Control of topological states of DNA by transient breakage and subsequent rejoining of DNA strands. Topoisomerase II makes double-strand breaks
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| DNA_gyraseB | PF00204 | 235 - 302 | 4.1e-09 | DNA gyrase B |
| Toprim | PF01751 | 373 - 486 | 7.5e-07 | Toprim domain |
| TOPRIM_C | PF16898 | 487 - 614 | 1.1e-48 | C-terminal associated domain of TOPRIM |
| DNA_topoisoIV | PF00521 | 617 - 701 | 5e-29 | DNA gyrase/topoisomerase IV, subunit A |
| DNA_topoisoIV | PF00521 | 700 - 1051 | 2.4e-62 | DNA gyrase/topoisomerase IV, subunit A |
Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 3 cut(s) | 1463, 2238, 2451 |
| AarI | CACCTGC | 1 cut(s) | 454 |
| AasI | GACNNNNNNGTC | 1 cut(s) | 140 |
| Acc16I | TGCGCA | 2 cut(s) | 3099, 3366 |
| Acc36I | ACCTGC | 3 cut(s) | 45, 454, 3091 |
| AccB1I | GGYRCC | 2 cut(s) | 296, 2293 |
| AccI | GTMKAC | 1 cut(s) | 2556 |
| AccII | CGCG | 1 cut(s) | 1241 |
| AccIII | TCCGGA | 1 cut(s) | 343 |
| AciI | CCGC | 6 cut(s) | 168, 207, 325, 484, 1744, 2269 |
| AclI | AACGTT | 1 cut(s) | 3044 |
| AcoI | YGGCCR | 1 cut(s) | 358 |
| AcsI | RAATTY | 8 cut(s) | 416, 566, 2456, 2547, 2609, 2697, 2708, 2729 |
| AcuI | CTGAAG | 3 cut(s) | 2624, 2967, 3369 |
| AcyI | GRCGYC | 2 cut(s) | 297, 1320 |
| AfiI | CCNNNNNNNGG | 7 cut(s) | 43, 1208, 1993, 2773, 3081, 3082, 3138 |
| AjnI | CCWGG | 3 cut(s) | 1756, 1882, 2153 |
| AjuI | GAANNNNNNNTTGG | 4 cut(s) | 2486, 2518, 2741, 2773 |
| AleI | CACNNNNGTG | 1 cut(s) | 1989 |
| Alw21I | GWGCWC | 2 cut(s) | 60, 2877 |
| Alw26I | GTCTC | 4 cut(s) | 104, 160, 2241, 2393 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 3106 |
| Ama87I | CYCGRG | 2 cut(s) | 537, 1523 |
| Aor13HI | TCCGGA | 1 cut(s) | 343 |
| AoxI | GGCC | 5 cut(s) | 46, 358, 1421, 2490, 3390 |
| ApeKI | GCWGC | 4 cut(s) | 1297, 1741, 2582, 3269 |
| ApoI | RAATTY | 8 cut(s) | 416, 566, 2456, 2547, 2609, 2697, 2708, 2729 |
| AseI | ATTAAT | 1 cut(s) | 2055 |
| Asp700I | GAANNNNTTC | 4 cut(s) | 1011, 2697, 2712, 2888 |
| AspLEI | GCGC | 5 cut(s) | 299, 389, 1241, 3100, 3367 |
| AspS9I | GGNCC | 8 cut(s) | 46, 142, 534, 679, 1183, 1422, 1572, 3334 |
| AsuC2I | CCSGG | 5 cut(s) | 50, 301, 373, 538, 539 |
| AsuII | TTCGAA | 1 cut(s) | 2417 |
| AvaI | CYCGRG | 2 cut(s) | 537, 1523 |
| AvaII | GGWCC | 6 cut(s) | 142, 534, 679, 1183, 1572, 3334 |
| AxyI | CCTNAGG | 3 cut(s) | 2565, 2928, 3246 |
| BamHI | GGATCC | 2 cut(s) | 2302, 2497 |
| BanI | GGYRCC | 2 cut(s) | 296, 2293 |
| BanII | GRGCYC | 1 cut(s) | 2877 |
| BbsI | GAAGAC | 4 cut(s) | 23, 115, 1004, 1043 |
| Bbv12I | GWGCWC | 2 cut(s) | 60, 2877 |
| BbvI | GCAGC | 4 cut(s) | 1309, 1728, 2594, 3281 |
| BceAI | ACGGC | 4 cut(s) | 310, 394, 400, 454 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 166, 200 |
| BciT130I | CCWGG | 3 cut(s) | 1758, 1884, 2155 |
| BclI | TGATCA | 4 cut(s) | 1350, 1360, 1398, 1771 |
| BcnI | CCSGG | 5 cut(s) | 50, 301, 373, 538, 539 |
| BcoDI | GTCTC | 4 cut(s) | 104, 160, 2241, 2393 |
| BfaI | CTAG | 3 cut(s) | 1085, 1640, 2552 |
| BfmI | CTRYAG | 3 cut(s) | 38, 1295, 2541 |
| BfoI | RGCGCY | 1 cut(s) | 300 |
| BfuAI | ACCTGC | 3 cut(s) | 45, 454, 3091 |
| BglII | AGATCT | 1 cut(s) | 180 |
| BisI | GCNGC | 6 cut(s) | 207, 1298, 1742, 1745, 2583, 3270 |
| BlsI | GCNGC | 6 cut(s) | 208, 1299, 1743, 1746, 2584, 3271 |
| BmcAI | AGTACT | 2 cut(s) | 1606, 2539 |
| Bme1390I | CCNGG | 8 cut(s) | 50, 301, 373, 538, 539, 1758, 1884, 2155 |
| Bme18I | GGWCC | 6 cut(s) | 142, 534, 679, 1183, 1572, 3334 |
| BmeT110I | CYCGRG | 2 cut(s) | 537, 1523 |
| BmgT120I | GGNCC | 8 cut(s) | 46, 142, 534, 679, 1183, 1422, 1572, 3334 |
| BmrFI | CCNGG | 8 cut(s) | 50, 301, 373, 538, 539, 1758, 1884, 2155 |
| BmrI | ACTGGG | 1 cut(s) | 1942 |
| BmsI | GCATC | 6 cut(s) | 285, 626, 1066, 1351, 1549, 3310 |
| BmuI | ACTGGG | 1 cut(s) | 1942 |
| BpiI | GAAGAC | 4 cut(s) | 23, 115, 1004, 1043 |
| BpmI | CTGGAG | 4 cut(s) | 1091, 2673, 2958, 3203 |
| Bpu10I | CCTNAGC | 1 cut(s) | 1143 |
| Bpu14I | TTCGAA | 1 cut(s) | 2417 |
| BpuEI | CTTGAG | 5 cut(s) | 230, 1570, 2723, 2891, 3098 |
| BpuMI | CCSGG | 5 cut(s) | 50, 301, 373, 538, 539 |
| Bsa29I | ATCGAT | 1 cut(s) | 92 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1365 |
| BsaHI | GRCGYC | 2 cut(s) | 297, 1320 |
| BsaJI | CCNNGG | 9 cut(s) | 411, 537, 640, 755, 1833, 1987, 2306, 2493, 2767 |
| BsaWI | WCCGGW | 1 cut(s) | 343 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 101, 131, 2820, 2850 |
| Bsc4I | CCNNNNNNNGG | 7 cut(s) | 43, 1208, 1993, 2773, 3081, 3082, 3138 |
| Bse1I | ACTGG | 7 cut(s) | 500, 536, 1948, 2165, 2215, 2329, 3043 |
| Bse21I | CCTNAGG | 3 cut(s) | 2565, 2928, 3246 |
| Bse3DI | GCAATG | 3 cut(s) | 843, 1161, 2253 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1365 |
| BseAI | TCCGGA | 1 cut(s) | 343 |
| BseBI | CCWGG | 3 cut(s) | 1758, 1884, 2155 |
| BseCI | ATCGAT | 1 cut(s) | 92 |
| BseDI | CCNNGG | 9 cut(s) | 411, 537, 640, 755, 1833, 1987, 2306, 2493, 2767 |
| BseGI | GGATG | 4 cut(s) | 641, 765, 1081, 2104 |
| BseJI | GATNNNNATC | 1 cut(s) | 1365 |
| BseLI | CCNNNNNNNGG | 7 cut(s) | 43, 1208, 1993, 2773, 3081, 3082, 3138 |
| BseMI | GCAATG | 3 cut(s) | 843, 1161, 2253 |
| BseMII | CTCAG | 7 cut(s) | 1264, 1499, 1959, 2422, 2556, 2919, 3237 |
| BseNI | ACTGG | 7 cut(s) | 500, 536, 1948, 2165, 2215, 2329, 3043 |
| BseRI | GAGGAG | 1 cut(s) | 2582 |
| BseXI | GCAGC | 4 cut(s) | 1309, 1728, 2594, 3281 |
| Bsh1236I | CGCG | 1 cut(s) | 1241 |
| Bsh1285I | CGRYCG | 1 cut(s) | 24 |
| BshFI | GGCC | 5 cut(s) | 48, 360, 1423, 2492, 3392 |
| BshNI | GGYRCC | 2 cut(s) | 296, 2293 |
| BshVI | ATCGAT | 1 cut(s) | 92 |
| BsiEI | CGRYCG | 1 cut(s) | 24 |
| BsiHKAI | GWGCWC | 2 cut(s) | 60, 2877 |
| BsiHKCI | CYCGRG | 2 cut(s) | 537, 1523 |
| BsiSI | CCGG | 5 cut(s) | 49, 300, 344, 372, 538 |
| BslI | CCNNNNNNNGG | 7 cut(s) | 43, 1208, 1993, 2773, 3081, 3082, 3138 |
| BsmAI | GTCTC | 4 cut(s) | 104, 160, 2241, 2393 |
| BsmBI | CGTCTC | 2 cut(s) | 104, 160 |
| BsmI | GAATGC | 1 cut(s) | 1972 |
| BsnI | GGCC | 5 cut(s) | 48, 360, 1423, 2492, 3392 |
| BsoBI | CYCGRG | 2 cut(s) | 537, 1523 |
| Bsp119I | TTCGAA | 1 cut(s) | 2417 |
| Bsp1286I | GDGCHC | 2 cut(s) | 60, 2877 |
| Bsp13I | TCCGGA | 1 cut(s) | 343 |
| Bsp19I | CCATGG | 2 cut(s) | 1833, 1987 |
| BspACI | CCGC | 6 cut(s) | 168, 207, 325, 484, 1744, 2269 |
| BspANI | GGCC | 5 cut(s) | 48, 360, 1423, 2492, 3392 |
| BspCNI | CTCAG | 7 cut(s) | 1263, 1498, 1960, 2421, 2557, 2920, 3238 |
| BspDI | ATCGAT | 1 cut(s) | 92 |
| BspEI | TCCGGA | 1 cut(s) | 343 |
| BspFNI | CGCG | 1 cut(s) | 1241 |
| BspHI | TCATGA | 1 cut(s) | 1353 |
| BspMAI | CTGCAG | 2 cut(s) | 42, 1299 |
| BspMI | ACCTGC | 3 cut(s) | 45, 454, 3091 |
| BspT104I | TTCGAA | 1 cut(s) | 2417 |
| BspT107I | GGYRCC | 2 cut(s) | 296, 2293 |
| BsrDI | GCAATG | 3 cut(s) | 843, 1161, 2253 |
| BsrI | ACTGG | 7 cut(s) | 500, 536, 1948, 2165, 2215, 2329, 3043 |
| BssECI | CCNNGG | 9 cut(s) | 411, 537, 640, 755, 1833, 1987, 2306, 2493, 2767 |
| BssNI | GRCGYC | 2 cut(s) | 297, 1320 |
| BssT1I | CCWWGG | 5 cut(s) | 755, 1833, 1987, 2493, 2767 |
| Bst2UI | CCWGG | 3 cut(s) | 1758, 1884, 2155 |
| Bst4CI | ACNGT | 6 cut(s) | 1827, 1902, 2344, 2537, 2542, 3138 |
| Bst6I | CTCTTC | 3 cut(s) | 2846, 3409, 3424 |
| BstACI | GRCGYC | 2 cut(s) | 297, 1320 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 64, 1943 |
| BstBI | TTCGAA | 1 cut(s) | 2417 |
| BstC8I | GCNNGC | 5 cut(s) | 327, 443, 1237, 1701, 2008 |
| BstDSI | CCRYGG | 4 cut(s) | 411, 1833, 1987, 2306 |
| BstEII | GGTNACC | 1 cut(s) | 250 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 41 |
| BstF5I | GGATG | 4 cut(s) | 641, 765, 1081, 2104 |
| BstFNI | CGCG | 1 cut(s) | 1241 |
| BstH2I | RGCGCY | 1 cut(s) | 300 |
| BstHHI | GCGC | 5 cut(s) | 299, 389, 1241, 3100, 3367 |
| BstMAI | GTCTC | 4 cut(s) | 104, 160, 2241, 2393 |
| BstMCI | CGRYCG | 1 cut(s) | 24 |
| BstMWI | GCNNNNNNNGC | 7 cut(s) | 64, 1085, 1166, 1429, 1753, 1943, 3209 |
| BstNI | CCWGG | 3 cut(s) | 1758, 1884, 2155 |
| BstNSI | RCATGY | 2 cut(s) | 484, 2647 |
| BstPI | GGTNACC | 1 cut(s) | 250 |
| BstSCI | CCNGG | 8 cut(s) | 48, 299, 371, 536, 537, 1756, 1882, 2153 |
| BstSFI | CTRYAG | 3 cut(s) | 38, 1295, 2541 |
| BstUI | CGCG | 1 cut(s) | 1241 |
| BstV1I | GCAGC | 4 cut(s) | 1309, 1728, 2594, 3281 |
| BstV2I | GAAGAC | 4 cut(s) | 23, 115, 1004, 1043 |
| BstX2I | RGATCY | 6 cut(s) | 180, 1366, 1438, 2302, 2497, 3148 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1955 |
| BstYI | RGATCY | 6 cut(s) | 180, 1366, 1438, 2302, 2497, 3148 |
| Bsu15I | ATCGAT | 1 cut(s) | 92 |
| Bsu36I | CCTNAGG | 3 cut(s) | 2565, 2928, 3246 |
| BsuRI | GGCC | 5 cut(s) | 48, 360, 1423, 2492, 3392 |
| BsuTUI | ATCGAT | 1 cut(s) | 92 |
| BtgI | CCRYGG | 4 cut(s) | 411, 1833, 1987, 2306 |
| BtgZI | GCGATG | 1 cut(s) | 131 |
| BtsCI | GGATG | 4 cut(s) | 641, 765, 1081, 2104 |
| BtsIMutI | CAGTG | 5 cut(s) | 236, 286, 811, 3013, 3134 |
| BveI | ACCTGC | 3 cut(s) | 45, 454, 3091 |
| Cac8I | GCNNGC | 5 cut(s) | 327, 443, 1237, 1701, 2008 |
| CaiI | CAGNNNCTG | 1 cut(s) | 3106 |
| CciI | TCATGA | 1 cut(s) | 1353 |
| CfoI | GCGC | 5 cut(s) | 299, 389, 1241, 3100, 3367 |
| Cfr13I | GGNCC | 8 cut(s) | 46, 142, 534, 679, 1183, 1422, 1572, 3334 |
| Cfr9I | CCCGGG | 1 cut(s) | 537 |
| ClaI | ATCGAT | 1 cut(s) | 92 |
| CseI | GACGC | 2 cut(s) | 121, 1328 |
| CsiI | ACCWGGT | 1 cut(s) | 2153 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 3382, 3417 |
| DinI | GGCGCC | 1 cut(s) | 298 |
| DrdI | GACNNNNNNGTC | 1 cut(s) | 140 |
| DseDI | GACNNNNNNGTC | 1 cut(s) | 140 |
| EaeI | YGGCCR | 1 cut(s) | 358 |
| Eam1104I | CTCTTC | 3 cut(s) | 2846, 3409, 3424 |
| EarI | CTCTTC | 3 cut(s) | 2846, 3409, 3424 |
| Ecl136II | GAGCTC | 1 cut(s) | 2875 |
| Eco130I | CCWWGG | 5 cut(s) | 755, 1833, 1987, 2493, 2767 |
| Eco24I | GRGCYC | 1 cut(s) | 2877 |
| Eco47I | GGWCC | 6 cut(s) | 142, 534, 679, 1183, 1572, 3334 |
| Eco53kI | GAGCTC | 1 cut(s) | 2875 |
| Eco57I | CTGAAG | 3 cut(s) | 2624, 2967, 3369 |
| Eco81I | CCTNAGG | 3 cut(s) | 2565, 2928, 3246 |
| Eco88I | CYCGRG | 2 cut(s) | 537, 1523 |
| Eco91I | GGTNACC | 1 cut(s) | 250 |
| EcoICRI | GAGCTC | 1 cut(s) | 2875 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 41 |
| EcoO109I | RGGNCCY | 1 cut(s) | 679 |
| EcoO65I | GGTNACC | 1 cut(s) | 250 |
| EcoRI | GAATTC | 3 cut(s) | 416, 2708, 2729 |
| EcoRII | CCWGG | 3 cut(s) | 1756, 1882, 2153 |
| EcoT14I | CCWWGG | 5 cut(s) | 755, 1833, 1987, 2493, 2767 |
| EcoT38I | GRGCYC | 1 cut(s) | 2877 |
| EgeI | GGCGCC | 1 cut(s) | 298 |
| EheI | GGCGCC | 1 cut(s) | 298 |
| ErhI | CCWWGG | 5 cut(s) | 755, 1833, 1987, 2493, 2767 |
| Esp3I | CGTCTC | 2 cut(s) | 104, 160 |
| FalI | AAGNNNNNCTT | 8 cut(s) | 1100, 1132, 1532, 1564, 1907, 1939, 3181, 3213 |
| FauI | CCCGC | 2 cut(s) | 175, 318 |
| FbaI | TGATCA | 4 cut(s) | 1350, 1360, 1398, 1771 |
| FblI | GTMKAC | 1 cut(s) | 2556 |
| Fnu4HI | GCNGC | 6 cut(s) | 207, 1298, 1742, 1745, 2583, 3270 |
| FokI | GGATG | 4 cut(s) | 648, 772, 1088, 2111 |
| FriOI | GRGCYC | 1 cut(s) | 2877 |
| Fsp4HI | GCNGC | 6 cut(s) | 207, 1298, 1742, 1745, 2583, 3270 |
| FspBI | CTAG | 3 cut(s) | 1085, 1640, 2552 |
| FspI | TGCGCA | 2 cut(s) | 3099, 3366 |
| GlaI | GCGC | 5 cut(s) | 298, 388, 1240, 3099, 3366 |
| GluI | GCNGC | 6 cut(s) | 207, 1298, 1742, 1745, 2583, 3270 |
| GsuI | CTGGAG | 4 cut(s) | 1091, 2673, 2958, 3203 |
| HaeII | RGCGCY | 1 cut(s) | 300 |
| HaeIII | GGCC | 5 cut(s) | 48, 360, 1423, 2492, 3392 |
| HapII | CCGG | 5 cut(s) | 49, 300, 344, 372, 538 |
| HgaI | GACGC | 2 cut(s) | 121, 1328 |
| HhaI | GCGC | 5 cut(s) | 299, 389, 1241, 3100, 3367 |
| Hin1I | GRCGYC | 2 cut(s) | 297, 1320 |
| Hin6I | GCGC | 5 cut(s) | 297, 387, 1239, 3098, 3365 |
| HinP1I | GCGC | 5 cut(s) | 297, 387, 1239, 3098, 3365 |
| HincII | GTYRAC | 2 cut(s) | 1810, 3048 |
| HindII | GTYRAC | 2 cut(s) | 1810, 3048 |
| HindIII | AAGCTT | 4 cut(s) | 1533, 1546, 1784, 2798 |
| HpaII | CCGG | 5 cut(s) | 49, 300, 344, 372, 538 |
| Hpy166II | GTNNAC | 9 cut(s) | 202, 471, 959, 1113, 1810, 2557, 2971, 3048, 3334 |
| Hpy8I | GTNNAC | 9 cut(s) | 202, 471, 959, 1113, 1810, 2557, 2971, 3048, 3334 |
| Hpy99I | CGWCG | 5 cut(s) | 137, 314, 440, 1322, 3320 |
| HpyCH4III | ACNGT | 6 cut(s) | 1827, 1902, 2344, 2537, 2542, 3138 |
| HpyCH4IV | ACGT | 6 cut(s) | 162, 1662, 1678, 1793, 3044, 3379 |
| HpyF10VI | GCNNNNNNNGC | 7 cut(s) | 64, 1085, 1166, 1429, 1753, 1943, 3209 |
| HpySE526I | ACGT | 6 cut(s) | 162, 1662, 1678, 1793, 3044, 3379 |
| Hsp92I | GRCGYC | 2 cut(s) | 297, 1320 |
| HspAI | GCGC | 5 cut(s) | 297, 387, 1239, 3098, 3365 |
| KasI | GGCGCC | 1 cut(s) | 296 |
| KflI | GGGWCCC | 1 cut(s) | 679 |
| Kpn2I | TCCGGA | 1 cut(s) | 343 |
| Ksp22I | TGATCA | 4 cut(s) | 1350, 1360, 1398, 1771 |
| LmnI | GCTCC | 8 cut(s) | 55, 155, 1382, 1816, 2217, 2923, 2939, 3247 |
| Lsp1109I | GCAGC | 4 cut(s) | 1309, 1728, 2594, 3281 |
| LweI | GCATC | 6 cut(s) | 285, 626, 1066, 1351, 1549, 3310 |
| MabI | ACCWGGT | 1 cut(s) | 2153 |
| MaeI | CTAG | 3 cut(s) | 1085, 1640, 2552 |
| MaeII | ACGT | 6 cut(s) | 162, 1662, 1678, 1793, 3044, 3379 |
| MaeIII | GTNAC | 6 cut(s) | 250, 541, 880, 1789, 2045, 2090 |
| MflI | RGATCY | 6 cut(s) | 180, 1366, 1438, 2302, 2497, 3148 |
| MhlI | GDGCHC | 2 cut(s) | 60, 2877 |
| Mly113I | GGCGCC | 1 cut(s) | 297 |
| MlyI | GAGTC | 6 cut(s) | 233, 1057, 1094, 2080, 2474, 3426 |
| MmeI | TCCRAC | 3 cut(s) | 2195, 2739, 2754 |
| MroI | TCCGGA | 1 cut(s) | 343 |
| MroXI | GAANNNNTTC | 4 cut(s) | 1011, 2697, 2712, 2888 |
| MslI | CAYNNNNRTG | 4 cut(s) | 401, 1989, 2021, 2529 |
| MspI | CCGG | 5 cut(s) | 49, 300, 344, 372, 538 |
| MspR9I | CCNGG | 8 cut(s) | 50, 301, 373, 538, 539, 1758, 1884, 2155 |
| Mva1269I | GAATGC | 1 cut(s) | 1972 |
| MvaI | CCWGG | 3 cut(s) | 1758, 1884, 2155 |
| MvnI | CGCG | 1 cut(s) | 1241 |
| MwoI | GCNNNNNNNGC | 7 cut(s) | 64, 1085, 1166, 1429, 1753, 1943, 3209 |
| NarI | GGCGCC | 1 cut(s) | 297 |
| NciI | CCSGG | 5 cut(s) | 50, 301, 373, 538, 539 |
| NcoI | CCATGG | 2 cut(s) | 1833, 1987 |
| NmuCI | GTSAC | 3 cut(s) | 250, 541, 880 |
| NsbI | TGCGCA | 2 cut(s) | 3099, 3366 |
| NspI | RCATGY | 2 cut(s) | 484, 2647 |
| NspV | TTCGAA | 1 cut(s) | 2417 |
| OliI | CACNNNNGTG | 1 cut(s) | 1989 |
| PagI | TCATGA | 1 cut(s) | 1353 |
| PaqCI | CACCTGC | 1 cut(s) | 454 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 132 |
| PctI | GAATGC | 1 cut(s) | 1972 |
| PdmI | GAANNNNTTC | 4 cut(s) | 1011, 2697, 2712, 2888 |
| PkrI | GCNGC | 6 cut(s) | 208, 1299, 1743, 1746, 2584, 3271 |
| Ple19I | CGATCG | 1 cut(s) | 24 |
| PleI | GAGTC | 6 cut(s) | 233, 1056, 1094, 2080, 2473, 3425 |
| PluTI | GGCGCC | 1 cut(s) | 300 |
| PpsI | GAGTC | 6 cut(s) | 233, 1056, 1094, 2080, 2473, 3425 |
| PpuMI | RGGWCCY | 1 cut(s) | 679 |
| PshBI | ATTAAT | 1 cut(s) | 2055 |
| PsiI | TTATAA | 3 cut(s) | 1463, 2238, 2451 |
| Psp124BI | GAGCTC | 1 cut(s) | 2877 |
| Psp1406I | AACGTT | 1 cut(s) | 3044 |
| Psp5II | RGGWCCY | 1 cut(s) | 679 |
| Psp6I | CCWGG | 3 cut(s) | 1756, 1882, 2153 |
| PspEI | GGTNACC | 1 cut(s) | 250 |
| PspGI | CCWGG | 3 cut(s) | 1756, 1882, 2153 |
| PspPI | GGNCC | 8 cut(s) | 46, 142, 534, 679, 1183, 1422, 1572, 3334 |
| PspPPI | RGGWCCY | 1 cut(s) | 679 |
| PstI | CTGCAG | 2 cut(s) | 42, 1299 |
| PstNI | CAGNNNCTG | 1 cut(s) | 3106 |
| PsuI | RGATCY | 6 cut(s) | 180, 1366, 1438, 2302, 2497, 3148 |
| PvuI | CGATCG | 1 cut(s) | 24 |
| RseI | CAYNNNNRTG | 4 cut(s) | 401, 1989, 2021, 2529 |
| SacI | GAGCTC | 1 cut(s) | 2877 |
| SatI | GCNGC | 6 cut(s) | 207, 1298, 1742, 1745, 2583, 3270 |
| Sau96I | GGNCC | 8 cut(s) | 46, 142, 534, 679, 1183, 1422, 1572, 3334 |
| ScaI | AGTACT | 2 cut(s) | 1606, 2539 |
| SchI | GAGTC | 6 cut(s) | 233, 1057, 1094, 2080, 2474, 3426 |
| ScrFI | CCNGG | 8 cut(s) | 50, 301, 373, 538, 539, 1758, 1884, 2155 |
| SduI | GDGCHC | 2 cut(s) | 60, 2877 |
| SexAI | ACCWGGT | 1 cut(s) | 2153 |
| SfaNI | GCATC | 6 cut(s) | 285, 626, 1066, 1351, 1549, 3310 |
| SfcI | CTRYAG | 3 cut(s) | 38, 1295, 2541 |
| SfoI | GGCGCC | 1 cut(s) | 298 |
| SfuI | TTCGAA | 1 cut(s) | 2417 |
| SinI | GGWCC | 6 cut(s) | 142, 534, 679, 1183, 1572, 3334 |
| SmaI | CCCGGG | 1 cut(s) | 539 |
| SmiMI | CAYNNNNRTG | 4 cut(s) | 401, 1989, 2021, 2529 |
| SmlI | CTYRAG | 5 cut(s) | 245, 1549, 2702, 2870, 3077 |
| SmoI | CTYRAG | 5 cut(s) | 245, 1549, 2702, 2870, 3077 |
| SsiI | CCGC | 6 cut(s) | 168, 207, 325, 484, 1744, 2269 |
| SspDI | GGCGCC | 1 cut(s) | 296 |
| SspI | AATATT | 1 cut(s) | 1276 |
| SspMI | CTAG | 3 cut(s) | 1085, 1640, 2552 |
| SstI | GAGCTC | 1 cut(s) | 2877 |
| StyD4I | CCNGG | 8 cut(s) | 48, 299, 371, 536, 537, 1756, 1882, 2153 |
| StyI | CCWWGG | 5 cut(s) | 755, 1833, 1987, 2493, 2767 |
| TaaI | ACNGT | 6 cut(s) | 1827, 1902, 2344, 2537, 2542, 3138 |
| TaiI | ACGT | 6 cut(s) | 165, 1665, 1681, 1796, 3047, 3382 |
| TatI | WGTACW | 3 cut(s) | 456, 1604, 2537 |
| TauI | GCSGC | 2 cut(s) | 209, 1747 |
| TscAI | CASTG | 5 cut(s) | 236, 286, 811, 3013, 3141 |
| TseFI | GTSAC | 3 cut(s) | 250, 541, 880 |
| TseI | GCWGC | 4 cut(s) | 1297, 1741, 2582, 3269 |
| Tsp45I | GTSAC | 3 cut(s) | 250, 541, 880 |
| TspGWI | ACGGA | 7 cut(s) | 122, 142, 235, 428, 1058, 2295, 2420 |
| TspMI | CCCGGG | 1 cut(s) | 537 |
| TspRI | CASTG | 5 cut(s) | 236, 286, 811, 3013, 3141 |
| VpaK11BI | GGWCC | 6 cut(s) | 142, 534, 679, 1183, 1572, 3334 |
| VspI | ATTAAT | 1 cut(s) | 2055 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 41 |
| XapI | RAATTY | 8 cut(s) | 416, 566, 2456, 2547, 2609, 2697, 2708, 2729 |
| XbaI | TCTAGA | 1 cut(s) | 1639 |
| XceI | RCATGY | 2 cut(s) | 484, 2647 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 2304 |
| XmaI | CCCGGG | 1 cut(s) | 537 |
| XmiI | GTMKAC | 1 cut(s) | 2556 |
| XmnI | GAANNNNTTC | 4 cut(s) | 1011, 2697, 2712, 2888 |
| XspI | CTAG | 3 cut(s) | 1085, 1640, 2552 |
| ZrmI | AGTACT | 2 cut(s) | 1606, 2539 |