 9 cut(s) | 67, 224, 268, 1166, 1386, 1611, 2062, 2529, 2660 |
| HhaI | GCGC | 4 cut(s) | 541, 987, 1060, 1267 |
| Hin6I | GCGC | 4 cut(s) | 539, 985, 1058, 1265 |
| HinP1I | GCGC | 4 cut(s) | 539, 985, 1058, 1265 |
| HincII | GTYRAC | 3 cut(s) | 640, 1212, 2347 |
| HindII | GTYRAC | 3 cut(s) | 640, 1212, 2347 |
| HindIII | AAGCTT | 2 cut(s) | 8, 2633 |
| HphI | GGTGA | 5 cut(s) | 794, 989, 1631, 2343, 2549 |
| Hpy166II | GTNNAC | 6 cut(s) | 255, 640, 980, 1212, 2089, 2347 |
| Hpy8I | GTNNAC | 6 cut(s) | 255, 640, 980, 1212, 2089, 2347 |
| Hpy99I | CGWCG | 2 cut(s) | 176, 2882 |
| HpyCH4IV | ACGT | 4 cut(s) | 1192, 1429, 1852, 2465 |
| HpyF3I | CTNAG | 5 cut(s) | 75, 771, 1346, 2166, 2484 |
| HpySE526I | ACGT | 4 cut(s) | 1192, 1429, 1852, 2465 |
| HspAI | GCGC | 4 cut(s) | 539, 985, 1058, 1265 |
| KroI | GCCGGC | 2 cut(s) | 88, 407 |
| KroNI | GCCGGC | 2 cut(s) | 90, 409 |
| Ksp22I | TGATCA | 3 cut(s) | 2035, 2407, 2697 |
| LguI | GCTCTTC | 3 cut(s) | 858, 1131, 1908 |
| LmnI | GCTCC | 6 cut(s) | 65, 403, 815, 1642, 2009, 2829 |
| Lsp1109I | GCAGC | 6 cut(s) | 380, 1018, 1165, 1910, 2831, 2870 |
| LweI | GCATC | 6 cut(s) | 561, 1507, 1885, 2021, 2269, 2296 |
| MabI | ACCWGGT | 1 cut(s) | 183 |
| MaeI | CTAG | 8 cut(s) | 132, 869, 905, 1202, 1676, 1827, 2145, 2679 |
| MaeII | ACGT | 4 cut(s) | 1192, 1429, 1852, 2465 |
| MaeIII | GTNAC | 9 cut(s) | 782, 1186, 1442, 1853, 1888, 2180, 2221, 2521, 2764 |
| MbiI | CCGCTC | 1 cut(s) | 60 |
| MfeI | CAATTG | 2 cut(s) | 957, 1422 |
| MflI | RGATCY | 5 cut(s) | 352, 1971, 2236, 2510, 2781 |
| MhlI | GDGCHC | 1 cut(s) | 1435 |
| MlsI | TGGCCA | 1 cut(s) | 2529 |
| MluNI | TGGCCA | 1 cut(s) | 2529 |
| MlyI | GAGTC | 8 cut(s) | 39, 118, 158, 242, 950, 1850, 2229, 2342 |
| MmeI | TCCRAC | 4 cut(s) | 1140, 1318, 1620, 2401 |
| Mox20I | TGGCCA | 1 cut(s) | 2529 |
| MroNI | GCCGGC | 2 cut(s) | 88, 407 |
| MscI | TGGCCA | 1 cut(s) | 2529 |
| MslI | CAYNNNNRTG | 4 cut(s) | 780, 1617, 2643, 2705 |
| Msp20I | TGGCCA | 1 cut(s) | 2529 |
| MspA1I | CMGCKG | 3 cut(s) | 74, 1156, 2165 |
| MspCI | CTTAAG | 1 cut(s) | 715 |
| MspR9I | CCNGG | 7 cut(s) | 64, 185, 265, 324, 435, 1392, 1527 |
| MunI | CAATTG | 2 cut(s) | 957, 1422 |
| Mva1269I | GAATGC | 1 cut(s) | 1866 |
| MvaI | CCWGG | 4 cut(s) | 64, 185, 1392, 1527 |
| NaeI | GCCGGC | 2 cut(s) | 90, 409 |
| NciI | CCSGG | 3 cut(s) | 265, 324, 435 |
| NcoI | CCATGG | 1 cut(s) | 2451 |
| NdeI | CATATG | 1 cut(s) | 403 |
| NgoMIV | GCCGGC | 2 cut(s) | 88, 407 |
| NmeAIII | GCCGAG | 5 cut(s) | 84, 116, 170, 250, 1955 |
| NmuCI | GTSAC | 6 cut(s) | 782, 1186, 1853, 1888, 2221, 2521 |
| NsbI | TGCGCA | 1 cut(s) | 540 |
| NspI | RCATGY | 1 cut(s) | 337 |
| NspV | TTCGAA | 1 cut(s) | 595 |
| PaqCI | CACCTGC | 1 cut(s) | 1928 |
| PciSI | GCTCTTC | 3 cut(s) | 858, 1131, 1908 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 23 |
| PctI | GAATGC | 1 cut(s) | 1866 |
| PdiI | GCCGGC | 2 cut(s) | 90, 409 |
| PfeI | GAWTC | 6 cut(s) | 259, 934, 2227, 2249, 2297, 2400 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 190, 2672 |
| PleI | GAGTC | 8 cut(s) | 39, 118, 158, 241, 949, 1850, 2228, 2342 |
| PmaCI | CACGTG | 2 cut(s) | 1430, 1853 |
| PmlI | CACGTG | 2 cut(s) | 1430, 1853 |
| PpsI | GAGTC | 8 cut(s) | 39, 118, 158, 241, 949, 1850, 2228, 2342 |
| Ppu21I | YACGTR | 3 cut(s) | 1193, 1430, 1853 |
| PshAI | GACNNNNGTC | 1 cut(s) | 2934 |
| PsiI | TTATAA | 1 cut(s) | 879 |
| Psp6I | CCWGG | 4 cut(s) | 62, 183, 1390, 1525 |
| PspCI | CACGTG | 2 cut(s) | 1430, 1853 |
| PspFI | CCCAGC | 2 cut(s) | 79, 2654 |
| PspGI | CCWGG | 4 cut(s) | 62, 183, 1390, 1525 |
| PspPI | GGNCC | 9 cut(s) | 216, 267, 438, 571, 1385, 1609, 2060, 2658, 2675 |
| PstI | CTGCAG | 2 cut(s) | 1155, 2860 |
| PstNI | CAGNNNCTG | 1 cut(s) | 2282 |
| PsuI | RGATCY | 5 cut(s) | 352, 1971, 2236, 2510, 2781 |
| PvuII | CAGCTG | 2 cut(s) | 1156, 2165 |
| RsaI | GTAC | 3 cut(s) | 1539, 1729, 2557 |
| RsaNI | GTAC | 3 cut(s) | 1538, 1728, 2556 |
| RseI | CAYNNNNRTG | 4 cut(s) | 780, 1617, 2643, 2705 |
| SapI | GCTCTTC | 3 cut(s) | 858, 1131, 1908 |
| Sau96I | GGNCC | 9 cut(s) | 216, 267, 438, 571, 1385, 1609, 2060, 2658, 2675 |
| SchI | GAGTC | 8 cut(s) | 39, 118, 158, 242, 950, 1850, 2229, 2342 |
| ScrFI | CCNGG | 7 cut(s) | 64, 185, 265, 324, 435, 1392, 1527 |
| SduI | GDGCHC | 1 cut(s) | 1435 |
| SexAI | ACCWGGT | 1 cut(s) | 183 |
| SfaNI | GCATC | 6 cut(s) | 561, 1507, 1885, 2021, 2269, 2296 |
| SfcI | CTRYAG | 7 cut(s) | 1151, 1234, 2064, 2160, 2253, 2856, 2932 |
| SfuI | TTCGAA | 1 cut(s) | 595 |
| SinI | GGWCC | 4 cut(s) | 216, 438, 571, 2675 |
| SmiMI | CAYNNNNRTG | 4 cut(s) | 780, 1617, 2643, 2705 |
| SmlI | CTYRAG | 4 cut(s) | 422, 715, 728, 1359 |
| SmoI | CTYRAG | 4 cut(s) | 422, 715, 728, 1359 |
| SpeI | ACTAGT | 1 cut(s) | 904 |
| SspMI | CTAG | 8 cut(s) | 132, 869, 905, 1202, 1676, 1827, 2145, 2679 |
| StyD4I | CCNGG | 7 cut(s) | 62, 183, 263, 322, 433, 1390, 1525 |
| StyI | CCWWGG | 4 cut(s) | 556, 797, 1223, 2451 |
| TaiI | ACGT | 4 cut(s) | 1195, 1432, 1855, 2468 |
| TaqI | TCGA | 6 cut(s) | 514, 595, 1593, 1701, 2595, 2877 |
| TaqII | GACCGA | 2 cut(s) | 233, 455 |
| TatI | WGTACW | 1 cut(s) | 1727 |
| TauI | GCSGC | 5 cut(s) | 70, 307, 394, 821, 990 |
| TfiI | GAWTC | 6 cut(s) | 259, 934, 2227, 2249, 2297, 2400 |
| TscAI | CASTG | 6 cut(s) | 321, 1243, 1810, 2098, 2530, 2965 |
| TseFI | GTSAC | 6 cut(s) | 782, 1186, 1853, 1888, 2221, 2521 |
| TseI | GCWGC | 6 cut(s) | 368, 1006, 1153, 1898, 2819, 2858 |
| Tsp45I | GTSAC | 6 cut(s) | 782, 1186, 1853, 1888, 2221, 2521 |
| TspGWI | ACGGA | 2 cut(s) | 2249, 2704 |
| TspRI | CASTG | 6 cut(s) | 321, 1243, 1810, 2098, 2530, 2965 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 190, 2672 |
| Vha464I | CTTAAG | 1 cut(s) | 715 |
| VpaK11BI | GGWCC | 4 cut(s) | 216, 438, 571, 2675 |
| XagI | CCTNNNNNAGG | 2 cut(s) | 422, 1709 |
| XapI | RAATTY | 4 cut(s) | 1178, 1272, 1325, 2626 |
| XbaI | TCTAGA | 1 cut(s) | 1675 |
| XceI | RCATGY | 1 cut(s) | 337 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 2651 |
| XspI | CTAG | 8 cut(s) | 132, 869, 905, 1202, 1676, 1827, 2145, 2679 |