AAA domain
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 2 cut(s) | 636, 1158 |
| AccB1I | GGYRCC | 2 cut(s) | 238, 2742 |
| AccB7I | CCANNNNNTGG | 5 cut(s) | 11, 365, 782, 916, 3246 |
| AccII | CGCG | 1 cut(s) | 235 |
| AciI | CCGC | 2 cut(s) | 20, 235 |
| AclI | AACGTT | 2 cut(s) | 1217, 3000 |
| AclWI | GGATC | 9 cut(s) | 285, 417, 469, 1097, 1110, 2050, 2374, 2583, 3050 |
| AcoI | YGGCCR | 2 cut(s) | 2581, 3020 |
| AcuI | CTGAAG | 1 cut(s) | 1583 |
| AcvI | CACGTG | 1 cut(s) | 2417 |
| AcyI | GRCGYC | 1 cut(s) | 2743 |
| AdeI | CACNNNGTG | 2 cut(s) | 675, 1574 |
| AfaI | GTAC | 8 cut(s) | 78, 1560, 1654, 1679, 2048, 2254, 2409, 2868 |
| AfiI | CCNNNNNNNGG | 9 cut(s) | 11, 234, 235, 365, 751, 782, 916, 1003, 3246 |
| AflIII | ACRYGT | 2 cut(s) | 2414, 2863 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 2781 |
| AhlI | ACTAGT | 1 cut(s) | 1876 |
| AjnI | CCWGG | 3 cut(s) | 775, 1768, 3245 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 1610, 1642 |
| Alw21I | GWGCWC | 2 cut(s) | 1187, 1307 |
| Alw26I | GTCTC | 5 cut(s) | 131, 319, 388, 2553, 3095 |
| AlwI | GGATC | 9 cut(s) | 285, 417, 469, 1097, 1110, 2050, 2374, 2583, 3050 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 782 |
| AoxI | GGCC | 5 cut(s) | 665, 1771, 2581, 3020, 3248 |
| ApeKI | GCWGC | 5 cut(s) | 642, 704, 1724, 2973, 3143 |
| ArsI | GACNNNNNNTTYG | 4 cut(s) | 1863, 1895, 2924, 2956 |
| AseI | ATTAAT | 2 cut(s) | 62, 456 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 2018, 2728 |
| AspLEI | GCGC | 1 cut(s) | 2745 |
| AspS9I | GGNCC | 4 cut(s) | 666, 770, 1537, 1985 |
| AsuHPI | GGTGA | 6 cut(s) | 380, 734, 1187, 1424, 2193, 2330 |
| AsuII | TTCGAA | 2 cut(s) | 1869, 2102 |
| AvaII | GGWCC | 3 cut(s) | 770, 1537, 1985 |
| BaeGI | GKGCMC | 1 cut(s) | 241 |
| BalI | TGGCCA | 2 cut(s) | 2583, 3022 |
| BamHI | GGATCC | 1 cut(s) | 1102 |
| BanI | GGYRCC | 2 cut(s) | 238, 2742 |
| BanII | GRGCYC | 2 cut(s) | 1187, 1307 |
| BauI | CACGAG | 2 cut(s) | 893, 2904 |
| BbrPI | CACGTG | 1 cut(s) | 2417 |
| Bbv12I | GWGCWC | 2 cut(s) | 1187, 1307 |
| BbvI | GCAGC | 5 cut(s) | 629, 691, 1711, 2960, 3155 |
| BceAI | ACGGC | 1 cut(s) | 655 |
| BciT130I | CCWGG | 3 cut(s) | 777, 1770, 3247 |
| BclI | TGATCA | 1 cut(s) | 1015 |
| BcoDI | GTCTC | 5 cut(s) | 131, 319, 388, 2553, 3095 |
| BcuI | ACTAGT | 1 cut(s) | 1876 |
| BfaI | CTAG | 5 cut(s) | 9, 660, 1076, 1518, 1877 |
| BfmI | CTRYAG | 1 cut(s) | 705 |
| BfoI | RGCGCY | 1 cut(s) | 2746 |
| BisI | GCNGC | 5 cut(s) | 643, 705, 1725, 2974, 3144 |
| BlpI | GCTNAGC | 2 cut(s) | 1186, 1728 |
| BlsI | GCNGC | 5 cut(s) | 644, 706, 1726, 2975, 3145 |
| Bme1390I | CCNGG | 3 cut(s) | 777, 1770, 3247 |
| Bme18I | GGWCC | 3 cut(s) | 770, 1537, 1985 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 2781 |
| BmgT120I | GGNCC | 4 cut(s) | 666, 770, 1537, 1985 |
| BmiI | GGNNCC | 5 cut(s) | 240, 771, 1104, 1529, 2744 |
| BmrFI | CCNGG | 3 cut(s) | 777, 1770, 3247 |
| BmsI | GCATC | 9 cut(s) | 509, 1306, 1388, 1667, 1936, 2488, 2570, 3137, 3187 |
| BplI | GAGNNNNNCTC | 6 cut(s) | 128, 160, 2458, 2490, 3130, 3162 |
| BpmI | CTGGAG | 2 cut(s) | 759, 3083 |
| Bpu10I | CCTNAGC | 1 cut(s) | 648 |
| Bpu1102I | GCTNAGC | 2 cut(s) | 1186, 1728 |
| Bpu14I | TTCGAA | 2 cut(s) | 1869, 2102 |
| BpuEI | CTTGAG | 7 cut(s) | 199, 209, 1022, 1118, 1361, 2045, 3011 |
| BsaAI | YACGTR | 1 cut(s) | 2417 |
| BsaBI | GATNNNNATC | 1 cut(s) | 2336 |
| BsaHI | GRCGYC | 1 cut(s) | 2743 |
| BsaI | GGTCTC | 1 cut(s) | 388 |
| BsaJI | CCNNGG | 4 cut(s) | 273, 776, 2311, 3245 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 838, 868, 1349, 1379 |
| Bsc4I | CCNNNNNNNGG | 9 cut(s) | 11, 234, 235, 365, 751, 782, 916, 1003, 3246 |
| Bse1I | ACTGG | 6 cut(s) | 787, 910, 1704, 1915, 2278, 3023 |
| Bse3DI | GCAATG | 1 cut(s) | 1512 |
| Bse8I | GATNNNNATC | 1 cut(s) | 2336 |
| BseBI | CCWGG | 3 cut(s) | 777, 1770, 3247 |
| BseDI | CCNNGG | 4 cut(s) | 273, 776, 2311, 3245 |
| BseGI | GGATG | 3 cut(s) | 1927, 2332, 3240 |
| BseJI | GATNNNNATC | 1 cut(s) | 2336 |
| BseLI | CCNNNNNNNGG | 9 cut(s) | 11, 234, 235, 365, 751, 782, 916, 1003, 3246 |
| BseMI | GCAATG | 1 cut(s) | 1512 |
| BseMII | CTCAG | 8 cut(s) | 126, 639, 1200, 1742, 1830, 2564, 2711, 3161 |
| BseNI | ACTGG | 6 cut(s) | 787, 910, 1704, 1915, 2278, 3023 |
| BseRI | GAGGAG | 5 cut(s) | 534, 537, 982, 1358, 1487 |
| BseSI | GKGCMC | 1 cut(s) | 241 |
| BseXI | GCAGC | 5 cut(s) | 629, 691, 1711, 2960, 3155 |
| BsgI | GTGCAG | 2 cut(s) | 856, 3162 |
| Bsh1236I | CGCG | 1 cut(s) | 235 |
| Bsh1285I | CGRYCG | 1 cut(s) | 150 |
| BshFI | GGCC | 5 cut(s) | 667, 1773, 2583, 3022, 3250 |
| BshNI | GGYRCC | 2 cut(s) | 238, 2742 |
| BsiEI | CGRYCG | 1 cut(s) | 150 |
| BsiHKAI | GWGCWC | 2 cut(s) | 1187, 1307 |
| BslFI | GGGAC | 4 cut(s) | 211, 793, 1902, 3116 |
| BslI | CCNNNNNNNGG | 9 cut(s) | 11, 234, 235, 365, 751, 782, 916, 1003, 3246 |
| BsmAI | GTCTC | 5 cut(s) | 131, 319, 388, 2553, 3095 |
| BsmBI | CGTCTC | 1 cut(s) | 131 |
| BsmFI | GGGAC | 4 cut(s) | 211, 793, 1902, 3116 |
| BsmI | GAATGC | 2 cut(s) | 1849, 1929 |
| BsnI | GGCC | 5 cut(s) | 667, 1773, 2583, 3022, 3250 |
| Bso31I | GGTCTC | 1 cut(s) | 388 |
| Bsp119I | TTCGAA | 2 cut(s) | 1869, 2102 |
| Bsp1286I | GDGCHC | 3 cut(s) | 241, 1187, 1307 |
| Bsp1407I | TGTACA | 2 cut(s) | 1677, 2866 |
| Bsp1720I | GCTNAGC | 2 cut(s) | 1186, 1728 |
| BspACI | CCGC | 2 cut(s) | 20, 235 |
| BspANI | GGCC | 5 cut(s) | 667, 1773, 2583, 3022, 3250 |
| BspCNI | CTCAG | 8 cut(s) | 127, 640, 1199, 1741, 1831, 2563, 2712, 3160 |
| BspFNI | CGCG | 1 cut(s) | 235 |
| BspHI | TCATGA | 2 cut(s) | 582, 2752 |
| BspLI | GGNNCC | 5 cut(s) | 240, 771, 1104, 1529, 2744 |
| BspMAI | CTGCAG | 1 cut(s) | 709 |
| BspPI | GGATC | 9 cut(s) | 285, 417, 469, 1097, 1110, 2050, 2374, 2583, 3050 |
| BspT104I | TTCGAA | 2 cut(s) | 1869, 2102 |
| BspT107I | GGYRCC | 2 cut(s) | 238, 2742 |
| BspTNI | GGTCTC | 1 cut(s) | 388 |
| BsrDI | GCAATG | 1 cut(s) | 1512 |
| BsrGI | TGTACA | 2 cut(s) | 1677, 2866 |
| BsrI | ACTGG | 6 cut(s) | 787, 910, 1704, 1915, 2278, 3023 |
| BssECI | CCNNGG | 4 cut(s) | 273, 776, 2311, 3245 |
| BssNI | GRCGYC | 1 cut(s) | 2743 |
| BssSI | CACGAG | 2 cut(s) | 893, 2904 |
| BssT1I | CCWWGG | 2 cut(s) | 273, 2311 |
| Bst2BI | CACGAG | 2 cut(s) | 893, 2904 |
| Bst2UI | CCWGG | 3 cut(s) | 777, 1770, 3247 |
| Bst6I | CTCTTC | 2 cut(s) | 2226, 2316 |
| BstACI | GRCGYC | 1 cut(s) | 2743 |
| BstAUI | TGTACA | 2 cut(s) | 1677, 2866 |
| BstBAI | YACGTR | 1 cut(s) | 2417 |
| BstBI | TTCGAA | 2 cut(s) | 1869, 2102 |
| BstC8I | GCNNGC | 4 cut(s) | 6, 237, 1639, 3111 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1001 |
| BstF5I | GGATG | 3 cut(s) | 1927, 2332, 3240 |
| BstFNI | CGCG | 1 cut(s) | 235 |
| BstH2I | RGCGCY | 1 cut(s) | 2746 |
| BstHHI | GCGC | 1 cut(s) | 2745 |
| BstMAI | GTCTC | 5 cut(s) | 131, 319, 388, 2553, 3095 |
| BstMCI | CGRYCG | 1 cut(s) | 150 |
| BstMWI | GCNNNNNNNGC | 1 cut(s) | 1844 |
| BstNI | CCWGG | 3 cut(s) | 777, 1770, 3247 |
| BstNSI | RCATGY | 3 cut(s) | 852, 1784, 2867 |
| BstSCI | CCNGG | 3 cut(s) | 775, 1768, 3245 |
| BstSFI | CTRYAG | 1 cut(s) | 705 |
| BstSLI | GKGCMC | 1 cut(s) | 241 |
| BstUI | CGCG | 1 cut(s) | 235 |
| BstV1I | GCAGC | 5 cut(s) | 629, 691, 1711, 2960, 3155 |
| BstX2I | RGATCY | 3 cut(s) | 422, 1102, 2575 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 1769, 3018 |
| BstYI | RGATCY | 3 cut(s) | 422, 1102, 2575 |
| BsuRI | GGCC | 5 cut(s) | 667, 1773, 2583, 3022, 3250 |
| BtgZI | GCGATG | 1 cut(s) | 2656 |
| BtsCI | GGATG | 3 cut(s) | 1927, 2332, 3240 |
| BtsI | GCAGTG | 1 cut(s) | 3052 |
| BtsIMutI | CAGTG | 6 cut(s) | 842, 1697, 2425, 2961, 3030, 3052 |
| Cac8I | GCNNGC | 4 cut(s) | 6, 237, 1639, 3111 |
| CaiI | CAGNNNCTG | 1 cut(s) | 782 |
| CciI | TCATGA | 2 cut(s) | 582, 2752 |
| CfoI | GCGC | 1 cut(s) | 2745 |
| Cfr13I | GGNCC | 4 cut(s) | 666, 770, 1537, 1985 |
| CseI | GACGC | 1 cut(s) | 2915 |
| Csp6I | GTAC | 8 cut(s) | 77, 1559, 1653, 1678, 2047, 2253, 2408, 2867 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 847, 882 |
| CviQI | GTAC | 8 cut(s) | 77, 1559, 1653, 1678, 2047, 2253, 2408, 2867 |
| DinI | GGCGCC | 1 cut(s) | 2744 |
| DraIII | CACNNNGTG | 2 cut(s) | 675, 1574 |
| DriI | GACNNNNNGTC | 1 cut(s) | 2781 |
| EaeI | YGGCCR | 2 cut(s) | 2581, 3020 |
| Eam1104I | CTCTTC | 2 cut(s) | 2226, 2316 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 2781 |
| EarI | CTCTTC | 2 cut(s) | 2226, 2316 |
| Ecl136II | GAGCTC | 2 cut(s) | 1185, 1305 |
| Eco130I | CCWWGG | 2 cut(s) | 273, 2311 |
| Eco24I | GRGCYC | 2 cut(s) | 1187, 1307 |
| Eco31I | GGTCTC | 1 cut(s) | 388 |
| Eco47I | GGWCC | 3 cut(s) | 770, 1537, 1985 |
| Eco53kI | GAGCTC | 2 cut(s) | 1185, 1305 |
| Eco57I | CTGAAG | 1 cut(s) | 1583 |
| Eco72I | CACGTG | 1 cut(s) | 2417 |
| EcoICRI | GAGCTC | 2 cut(s) | 1185, 1305 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1001 |
| EcoO109I | RGGNCCY | 1 cut(s) | 770 |
| EcoRI | GAATTC | 3 cut(s) | 607, 2159, 2854 |
| EcoRII | CCWGG | 3 cut(s) | 775, 1768, 3245 |
| EcoT14I | CCWWGG | 2 cut(s) | 273, 2311 |
| EcoT22I | ATGCAT | 1 cut(s) | 1929 |
| EcoT38I | GRGCYC | 2 cut(s) | 1187, 1307 |
| EgeI | GGCGCC | 1 cut(s) | 2744 |
| EheI | GGCGCC | 1 cut(s) | 2744 |
| ErhI | CCWWGG | 2 cut(s) | 273, 2311 |
| Esp3I | CGTCTC | 1 cut(s) | 131 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 1303, 1335, 2630, 2662 |
| FaqI | GGGAC | 4 cut(s) | 211, 793, 1902, 3116 |
| FauI | CCCGC | 2 cut(s) | 13, 228 |
| FauNDI | CATATG | 1 cut(s) | 352 |
| FbaI | TGATCA | 1 cut(s) | 1015 |
| Fnu4HI | GCNGC | 5 cut(s) | 643, 705, 1725, 2974, 3144 |
| FokI | GGATG | 3 cut(s) | 1914, 2339, 3227 |
| FriOI | GRGCYC | 2 cut(s) | 1187, 1307 |
| Fsp4HI | GCNGC | 5 cut(s) | 643, 705, 1725, 2974, 3144 |
| FspBI | CTAG | 5 cut(s) | 9, 660, 1076, 1518, 1877 |
| GlaI | GCGC | 1 cut(s) | 2744 |
| GluI | GCNGC | 5 cut(s) | 643, 705, 1725, 2974, 3144 |
| GsuI | CTGGAG | 2 cut(s) | 759, 3083 |
| HaeII | RGCGCY | 1 cut(s) | 2746 |
| HaeIII | GGCC | 5 cut(s) | 667, 1773, 2583, 3022, 3250 |
| HgaI | GACGC | 1 cut(s) | 2915 |
| HhaI | GCGC | 1 cut(s) | 2745 |
| Hin1I | GRCGYC | 1 cut(s) | 2743 |
| Hin6I | GCGC | 1 cut(s) | 2743 |
| HinP1I | GCGC | 1 cut(s) | 2743 |
| HincII | GTYRAC | 1 cut(s) | 907 |
| HindII | GTYRAC | 1 cut(s) | 907 |
| HindIII | AAGCTT | 3 cut(s) | 485, 1861, 2726 |
| HpaI | GTTAAC | 1 cut(s) | 907 |
| HphI | GGTGA | 6 cut(s) | 380, 734, 1187, 1424, 2193, 2330 |
| Hpy166II | GTNNAC | 7 cut(s) | 577, 907, 1680, 2093, 2644, 2839, 2959 |
| Hpy8I | GTNNAC | 7 cut(s) | 577, 907, 1680, 2093, 2644, 2839, 2959 |
| HpyCH4IV | ACGT | 5 cut(s) | 140, 1217, 1466, 2416, 3000 |
| HpyF10VI | GCNNNNNNNGC | 1 cut(s) | 1844 |
| HpySE526I | ACGT | 5 cut(s) | 140, 1217, 1466, 2416, 3000 |
| Hsp92I | GRCGYC | 1 cut(s) | 2743 |
| HspAI | GCGC | 1 cut(s) | 2743 |
| KasI | GGCGCC | 1 cut(s) | 2742 |
| Ksp22I | TGATCA | 1 cut(s) | 1015 |
| KspAI | GTTAAC | 1 cut(s) | 907 |
| LmnI | GCTCC | 3 cut(s) | 347, 1182, 1302 |
| Lsp1109I | GCAGC | 5 cut(s) | 629, 691, 1711, 2960, 3155 |
| LweI | GCATC | 9 cut(s) | 509, 1306, 1388, 1667, 1936, 2488, 2570, 3137, 3187 |
| MaeI | CTAG | 5 cut(s) | 9, 660, 1076, 1518, 1877 |
| MaeII | ACGT | 5 cut(s) | 140, 1217, 1466, 2416, 3000 |
| MaeIII | GTNAC | 7 cut(s) | 121, 158, 807, 880, 1566, 2468, 2948 |
| MfeI | CAATTG | 6 cut(s) | 798, 1532, 1546, 2226, 2370, 2512 |
| MflI | RGATCY | 3 cut(s) | 422, 1102, 2575 |
| MhlI | GDGCHC | 3 cut(s) | 241, 1187, 1307 |
| MlsI | TGGCCA | 2 cut(s) | 2583, 3022 |
| MluNI | TGGCCA | 2 cut(s) | 2583, 3022 |
| Mly113I | GGCGCC | 1 cut(s) | 2743 |
| MlyI | GAGTC | 4 cut(s) | 536, 1088, 1241, 2247 |
| MmeI | TCCRAC | 3 cut(s) | 1043, 1613, 1786 |
| Mox20I | TGGCCA | 2 cut(s) | 2583, 3022 |
| Mph1103I | ATGCAT | 1 cut(s) | 1929 |
| MroXI | GAANNNNTTC | 2 cut(s) | 2018, 2728 |
| MscI | TGGCCA | 2 cut(s) | 2583, 3022 |
| MslI | CAYNNNNRTG | 3 cut(s) | 587, 847, 2904 |
| Msp20I | TGGCCA | 2 cut(s) | 2583, 3022 |
| MspA1I | CMGCKG | 1 cut(s) | 3113 |
| MspR9I | CCNGG | 3 cut(s) | 777, 1770, 3247 |
| MunI | CAATTG | 6 cut(s) | 798, 1532, 1546, 2226, 2370, 2512 |
| Mva1269I | GAATGC | 2 cut(s) | 1849, 1929 |
| MvaI | CCWGG | 3 cut(s) | 777, 1770, 3247 |
| MvnI | CGCG | 1 cut(s) | 235 |
| MwoI | GCNNNNNNNGC | 1 cut(s) | 1844 |
| NarI | GGCGCC | 1 cut(s) | 2743 |
| NdeI | CATATG | 1 cut(s) | 352 |
| NlaIV | GGNNCC | 5 cut(s) | 240, 771, 1104, 1529, 2744 |
| NmuCI | GTSAC | 3 cut(s) | 807, 880, 1566 |
| NsiI | ATGCAT | 1 cut(s) | 1929 |
| NspI | RCATGY | 3 cut(s) | 852, 1784, 2867 |
| NspV | TTCGAA | 2 cut(s) | 1869, 2102 |
| PagI | TCATGA | 2 cut(s) | 582, 2752 |
| PciI | ACATGT | 1 cut(s) | 2863 |
| PctI | GAATGC | 2 cut(s) | 1849, 1929 |
| PdmI | GAANNNNTTC | 2 cut(s) | 2018, 2728 |
| PflFI | GACNNNGTC | 1 cut(s) | 2458 |
| PflMI | CCANNNNNTGG | 5 cut(s) | 11, 365, 782, 916, 3246 |
| PkrI | GCNGC | 5 cut(s) | 644, 706, 1726, 2975, 3145 |
| PleI | GAGTC | 4 cut(s) | 535, 1087, 1241, 2246 |
| PluTI | GGCGCC | 1 cut(s) | 2746 |
| PmaCI | CACGTG | 1 cut(s) | 2417 |
| PmlI | CACGTG | 1 cut(s) | 2417 |
| PpsI | GAGTC | 4 cut(s) | 535, 1087, 1241, 2246 |
| Ppu21I | YACGTR | 1 cut(s) | 2417 |
| PpuMI | RGGWCCY | 1 cut(s) | 770 |
| PscI | ACATGT | 1 cut(s) | 2863 |
| PshBI | ATTAAT | 2 cut(s) | 62, 456 |
| PsiI | TTATAA | 2 cut(s) | 636, 1158 |
| Psp124BI | GAGCTC | 2 cut(s) | 1187, 1307 |
| Psp1406I | AACGTT | 2 cut(s) | 1217, 3000 |
| Psp5II | RGGWCCY | 1 cut(s) | 770 |
| Psp6I | CCWGG | 3 cut(s) | 775, 1768, 3245 |
| PspCI | CACGTG | 1 cut(s) | 2417 |
| PspGI | CCWGG | 3 cut(s) | 775, 1768, 3245 |
| PspN4I | GGNNCC | 5 cut(s) | 240, 771, 1104, 1529, 2744 |
| PspPI | GGNCC | 4 cut(s) | 666, 770, 1537, 1985 |
| PspPPI | RGGWCCY | 1 cut(s) | 770 |
| PstI | CTGCAG | 1 cut(s) | 709 |
| PstNI | CAGNNNCTG | 1 cut(s) | 782 |
| PsuI | RGATCY | 3 cut(s) | 422, 1102, 2575 |
| PsyI | GACNNNGTC | 1 cut(s) | 2458 |
| PvuII | CAGCTG | 1 cut(s) | 3113 |
| RsaI | GTAC | 8 cut(s) | 78, 1560, 1654, 1679, 2048, 2254, 2409, 2868 |
| RsaNI | GTAC | 8 cut(s) | 77, 1559, 1653, 1678, 2047, 2253, 2408, 2867 |
| RseI | CAYNNNNRTG | 3 cut(s) | 587, 847, 2904 |
| SacI | GAGCTC | 2 cut(s) | 1187, 1307 |
| SatI | GCNGC | 5 cut(s) | 643, 705, 1725, 2974, 3144 |
| Sau96I | GGNCC | 4 cut(s) | 666, 770, 1537, 1985 |
| SchI | GAGTC | 4 cut(s) | 536, 1088, 1241, 2247 |
| ScrFI | CCNGG | 3 cut(s) | 777, 1770, 3247 |
| SduI | GDGCHC | 3 cut(s) | 241, 1187, 1307 |
| SfaNI | GCATC | 9 cut(s) | 509, 1306, 1388, 1667, 1936, 2488, 2570, 3137, 3187 |
| SfcI | CTRYAG | 1 cut(s) | 705 |
| SfoI | GGCGCC | 1 cut(s) | 2744 |
| SfuI | TTCGAA | 2 cut(s) | 1869, 2102 |
| SinI | GGWCC | 3 cut(s) | 770, 1537, 1985 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 587, 847, 2904 |
| SmlI | CTYRAG | 7 cut(s) | 188, 214, 1001, 1097, 1340, 2024, 2990 |
| SmoI | CTYRAG | 7 cut(s) | 188, 214, 1001, 1097, 1340, 2024, 2990 |
| SpeI | ACTAGT | 1 cut(s) | 1876 |
| SsiI | CCGC | 2 cut(s) | 20, 235 |
| SspDI | GGCGCC | 1 cut(s) | 2742 |
| SspI | AATATT | 4 cut(s) | 865, 1647, 2037, 3032 |
| SspMI | CTAG | 5 cut(s) | 9, 660, 1076, 1518, 1877 |
| SstI | GAGCTC | 2 cut(s) | 1187, 1307 |
| StyD4I | CCNGG | 3 cut(s) | 775, 1768, 3245 |
| StyI | CCWWGG | 2 cut(s) | 273, 2311 |
| TaiI | ACGT | 5 cut(s) | 143, 1220, 1469, 2419, 3003 |
| TaqI | TCGA | 9 cut(s) | 66, 146, 1777, 1869, 1921, 2102, 2167, 3157, 3195 |
| TaqII | GACCGA | 1 cut(s) | 2283 |
| TatI | WGTACW | 7 cut(s) | 76, 1558, 1652, 1677, 2252, 2407, 2866 |
| TscAI | CASTG | 6 cut(s) | 849, 1704, 2432, 2961, 3030, 3052 |
| TseFI | GTSAC | 3 cut(s) | 807, 880, 1566 |
| TseI | GCWGC | 5 cut(s) | 642, 704, 1724, 2973, 3143 |
| Tsp45I | GTSAC | 3 cut(s) | 807, 880, 1566 |
| TspGWI | ACGGA | 2 cut(s) | 486, 1697 |
| TspRI | CASTG | 6 cut(s) | 849, 1704, 2432, 2961, 3030, 3052 |
| Tth111I | GACNNNGTC | 1 cut(s) | 2458 |
| Van91I | CCANNNNNTGG | 5 cut(s) | 11, 365, 782, 916, 3246 |
| VpaK11BI | GGWCC | 3 cut(s) | 770, 1537, 1985 |
| VspI | ATTAAT | 2 cut(s) | 62, 456 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1001 |
| XceI | RCATGY | 3 cut(s) | 852, 1784, 2867 |
| XmnI | GAANNNNTTC | 2 cut(s) | 2018, 2728 |
| XspI | CTAG | 5 cut(s) | 9, 660, 1076, 1518, 1877 |
| Zsp2I | ATGCAT | 1 cut(s) | 1929 |