AAA domain (Cdc48 subfamily)
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| Species | Orthologous Gene IDs |
|---|---|
| arabidopsis_thaliana | AT2G40130 AT2G40130 |
| fragaria_vesca | FvH4_7g24540 FvH4_7g24540 |
| malus_domestica | MD01G1153400.v1.1 MD07G1222400.v1.1 |
| prunus_persica | Prupe.2G250700_v2.0.a1 Prupe.2G250700_v2.0.a1 |
| pyrus_communis | pycom01g17100 pycom07g20100 pycom07g20110 |
| rosa_chinensis | RchiOBHm_Chr1g0370371 |
| rosa_laevigata | RLG00000027054 |
| rosa_multiflora | Rmu_co8224134.1_g000001 Rmu_co8315027.1_g000001 Rmu_sc0006707.1_g000030 Rmu_sc0029129.1_g000001 |
| rosa_roxburghii | Rroxscaffold_4G00286640 |
| rosa_rugosa | Rorug01G0355800 Rorug01G0355900 |
| rosa_samantha | Rh1AG364200 Rh1BG327500 Rh1CG340500 Rh1DG357800 |
| rosa_wichuraiana | Rw1G032050 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AasI | GACNNNNNNGTC | 5 cut(s) | 68, 281, 443, 446, 3029 |
| AatII | GACGTC | 1 cut(s) | 1873 |
| Acc36I | ACCTGC | 1 cut(s) | 1319 |
| AccB1I | GGYRCC | 3 cut(s) | 1201, 1242, 2542 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 1187, 2871 |
| AccBSI | CCGCTC | 1 cut(s) | 540 |
| AccI | GTMKAC | 2 cut(s) | 2391, 2768 |
| AccIII | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| AclWI | GGATC | 4 cut(s) | 826, 1982, 2241, 2790 |
| AcoI | YGGCCR | 2 cut(s) | 21, 300 |
| AcsI | RAATTY | 6 cut(s) | 856, 1588, 1821, 2239, 2447, 2882 |
| AcuI | CTGAAG | 3 cut(s) | 1305, 1557, 2067 |
| AcyI | GRCGYC | 1 cut(s) | 1870 |
| AfaI | GTAC | 3 cut(s) | 2713, 3074, 3157 |
| AflIII | ACRYGT | 1 cut(s) | 936 |
| AgeI | ACCGGT | 1 cut(s) | 2441 |
| AjnI | CCWGG | 6 cut(s) | 23, 318, 543, 904, 2427, 2870 |
| Alw21I | GWGCWC | 3 cut(s) | 225, 411, 485 |
| AlwI | GGATC | 4 cut(s) | 826, 1982, 2241, 2790 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 418, 1117 |
| Ama87I | CYCGRG | 2 cut(s) | 592, 628 |
| Aor13HI | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| ApeKI | GCWGC | 8 cut(s) | 337, 373, 376, 379, 1111, 2520, 3050, 3053 |
| ApoI | RAATTY | 6 cut(s) | 856, 1588, 1821, 2239, 2447, 2882 |
| ArsI | GACNNNNNNTTYG | 4 cut(s) | 1376, 1408, 2258, 2290 |
| AsiGI | ACCGGT | 1 cut(s) | 2441 |
| AsuC2I | CCSGG | 5 cut(s) | 443, 593, 594, 600, 784 |
| AsuHPI | GGTGA | 6 cut(s) | 512, 974, 982, 1004, 2878, 3201 |
| AsuNHI | GCTAGC | 2 cut(s) | 1046, 1343 |
| AvaI | CYCGRG | 2 cut(s) | 592, 628 |
| AvaII | GGWCC | 7 cut(s) | 315, 589, 596, 902, 1056, 1155, 2150 |
| BanI | GGYRCC | 3 cut(s) | 1201, 1242, 2542 |
| BanII | GRGCYC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 1759, 1791 |
| BbsI | GAAGAC | 5 cut(s) | 451, 1027, 1409, 1545, 2473 |
| Bbv12I | GWGCWC | 3 cut(s) | 225, 411, 485 |
| BbvCI | CCTCAGC | 2 cut(s) | 866, 2193 |
| BbvI | GCAGC | 8 cut(s) | 349, 385, 388, 391, 1123, 2532, 3040, 3062 |
| BccI | CCATC | 6 cut(s) | 314, 752, 1159, 1360, 2243, 2248 |
| BceAI | ACGGC | 5 cut(s) | 36, 350, 367, 1059, 2768 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 2930, 2964 |
| BciT130I | CCWGG | 6 cut(s) | 25, 320, 545, 906, 2429, 2872 |
| BcnI | CCSGG | 5 cut(s) | 443, 593, 594, 600, 784 |
| BfmI | CTRYAG | 3 cut(s) | 1515, 2505, 2518 |
| BfoI | RGCGCY | 2 cut(s) | 218, 1041 |
| BfuAI | ACCTGC | 1 cut(s) | 1319 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 90 |
| Bme18I | GGWCC | 7 cut(s) | 315, 589, 596, 902, 1056, 1155, 2150 |
| BmeT110I | CYCGRG | 2 cut(s) | 592, 628 |
| BmrI | ACTGGG | 1 cut(s) | 1111 |
| BmsI | GCATC | 9 cut(s) | 559, 1350, 1487, 1605, 1995, 2293, 2685, 2932, 3195 |
| BmtI | GCTAGC | 2 cut(s) | 1050, 1347 |
| BmuI | ACTGGG | 1 cut(s) | 1111 |
| BoxI | GACNNNNGTC | 1 cut(s) | 594 |
| BpiI | GAAGAC | 5 cut(s) | 451, 1027, 1409, 1545, 2473 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 56, 88, 2720, 2752 |
| BpmI | CTGGAG | 7 cut(s) | 188, 239, 353, 395, 2130, 2364, 2665 |
| Bpu10I | CCTNAGC | 3 cut(s) | 230, 866, 2193 |
| BpuEI | CTTGAG | 3 cut(s) | 933, 1945, 2074 |
| BpuMI | CCSGG | 5 cut(s) | 443, 593, 594, 600, 784 |
| BsaHI | GRCGYC | 1 cut(s) | 1870 |
| BsaI | GGTCTC | 2 cut(s) | 76, 2825 |
| BsaWI | WCCGGW | 5 cut(s) | 477, 586, 1673, 2441, 3211 |
| BsaXI | ACNNNNNCTCC | 8 cut(s) | 107, 137, 236, 266, 524, 554, 3188, 3218 |
| Bse118I | RCCGGY | 6 cut(s) | 10, 470, 609, 769, 2441, 2920 |
| Bse1I | ACTGG | 4 cut(s) | 205, 1106, 2113, 2648 |
| Bse3DI | GCAATG | 4 cut(s) | 35, 835, 1273, 2496 |
| BseAI | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| BseBI | CCWGG | 6 cut(s) | 25, 320, 545, 906, 2429, 2872 |
| BseMI | GCAATG | 4 cut(s) | 35, 835, 1273, 2496 |
| BseNI | ACTGG | 4 cut(s) | 205, 1106, 2113, 2648 |
| BsePI | GCGCGC | 3 cut(s) | 80, 168, 2613 |
| BseXI | GCAGC | 8 cut(s) | 349, 385, 388, 391, 1123, 2532, 3040, 3062 |
| BseYI | CCCAGC | 2 cut(s) | 261, 638 |
| Bsh1285I | CGRYCG | 4 cut(s) | 247, 447, 804, 1089 |
| BshNI | GGYRCC | 3 cut(s) | 1201, 1242, 2542 |
| BshTI | ACCGGT | 1 cut(s) | 2441 |
| BsiEI | CGRYCG | 4 cut(s) | 247, 447, 804, 1089 |
| BsiHKAI | GWGCWC | 3 cut(s) | 225, 411, 485 |
| BsiHKCI | CYCGRG | 2 cut(s) | 592, 628 |
| BslFI | GGGAC | 5 cut(s) | 301, 915, 1069, 1118, 2410 |
| BsmBI | CGTCTC | 5 cut(s) | 241, 256, 289, 325, 639 |
| BsmFI | GGGAC | 5 cut(s) | 301, 915, 1069, 1118, 2410 |
| BsmI | GAATGC | 4 cut(s) | 2260, 2523, 2615, 2812 |
| Bso31I | GGTCTC | 2 cut(s) | 76, 2825 |
| BsoBI | CYCGRG | 2 cut(s) | 592, 628 |
| Bsp1286I | GDGCHC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| Bsp13I | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| Bsp143I | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| Bsp19I | CCATGG | 1 cut(s) | 2461 |
| BspEI | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| BspMAI | CTGCAG | 1 cut(s) | 2522 |
| BspMI | ACCTGC | 1 cut(s) | 1319 |
| BspOI | GCTAGC | 2 cut(s) | 1050, 1347 |
| BspPI | GGATC | 4 cut(s) | 826, 1982, 2241, 2790 |
| BspQI | GCTCTTC | 1 cut(s) | 1834 |
| BspT107I | GGYRCC | 3 cut(s) | 1201, 1242, 2542 |
| BspTNI | GGTCTC | 2 cut(s) | 76, 2825 |
| BsrBI | CCGCTC | 1 cut(s) | 540 |
| BsrDI | GCAATG | 4 cut(s) | 35, 835, 1273, 2496 |
| BsrFI | RCCGGY | 6 cut(s) | 10, 470, 609, 769, 2441, 2920 |
| BsrI | ACTGG | 4 cut(s) | 205, 1106, 2113, 2648 |
| BssAI | RCCGGY | 6 cut(s) | 10, 470, 609, 769, 2441, 2920 |
| BssHII | GCGCGC | 3 cut(s) | 80, 168, 2613 |
| BssMI | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| BssNI | GRCGYC | 1 cut(s) | 1870 |
| BssT1I | CCWWGG | 2 cut(s) | 1151, 2461 |
| Bst2UI | CCWGG | 6 cut(s) | 25, 320, 545, 906, 2429, 2872 |
| Bst6I | CTCTTC | 3 cut(s) | 1834, 2796, 3128 |
| BstACI | GRCGYC | 1 cut(s) | 1870 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 1117 |
| BstDSI | CCRYGG | 4 cut(s) | 18, 197, 1015, 2461 |
| BstEII | GGTNACC | 1 cut(s) | 970 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 158 |
| BstH2I | RGCGCY | 2 cut(s) | 218, 1041 |
| BstKTI | GATC | 8 cut(s) | 804, 834, 1125, 1990, 2226, 2236, 2785, 2973 |
| BstMBI | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| BstMCI | CGRYCG | 4 cut(s) | 247, 447, 804, 1089 |
| BstNI | CCWGG | 6 cut(s) | 25, 320, 545, 906, 2429, 2872 |
| BstNSI | RCATGY | 2 cut(s) | 940, 1081 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 594 |
| BstPI | GGTNACC | 1 cut(s) | 970 |
| BstSFI | CTRYAG | 3 cut(s) | 1515, 2505, 2518 |
| BstV1I | GCAGC | 8 cut(s) | 349, 385, 388, 391, 1123, 2532, 3040, 3062 |
| BstV2I | GAAGAC | 5 cut(s) | 451, 1027, 1409, 1545, 2473 |
| BstX2I | RGATCY | 2 cut(s) | 2233, 2782 |
| BstXI | CCANNNNNNTGG | 2 cut(s) | 1165, 2896 |
| BstYI | RGATCY | 2 cut(s) | 2233, 2782 |
| BtgI | CCRYGG | 4 cut(s) | 18, 197, 1015, 2461 |
| BtsI | GCAGTG | 2 cut(s) | 899, 2817 |
| BtsIMutI | CAGTG | 5 cut(s) | 899, 1268, 1329, 2817, 2913 |
| BveI | ACCTGC | 1 cut(s) | 1319 |
| CaiI | CAGNNNCTG | 2 cut(s) | 418, 1117 |
| Cfr10I | RCCGGY | 6 cut(s) | 10, 470, 609, 769, 2441, 2920 |
| Cfr42I | CCGCGG | 1 cut(s) | 200 |
| Cfr9I | CCCGGG | 1 cut(s) | 592 |
| CseI | GACGC | 3 cut(s) | 223, 238, 731 |
| Csp6I | GTAC | 3 cut(s) | 2712, 3073, 3156 |
| CspAI | ACCGGT | 1 cut(s) | 2441 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 1500, 1535 |
| CviAII | CATG | 9 cut(s) | 298, 388, 937, 1078, 1475, 1593, 1877, 1976, 2462 |
| CviQI | GTAC | 3 cut(s) | 2712, 3073, 3156 |
| DpnI | GATC | 8 cut(s) | 803, 833, 1124, 1989, 2225, 2235, 2784, 2972 |
| DpnII | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| DrdI | GACNNNNNNGTC | 5 cut(s) | 68, 281, 443, 446, 3029 |
| DseDI | GACNNNNNNGTC | 5 cut(s) | 68, 281, 443, 446, 3029 |
| EaeI | YGGCCR | 2 cut(s) | 21, 300 |
| Eam1104I | CTCTTC | 3 cut(s) | 1834, 2796, 3128 |
| EarI | CTCTTC | 3 cut(s) | 1834, 2796, 3128 |
| EciI | GGCGGA | 3 cut(s) | 115, 139, 497 |
| Ecl136II | GAGCTC | 3 cut(s) | 223, 409, 483 |
| Eco130I | CCWWGG | 2 cut(s) | 1151, 2461 |
| Eco147I | AGGCCT | 1 cut(s) | 164 |
| Eco24I | GRGCYC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| Eco31I | GGTCTC | 2 cut(s) | 76, 2825 |
| Eco32I | GATATC | 1 cut(s) | 1620 |
| Eco47I | GGWCC | 7 cut(s) | 315, 589, 596, 902, 1056, 1155, 2150 |
| Eco53kI | GAGCTC | 3 cut(s) | 223, 409, 483 |
| Eco57I | CTGAAG | 3 cut(s) | 1305, 1557, 2067 |
| Eco88I | CYCGRG | 2 cut(s) | 592, 628 |
| Eco91I | GGTNACC | 1 cut(s) | 970 |
| EcoICRI | GAGCTC | 3 cut(s) | 223, 409, 483 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 158 |
| EcoO109I | RGGNCCY | 2 cut(s) | 902, 1056 |
| EcoO65I | GGTNACC | 1 cut(s) | 970 |
| EcoRI | GAATTC | 3 cut(s) | 856, 2239, 2882 |
| EcoRII | CCWGG | 6 cut(s) | 23, 318, 543, 904, 2427, 2870 |
| EcoRV | GATATC | 1 cut(s) | 1620 |
| EcoT14I | CCWWGG | 2 cut(s) | 1151, 2461 |
| EcoT22I | ATGCAT | 2 cut(s) | 1480, 1598 |
| EcoT38I | GRGCYC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| ErhI | CCWWGG | 2 cut(s) | 1151, 2461 |
| Esp3I | CGTCTC | 5 cut(s) | 241, 256, 289, 325, 639 |
| FaeI | CATG | 9 cut(s) | 301, 391, 940, 1081, 1478, 1596, 1880, 1979, 2465 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 1295, 1327, 1835, 1867 |
| FaqI | GGGAC | 5 cut(s) | 301, 915, 1069, 1118, 2410 |
| FatI | CATG | 9 cut(s) | 297, 387, 936, 1077, 1474, 1592, 1876, 1975, 2461 |
| FauI | CCCGC | 5 cut(s) | 185, 285, 545, 1259, 1497 |
| FblI | GTMKAC | 2 cut(s) | 2391, 2768 |
| FriOI | GRGCYC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| GsaI | CCCAGC | 2 cut(s) | 265, 642 |
| GsuI | CTGGAG | 7 cut(s) | 188, 239, 353, 395, 2130, 2364, 2665 |
| HaeII | RGCGCY | 2 cut(s) | 218, 1041 |
| HgaI | GACGC | 3 cut(s) | 223, 238, 731 |
| Hin1I | GRCGYC | 1 cut(s) | 1870 |
| Hin1II | CATG | 9 cut(s) | 301, 391, 940, 1081, 1478, 1596, 1880, 1979, 2465 |
| HincII | GTYRAC | 4 cut(s) | 750, 993, 1874, 2769 |
| HindII | GTYRAC | 4 cut(s) | 750, 993, 1874, 2769 |
| HindIII | AAGCTT | 3 cut(s) | 1067, 1217, 2990 |
| HpaI | GTTAAC | 1 cut(s) | 750 |
| HphI | GGTGA | 6 cut(s) | 512, 974, 982, 1004, 2878, 3201 |
| Hpy166II | GTNNAC | 8 cut(s) | 750, 825, 993, 1874, 2099, 2392, 2750, 2769 |
| Hpy8I | GTNNAC | 8 cut(s) | 750, 825, 993, 1874, 2099, 2392, 2750, 2769 |
| Hpy99I | CGWCG | 9 cut(s) | 65, 80, 275, 440, 609, 725, 832, 1094, 2770 |
| HpyCH4IV | ACGT | 2 cut(s) | 1870, 2765 |
| HpySE526I | ACGT | 2 cut(s) | 1870, 2765 |
| Hsp92I | GRCGYC | 1 cut(s) | 1870 |
| Hsp92II | CATG | 9 cut(s) | 301, 391, 940, 1081, 1478, 1596, 1880, 1979, 2465 |
| Kpn2I | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| KroI | GCCGGC | 1 cut(s) | 609 |
| KroNI | GCCGGC | 1 cut(s) | 611 |
| KspAI | GTTAAC | 1 cut(s) | 750 |
| KspI | CCGCGG | 1 cut(s) | 200 |
| Kzo9I | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| LguI | GCTCTTC | 1 cut(s) | 1834 |
| Lsp1109I | GCAGC | 8 cut(s) | 349, 385, 388, 391, 1123, 2532, 3040, 3062 |
| LweI | GCATC | 9 cut(s) | 559, 1350, 1487, 1605, 1995, 2293, 2685, 2932, 3195 |
| MaeII | ACGT | 2 cut(s) | 1870, 2765 |
| MaeIII | GTNAC | 4 cut(s) | 962, 970, 1438, 1798 |
| MalI | GATC | 8 cut(s) | 803, 833, 1124, 1989, 2225, 2235, 2784, 2972 |
| MbiI | CCGCTC | 1 cut(s) | 540 |
| MboI | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| MfeI | CAATTG | 1 cut(s) | 2219 |
| MflI | RGATCY | 2 cut(s) | 2233, 2782 |
| MhlI | GDGCHC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| MlyI | GAGTC | 6 cut(s) | 947, 959, 1017, 1178, 1538, 3212 |
| MmeI | TCCRAC | 7 cut(s) | 638, 1109, 1374, 1535, 1805, 2128, 2574 |
| Mph1103I | ATGCAT | 2 cut(s) | 1480, 1598 |
| MroI | TCCGGA | 3 cut(s) | 477, 586, 1673 |
| MroNI | GCCGGC | 1 cut(s) | 609 |
| MseI | TTAA | 7 cut(s) | 35, 399, 749, 1226, 1725, 1853, 3171 |
| MspA1I | CMGCKG | 3 cut(s) | 199, 642, 3053 |
| MunI | CAATTG | 1 cut(s) | 2219 |
| Mva1269I | GAATGC | 4 cut(s) | 2260, 2523, 2615, 2812 |
| MvaI | CCWGG | 6 cut(s) | 25, 320, 545, 906, 2429, 2872 |
| NaeI | GCCGGC | 1 cut(s) | 611 |
| NciI | CCSGG | 5 cut(s) | 443, 593, 594, 600, 784 |
| NcoI | CCATGG | 1 cut(s) | 2461 |
| NdeII | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| NgoMIV | GCCGGC | 1 cut(s) | 609 |
| NheI | GCTAGC | 2 cut(s) | 1046, 1343 |
| NlaIII | CATG | 9 cut(s) | 301, 391, 940, 1081, 1478, 1596, 1880, 1979, 2465 |
| NmuCI | GTSAC | 3 cut(s) | 962, 970, 1798 |
| NsiI | ATGCAT | 2 cut(s) | 1480, 1598 |
| NspI | RCATGY | 2 cut(s) | 940, 1081 |
| PasI | CCCWGGG | 1 cut(s) | 544 |
| PauI | GCGCGC | 3 cut(s) | 80, 168, 2613 |
| PceI | AGGCCT | 1 cut(s) | 164 |
| PciI | ACATGT | 1 cut(s) | 936 |
| PciSI | GCTCTTC | 1 cut(s) | 1834 |
| PcsI | WCGNNNNNNNCGW | 4 cut(s) | 60, 279, 444, 2077 |
| PctI | GAATGC | 4 cut(s) | 2260, 2523, 2615, 2812 |
| PdiI | GCCGGC | 1 cut(s) | 611 |
| PfeI | GAWTC | 6 cut(s) | 421, 1142, 1712, 2456, 2568, 2927 |
| PflFI | GACNNNGTC | 2 cut(s) | 248, 443 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 1187, 2871 |
| PinAI | ACCGGT | 1 cut(s) | 2441 |
| Ple19I | CGATCG | 1 cut(s) | 804 |
| PleI | GAGTC | 6 cut(s) | 947, 959, 1017, 1177, 1537, 3211 |
| PpsI | GAGTC | 6 cut(s) | 947, 959, 1017, 1177, 1537, 3211 |
| PpuMI | RGGWCCY | 2 cut(s) | 902, 1056 |
| PscI | ACATGT | 1 cut(s) | 936 |
| PshAI | GACNNNNGTC | 1 cut(s) | 594 |
| Psp124BI | GAGCTC | 3 cut(s) | 225, 411, 485 |
| Psp5II | RGGWCCY | 2 cut(s) | 902, 1056 |
| Psp6I | CCWGG | 6 cut(s) | 23, 318, 543, 904, 2427, 2870 |
| PspEI | GGTNACC | 1 cut(s) | 970 |
| PspFI | CCCAGC | 2 cut(s) | 261, 638 |
| PspGI | CCWGG | 6 cut(s) | 23, 318, 543, 904, 2427, 2870 |
| PspPPI | RGGWCCY | 2 cut(s) | 902, 1056 |
| PsrI | GAACNNNNNNTAC | 2 cut(s) | 1281, 1313 |
| PstI | CTGCAG | 1 cut(s) | 2522 |
| PstNI | CAGNNNCTG | 2 cut(s) | 418, 1117 |
| PsuI | RGATCY | 2 cut(s) | 2233, 2782 |
| PsyI | GACNNNGTC | 2 cut(s) | 248, 443 |
| PteI | GCGCGC | 3 cut(s) | 80, 168, 2613 |
| PvuI | CGATCG | 1 cut(s) | 804 |
| PvuII | CAGCTG | 1 cut(s) | 3053 |
| RsaI | GTAC | 3 cut(s) | 2713, 3074, 3157 |
| RsaNI | GTAC | 3 cut(s) | 2712, 3073, 3156 |
| SacI | GAGCTC | 3 cut(s) | 225, 411, 485 |
| SacII | CCGCGG | 1 cut(s) | 200 |
| SalI | GTCGAC | 1 cut(s) | 2767 |
| SapI | GCTCTTC | 1 cut(s) | 1834 |
| SaqAI | TTAA | 7 cut(s) | 35, 399, 749, 1226, 1725, 1853, 3171 |
| Sau3AI | GATC | 8 cut(s) | 801, 831, 1122, 1987, 2223, 2233, 2782, 2970 |
| SchI | GAGTC | 6 cut(s) | 947, 959, 1017, 1178, 1538, 3212 |
| SduI | GDGCHC | 5 cut(s) | 178, 225, 411, 485, 2020 |
| SfaNI | GCATC | 9 cut(s) | 559, 1350, 1487, 1605, 1995, 2293, 2685, 2932, 3195 |
| SfcI | CTRYAG | 3 cut(s) | 1515, 2505, 2518 |
| Sfr303I | CCGCGG | 1 cut(s) | 200 |
| SgrBI | CCGCGG | 1 cut(s) | 200 |
| SinI | GGWCC | 7 cut(s) | 315, 589, 596, 902, 1056, 1155, 2150 |
| SmaI | CCCGGG | 1 cut(s) | 594 |
| SmlI | CTYRAG | 3 cut(s) | 948, 1960, 2089 |
| SmoI | CTYRAG | 3 cut(s) | 948, 1960, 2089 |
| SseBI | AGGCCT | 1 cut(s) | 164 |
| SspI | AATATT | 2 cut(s) | 922, 1573 |
| SstI | GAGCTC | 3 cut(s) | 225, 411, 485 |
| StuI | AGGCCT | 1 cut(s) | 164 |
| StyI | CCWWGG | 2 cut(s) | 1151, 2461 |
| TaiI | ACGT | 2 cut(s) | 1873, 2768 |
| TauI | GCSGC | 5 cut(s) | 50, 188, 199, 202, 305 |
| TfiI | GAWTC | 6 cut(s) | 421, 1142, 1712, 2456, 2568, 2927 |
| Tru1I | TTAA | 7 cut(s) | 35, 399, 749, 1226, 1725, 1853, 3171 |
| Tru9I | TTAA | 7 cut(s) | 35, 399, 749, 1226, 1725, 1853, 3171 |
| TscAI | CASTG | 5 cut(s) | 899, 1268, 1329, 2817, 2913 |
| TseFI | GTSAC | 3 cut(s) | 962, 970, 1798 |
| TseI | GCWGC | 8 cut(s) | 337, 373, 376, 379, 1111, 2520, 3050, 3053 |
| Tsp45I | GTSAC | 3 cut(s) | 962, 970, 1798 |
| TspDTI | ATGAA | 8 cut(s) | 1284, 1415, 1581, 1599, 1716, 1878, 2733, 2916 |
| TspGWI | ACGGA | 2 cut(s) | 64, 2359 |
| TspMI | CCCGGG | 1 cut(s) | 592 |
| TspRI | CASTG | 5 cut(s) | 899, 1268, 1329, 2817, 2913 |
| Tth111I | GACNNNGTC | 2 cut(s) | 248, 443 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 1187, 2871 |
| VpaK11BI | GGWCC | 7 cut(s) | 315, 589, 596, 902, 1056, 1155, 2150 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 158 |
| XapI | RAATTY | 6 cut(s) | 856, 1588, 1821, 2239, 2447, 2882 |
| XbaI | TCTAGA | 1 cut(s) | 2725 |
| XceI | RCATGY | 2 cut(s) | 940, 1081 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 2993 |
| XmaI | CCCGGG | 1 cut(s) | 592 |
| XmiI | GTMKAC | 2 cut(s) | 2391, 2768 |
| ZraI | GACGTC | 1 cut(s) | 1871 |
| Zsp2I | ATGCAT | 2 cut(s) | 1480, 1598 |