DNA polymerase III
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| DNA_pol3_delta2 | PF13177 | 315 - 472 | 1.1e-21 | DNA polymerase III, delta subunit |
| AAA | PF00004 | 335 - 466 | 3.8e-09 | ATPase family associated with various cellular activities (AAA) |
| DNAX_ATPase_lid | PF22608 | 477 - 517 | 9.9e-07 | DNA polymerase III clamp loader subunit, ATPase lid domain |
| DnaA_N-like_STI | PF23007 | 689 - 772 | 1.7e-30 | STICHEL, DnaA_N-like alpha-beta domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 1676 |
| AarI | CACCTGC | 1 cut(s) | 632 |
| Acc36I | ACCTGC | 1 cut(s) | 632 |
| AccB1I | GGYRCC | 2 cut(s) | 2635, 2997 |
| AccBSI | CCGCTC | 1 cut(s) | 2594 |
| AccII | CGCG | 3 cut(s) | 1191, 1372, 2421 |
| AclWI | GGATC | 5 cut(s) | 77, 90, 301, 1703, 2315 |
| AcoI | YGGCCR | 1 cut(s) | 462 |
| AcuI | CTGAAG | 2 cut(s) | 621, 1800 |
| AcyI | GRCGYC | 1 cut(s) | 16 |
| AfaI | GTAC | 7 cut(s) | 242, 667, 1027, 1127, 2319, 2447, 2554 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 641, 722 |
| AflIII | ACRYGT | 2 cut(s) | 1327, 2320 |
| AhlI | ACTAGT | 1 cut(s) | 3019 |
| AjnI | CCWGG | 8 cut(s) | 715, 890, 1584, 1682, 2126, 2638, 2679, 2688 |
| AloI | GAACNNNNNNTCC | 2 cut(s) | 610, 642 |
| Alw21I | GWGCWC | 2 cut(s) | 2272, 2588 |
| Alw26I | GTCTC | 7 cut(s) | 78, 966, 1109, 1179, 1203, 2175, 2195 |
| Alw44I | GTGCAC | 1 cut(s) | 2268 |
| AlwI | GGATC | 5 cut(s) | 77, 90, 301, 1703, 2315 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 1834 |
| Ama87I | CYCGRG | 1 cut(s) | 2734 |
| AoxI | GGCC | 6 cut(s) | 221, 462, 914, 1094, 1582, 1680 |
| ApaLI | GTGCAC | 1 cut(s) | 2268 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 610, 642 |
| AseI | ATTAAT | 1 cut(s) | 2645 |
| Asp700I | GAANNNNTTC | 5 cut(s) | 182, 1793, 1853, 2428, 2863 |
| AspA2I | CCTAGG | 1 cut(s) | 350 |
| AspLEI | GCGC | 1 cut(s) | 2421 |
| AspS9I | GGNCC | 4 cut(s) | 1016, 1389, 1582, 1680 |
| AsuHPI | GGTGA | 8 cut(s) | 79, 377, 614, 656, 1436, 1775, 2394, 2797 |
| AsuII | TTCGAA | 1 cut(s) | 3014 |
| AvaI | CYCGRG | 1 cut(s) | 2734 |
| AvaII | GGWCC | 2 cut(s) | 1016, 1389 |
| AvrII | CCTAGG | 1 cut(s) | 350 |
| AxyI | CCTNAGG | 1 cut(s) | 2974 |
| BaeGI | GKGCMC | 1 cut(s) | 2272 |
| BalI | TGGCCA | 1 cut(s) | 464 |
| BamHI | GGATCC | 1 cut(s) | 82 |
| BanI | GGYRCC | 2 cut(s) | 2635, 2997 |
| Bbv12I | GWGCWC | 2 cut(s) | 2272, 2588 |
| BbvCI | CCTCAGC | 1 cut(s) | 2993 |
| BccI | CCATC | 6 cut(s) | 2, 94, 801, 1415, 2365, 2413 |
| BceAI | ACGGC | 2 cut(s) | 494, 1081 |
| BciT130I | CCWGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| BciVI | GTATCC | 2 cut(s) | 1894, 2242 |
| BclI | TGATCA | 4 cut(s) | 709, 1344, 1477, 1546 |
| BcoDI | GTCTC | 7 cut(s) | 78, 966, 1109, 1179, 1203, 2175, 2195 |
| BcuI | ACTAGT | 1 cut(s) | 3019 |
| BfaI | CTAG | 7 cut(s) | 300, 351, 753, 981, 1637, 1962, 3020 |
| BfmI | CTRYAG | 5 cut(s) | 1059, 1911, 1935, 2196, 2878 |
| BfuAI | ACCTGC | 1 cut(s) | 632 |
| BfuI | GTATCC | 2 cut(s) | 1894, 2242 |
| BglII | AGATCT | 1 cut(s) | 1639 |
| BlnI | CCTAGG | 1 cut(s) | 350 |
| BlpI | GCTNAGC | 1 cut(s) | 1928 |
| Bme1390I | CCNGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| Bme18I | GGWCC | 2 cut(s) | 1016, 1389 |
| BmeT110I | CYCGRG | 1 cut(s) | 2734 |
| BmgT120I | GGNCC | 4 cut(s) | 1016, 1389, 1582, 1680 |
| BmiI | GGNNCC | 4 cut(s) | 84, 1391, 2637, 2999 |
| BmrFI | CCNGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| BmrI | ACTGGG | 1 cut(s) | 145 |
| BmuI | ACTGGG | 1 cut(s) | 145 |
| BoxI | GACNNNNGTC | 1 cut(s) | 473 |
| BpmI | CTGGAG | 1 cut(s) | 1209 |
| Bpu10I | CCTNAGC | 1 cut(s) | 2993 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 1928 |
| Bpu14I | TTCGAA | 1 cut(s) | 3014 |
| BpuEI | CTTGAG | 1 cut(s) | 1030 |
| Bsa29I | ATCGAT | 1 cut(s) | 1311 |
| BsaAI | YACGTR | 1 cut(s) | 2321 |
| BsaBI | GATNNNNATC | 3 cut(s) | 708, 792, 2306 |
| BsaHI | GRCGYC | 1 cut(s) | 16 |
| BsaI | GGTCTC | 6 cut(s) | 78, 966, 1109, 1179, 1203, 2195 |
| BsaJI | CCNNGG | 9 cut(s) | 224, 350, 661, 890, 1012, 1370, 1683, 2235, 2723 |
| BsaWI | WCCGGW | 2 cut(s) | 118, 1179 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 886, 916 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 641, 722 |
| Bse1I | ACTGG | 3 cut(s) | 140, 625, 1226 |
| Bse21I | CCTNAGG | 1 cut(s) | 2974 |
| Bse3DI | GCAATG | 2 cut(s) | 1497, 2259 |
| Bse8I | GATNNNNATC | 3 cut(s) | 708, 792, 2306 |
| BseBI | CCWGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| BseCI | ATCGAT | 1 cut(s) | 1311 |
| BseDI | CCNNGG | 9 cut(s) | 224, 350, 661, 890, 1012, 1370, 1683, 2235, 2723 |
| BseJI | GATNNNNATC | 3 cut(s) | 708, 792, 2306 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 641, 722 |
| BseMI | GCAATG | 2 cut(s) | 1497, 2259 |
| BseNI | ACTGG | 3 cut(s) | 140, 625, 1226 |
| BseRI | GAGGAG | 3 cut(s) | 1100, 1936, 1939 |
| BseSI | GKGCMC | 1 cut(s) | 2272 |
| Bsh1236I | CGCG | 3 cut(s) | 1191, 1372, 2421 |
| BshFI | GGCC | 6 cut(s) | 223, 464, 916, 1096, 1584, 1682 |
| BshNI | GGYRCC | 2 cut(s) | 2635, 2997 |
| BshVI | ATCGAT | 1 cut(s) | 1311 |
| BsiHKAI | GWGCWC | 2 cut(s) | 2272, 2588 |
| BsiHKCI | CYCGRG | 1 cut(s) | 2734 |
| BsiSI | CCGG | 2 cut(s) | 119, 1180 |
| BslFI | GGGAC | 2 cut(s) | 954, 1375 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 641, 722 |
| BsmAI | GTCTC | 7 cut(s) | 78, 966, 1109, 1179, 1203, 2175, 2195 |
| BsmBI | CGTCTC | 1 cut(s) | 2175 |
| BsmFI | GGGAC | 2 cut(s) | 954, 1375 |
| BsmI | GAATGC | 4 cut(s) | 1216, 1381, 2067, 2394 |
| BsnI | GGCC | 6 cut(s) | 223, 464, 916, 1096, 1584, 1682 |
| Bso31I | GGTCTC | 6 cut(s) | 78, 966, 1109, 1179, 1203, 2195 |
| BsoBI | CYCGRG | 1 cut(s) | 2734 |
| Bsp119I | TTCGAA | 1 cut(s) | 3014 |
| Bsp1286I | GDGCHC | 2 cut(s) | 2272, 2588 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 1928 |
| Bsp19I | CCATGG | 2 cut(s) | 661, 1012 |
| BspANI | GGCC | 6 cut(s) | 223, 464, 916, 1096, 1584, 1682 |
| BspDI | ATCGAT | 1 cut(s) | 1311 |
| BspFNI | CGCG | 3 cut(s) | 1191, 1372, 2421 |
| BspHI | TCATGA | 1 cut(s) | 706 |
| BspLI | GGNNCC | 4 cut(s) | 84, 1391, 2637, 2999 |
| BspMAI | CTGCAG | 4 cut(s) | 1063, 1915, 1939, 2882 |
| BspMI | ACCTGC | 1 cut(s) | 632 |
| BspPI | GGATC | 5 cut(s) | 77, 90, 301, 1703, 2315 |
| BspT104I | TTCGAA | 1 cut(s) | 3014 |
| BspT107I | GGYRCC | 2 cut(s) | 2635, 2997 |
| BspTNI | GGTCTC | 6 cut(s) | 78, 966, 1109, 1179, 1203, 2195 |
| BsrBI | CCGCTC | 1 cut(s) | 2594 |
| BsrDI | GCAATG | 2 cut(s) | 1497, 2259 |
| BsrI | ACTGG | 3 cut(s) | 140, 625, 1226 |
| BssECI | CCNNGG | 9 cut(s) | 224, 350, 661, 890, 1012, 1370, 1683, 2235, 2723 |
| BssNI | GRCGYC | 1 cut(s) | 16 |
| BssT1I | CCWWGG | 6 cut(s) | 224, 350, 661, 1012, 2235, 2723 |
| Bst2UI | CCWGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| Bst4CI | ACNGT | 7 cut(s) | 209, 569, 879, 1239, 1389, 1672, 2085 |
| Bst6I | CTCTTC | 6 cut(s) | 118, 393, 681, 2096, 2661, 2916 |
| BstACI | GRCGYC | 1 cut(s) | 16 |
| BstAPI | GCANNNNNTGC | 2 cut(s) | 630, 647 |
| BstBAI | YACGTR | 1 cut(s) | 2321 |
| BstBI | TTCGAA | 1 cut(s) | 3014 |
| BstC8I | GCNNGC | 1 cut(s) | 1435 |
| BstDSI | CCRYGG | 3 cut(s) | 661, 1012, 1370 |
| BstEII | GGTNACC | 1 cut(s) | 2785 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 639 |
| BstFNI | CGCG | 3 cut(s) | 1191, 1372, 2421 |
| BstHHI | GCGC | 1 cut(s) | 2421 |
| BstMAI | GTCTC | 7 cut(s) | 78, 966, 1109, 1179, 1203, 2175, 2195 |
| BstNI | CCWGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| BstNSI | RCATGY | 2 cut(s) | 474, 1331 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 473 |
| BstPI | GGTNACC | 1 cut(s) | 2785 |
| BstSCI | CCNGG | 8 cut(s) | 715, 890, 1584, 1682, 2126, 2638, 2679, 2688 |
| BstSFI | CTRYAG | 5 cut(s) | 1059, 1911, 1935, 2196, 2878 |
| BstSLI | GKGCMC | 1 cut(s) | 2272 |
| BstUI | CGCG | 3 cut(s) | 1191, 1372, 2421 |
| BstX2I | RGATCY | 2 cut(s) | 82, 1639 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 194 |
| BstYI | RGATCY | 2 cut(s) | 82, 1639 |
| Bsu15I | ATCGAT | 1 cut(s) | 1311 |
| Bsu36I | CCTNAGG | 1 cut(s) | 2974 |
| BsuI | GTATCC | 2 cut(s) | 1894, 2242 |
| BsuRI | GGCC | 6 cut(s) | 223, 464, 916, 1096, 1584, 1682 |
| BsuTUI | ATCGAT | 1 cut(s) | 1311 |
| BtgI | CCRYGG | 3 cut(s) | 661, 1012, 1370 |
| BtsI | GCAGTG | 1 cut(s) | 2041 |
| BtsIMutI | CAGTG | 3 cut(s) | 419, 565, 2041 |
| BveI | ACCTGC | 1 cut(s) | 632 |
| Cac8I | GCNNGC | 1 cut(s) | 1435 |
| CaiI | CAGNNNCTG | 1 cut(s) | 1834 |
| CciI | TCATGA | 1 cut(s) | 706 |
| CfoI | GCGC | 1 cut(s) | 2421 |
| Cfr13I | GGNCC | 4 cut(s) | 1016, 1389, 1582, 1680 |
| Cfr42I | CCGCGG | 1 cut(s) | 1373 |
| ClaI | ATCGAT | 1 cut(s) | 1311 |
| CseI | GACGC | 2 cut(s) | 5, 463 |
| Csp6I | GTAC | 7 cut(s) | 241, 666, 1026, 1126, 2318, 2446, 2553 |
| CviQI | GTAC | 7 cut(s) | 241, 666, 1026, 1126, 2318, 2446, 2553 |
| EaeI | YGGCCR | 1 cut(s) | 462 |
| Eam1104I | CTCTTC | 6 cut(s) | 118, 393, 681, 2096, 2661, 2916 |
| EarI | CTCTTC | 6 cut(s) | 118, 393, 681, 2096, 2661, 2916 |
| Eco130I | CCWWGG | 6 cut(s) | 224, 350, 661, 1012, 2235, 2723 |
| Eco31I | GGTCTC | 6 cut(s) | 78, 966, 1109, 1179, 1203, 2195 |
| Eco32I | GATATC | 3 cut(s) | 160, 1150, 1400 |
| Eco47I | GGWCC | 2 cut(s) | 1016, 1389 |
| Eco57I | CTGAAG | 2 cut(s) | 621, 1800 |
| Eco81I | CCTNAGG | 1 cut(s) | 2974 |
| Eco88I | CYCGRG | 1 cut(s) | 2734 |
| Eco91I | GGTNACC | 1 cut(s) | 2785 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 639 |
| EcoO65I | GGTNACC | 1 cut(s) | 2785 |
| EcoRI | GAATTC | 4 cut(s) | 145, 229, 319, 2210 |
| EcoRII | CCWGG | 8 cut(s) | 715, 890, 1584, 1682, 2126, 2638, 2679, 2688 |
| EcoRV | GATATC | 3 cut(s) | 160, 1150, 1400 |
| EcoT14I | CCWWGG | 6 cut(s) | 224, 350, 661, 1012, 2235, 2723 |
| EcoT22I | ATGCAT | 1 cut(s) | 1846 |
| ErhI | CCWWGG | 6 cut(s) | 224, 350, 661, 1012, 2235, 2723 |
| Esp3I | CGTCTC | 1 cut(s) | 2175 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 2835, 2867 |
| FaqI | GGGAC | 2 cut(s) | 954, 1375 |
| FauI | CCCGC | 2 cut(s) | 2390, 2612 |
| FauNDI | CATATG | 3 cut(s) | 447, 2096, 2869 |
| FbaI | TGATCA | 4 cut(s) | 709, 1344, 1477, 1546 |
| FspBI | CTAG | 7 cut(s) | 300, 351, 753, 981, 1637, 1962, 3020 |
| GlaI | GCGC | 1 cut(s) | 2420 |
| GsuI | CTGGAG | 1 cut(s) | 1209 |
| HaeIII | GGCC | 6 cut(s) | 223, 464, 916, 1096, 1584, 1682 |
| HapII | CCGG | 2 cut(s) | 119, 1180 |
| HgaI | GACGC | 2 cut(s) | 5, 463 |
| HhaI | GCGC | 1 cut(s) | 2421 |
| Hin1I | GRCGYC | 1 cut(s) | 16 |
| Hin6I | GCGC | 1 cut(s) | 2419 |
| HinP1I | GCGC | 1 cut(s) | 2419 |
| HincII | GTYRAC | 2 cut(s) | 133, 2041 |
| HindII | GTYRAC | 2 cut(s) | 133, 2041 |
| HindIII | AAGCTT | 2 cut(s) | 844, 2844 |
| HpaI | GTTAAC | 1 cut(s) | 133 |
| HpaII | CCGG | 2 cut(s) | 119, 1180 |
| HphI | GGTGA | 8 cut(s) | 79, 377, 614, 656, 1436, 1775, 2394, 2797 |
| Hpy166II | GTNNAC | 8 cut(s) | 133, 668, 1019, 1126, 1520, 2041, 2270, 2448 |
| Hpy8I | GTNNAC | 8 cut(s) | 133, 668, 1019, 1126, 1520, 2041, 2270, 2448 |
| HpyAV | CCTTC | 5 cut(s) | 185, 645, 1763, 2062, 2923 |
| HpyCH4III | ACNGT | 7 cut(s) | 209, 569, 879, 1239, 1389, 1672, 2085 |
| HpyCH4IV | ACGT | 2 cut(s) | 2320, 2346 |
| HpySE526I | ACGT | 2 cut(s) | 2320, 2346 |
| Hsp92I | GRCGYC | 1 cut(s) | 16 |
| HspAI | GCGC | 1 cut(s) | 2419 |
| Ksp22I | TGATCA | 4 cut(s) | 709, 1344, 1477, 1546 |
| KspAI | GTTAAC | 1 cut(s) | 133 |
| KspI | CCGCGG | 1 cut(s) | 1373 |
| LmnI | GCTCC | 2 cut(s) | 354, 1604 |
| MaeI | CTAG | 7 cut(s) | 300, 351, 753, 981, 1637, 1962, 3020 |
| MaeII | ACGT | 2 cut(s) | 2320, 2346 |
| MaeIII | GTNAC | 4 cut(s) | 2400, 2531, 2567, 2785 |
| MbiI | CCGCTC | 1 cut(s) | 2594 |
| MfeI | CAATTG | 1 cut(s) | 597 |
| MflI | RGATCY | 2 cut(s) | 82, 1639 |
| MhlI | GDGCHC | 2 cut(s) | 2272, 2588 |
| MlsI | TGGCCA | 1 cut(s) | 464 |
| MluNI | TGGCCA | 1 cut(s) | 464 |
| MlyI | GAGTC | 8 cut(s) | 355, 433, 622, 904, 910, 929, 1846, 2339 |
| MmeI | TCCRAC | 4 cut(s) | 313, 1680, 2067, 2933 |
| Mox20I | TGGCCA | 1 cut(s) | 464 |
| Mph1103I | ATGCAT | 1 cut(s) | 1846 |
| MroXI | GAANNNNTTC | 5 cut(s) | 182, 1793, 1853, 2428, 2863 |
| MscI | TGGCCA | 1 cut(s) | 464 |
| MseI | TTAA | 8 cut(s) | 132, 1068, 1206, 1242, 1416, 1877, 2468, 2645 |
| MslI | CAYNNNNRTG | 1 cut(s) | 717 |
| Msp20I | TGGCCA | 1 cut(s) | 464 |
| MspA1I | CMGCKG | 5 cut(s) | 1372, 2376, 2529, 2883, 2992 |
| MspI | CCGG | 2 cut(s) | 119, 1180 |
| MspR9I | CCNGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| MunI | CAATTG | 1 cut(s) | 597 |
| Mva1269I | GAATGC | 4 cut(s) | 1216, 1381, 2067, 2394 |
| MvaI | CCWGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| MvnI | CGCG | 3 cut(s) | 1191, 1372, 2421 |
| NcoI | CCATGG | 2 cut(s) | 661, 1012 |
| NdeI | CATATG | 3 cut(s) | 447, 2096, 2869 |
| NlaIV | GGNNCC | 4 cut(s) | 84, 1391, 2637, 2999 |
| NmuCI | GTSAC | 4 cut(s) | 2400, 2531, 2567, 2785 |
| NsiI | ATGCAT | 1 cut(s) | 1846 |
| NspI | RCATGY | 2 cut(s) | 474, 1331 |
| NspV | TTCGAA | 1 cut(s) | 3014 |
| PagI | TCATGA | 1 cut(s) | 706 |
| PaqCI | CACCTGC | 1 cut(s) | 632 |
| PciI | ACATGT | 1 cut(s) | 1327 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 613 |
| PctI | GAATGC | 4 cut(s) | 1216, 1381, 2067, 2394 |
| PdmI | GAANNNNTTC | 5 cut(s) | 182, 1793, 1853, 2428, 2863 |
| PleI | GAGTC | 8 cut(s) | 354, 432, 621, 903, 909, 928, 1845, 2338 |
| PpsI | GAGTC | 8 cut(s) | 354, 432, 621, 903, 909, 928, 1845, 2338 |
| Ppu21I | YACGTR | 1 cut(s) | 2321 |
| PscI | ACATGT | 1 cut(s) | 1327 |
| PshAI | GACNNNNGTC | 1 cut(s) | 473 |
| PshBI | ATTAAT | 1 cut(s) | 2645 |
| PsiI | TTATAA | 1 cut(s) | 1676 |
| Psp6I | CCWGG | 8 cut(s) | 715, 890, 1584, 1682, 2126, 2638, 2679, 2688 |
| PspEI | GGTNACC | 1 cut(s) | 2785 |
| PspGI | CCWGG | 8 cut(s) | 715, 890, 1584, 1682, 2126, 2638, 2679, 2688 |
| PspN4I | GGNNCC | 4 cut(s) | 84, 1391, 2637, 2999 |
| PspPI | GGNCC | 4 cut(s) | 1016, 1389, 1582, 1680 |
| PstI | CTGCAG | 4 cut(s) | 1063, 1915, 1939, 2882 |
| PstNI | CAGNNNCTG | 1 cut(s) | 1834 |
| PsuI | RGATCY | 2 cut(s) | 82, 1639 |
| PvuII | CAGCTG | 2 cut(s) | 2376, 2992 |
| RsaI | GTAC | 7 cut(s) | 242, 667, 1027, 1127, 2319, 2447, 2554 |
| RsaNI | GTAC | 7 cut(s) | 241, 666, 1026, 1126, 2318, 2446, 2553 |
| RseI | CAYNNNNRTG | 1 cut(s) | 717 |
| SacII | CCGCGG | 1 cut(s) | 1373 |
| SaqAI | TTAA | 8 cut(s) | 132, 1068, 1206, 1242, 1416, 1877, 2468, 2645 |
| Sau96I | GGNCC | 4 cut(s) | 1016, 1389, 1582, 1680 |
| SchI | GAGTC | 8 cut(s) | 355, 433, 622, 904, 910, 929, 1846, 2339 |
| ScrFI | CCNGG | 8 cut(s) | 717, 892, 1586, 1684, 2128, 2640, 2681, 2690 |
| SduI | GDGCHC | 2 cut(s) | 2272, 2588 |
| SfcI | CTRYAG | 5 cut(s) | 1059, 1911, 1935, 2196, 2878 |
| Sfr303I | CCGCGG | 1 cut(s) | 1373 |
| SfuI | TTCGAA | 1 cut(s) | 3014 |
| SgrBI | CCGCGG | 1 cut(s) | 1373 |
| SinI | GGWCC | 2 cut(s) | 1016, 1389 |
| SmiMI | CAYNNNNRTG | 1 cut(s) | 717 |
| SmlI | CTYRAG | 1 cut(s) | 1045 |
| SmoI | CTYRAG | 1 cut(s) | 1045 |
| SpeI | ACTAGT | 1 cut(s) | 3019 |
| SspMI | CTAG | 7 cut(s) | 300, 351, 753, 981, 1637, 1962, 3020 |
| StyD4I | CCNGG | 8 cut(s) | 715, 890, 1584, 1682, 2126, 2638, 2679, 2688 |
| StyI | CCWWGG | 6 cut(s) | 224, 350, 661, 1012, 2235, 2723 |
| TaaI | ACNGT | 7 cut(s) | 209, 569, 879, 1239, 1389, 1672, 2085 |
| TaiI | ACGT | 2 cut(s) | 2323, 2349 |
| TaqI | TCGA | 4 cut(s) | 616, 930, 1311, 3014 |
| TatI | WGTACW | 3 cut(s) | 1125, 2445, 2552 |
| TauI | GCSGC | 4 cut(s) | 16, 1372, 2597, 2886 |
| Tru1I | TTAA | 8 cut(s) | 132, 1068, 1206, 1242, 1416, 1877, 2468, 2645 |
| Tru9I | TTAA | 8 cut(s) | 132, 1068, 1206, 1242, 1416, 1877, 2468, 2645 |
| TscAI | CASTG | 3 cut(s) | 426, 572, 2041 |
| TseFI | GTSAC | 4 cut(s) | 2400, 2531, 2567, 2785 |
| Tsp45I | GTSAC | 4 cut(s) | 2400, 2531, 2567, 2785 |
| TspGWI | ACGGA | 2 cut(s) | 258, 2586 |
| TspRI | CASTG | 3 cut(s) | 426, 572, 2041 |
| VneI | GTGCAC | 1 cut(s) | 2268 |
| VpaK11BI | GGWCC | 2 cut(s) | 1016, 1389 |
| VspI | ATTAAT | 1 cut(s) | 2645 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 639 |
| XbaI | TCTAGA | 2 cut(s) | 299, 980 |
| XceI | RCATGY | 2 cut(s) | 474, 1331 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 1274 |
| XmaJI | CCTAGG | 1 cut(s) | 350 |
| XmnI | GAANNNNTTC | 5 cut(s) | 182, 1793, 1853, 2428, 2863 |
| XspI | CTAG | 7 cut(s) | 300, 351, 753, 981, 1637, 1962, 3020 |
| Zsp2I | ATGCAT | 1 cut(s) | 1846 |