Mitochondrial protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Pol_BBD | PF22936 | 18 - 97 | 8.7e-30 | Pol polyprotein, beta-barrel domain |
| gag_pre-integrs | PF13976 | 126 - 194 | 1.3e-14 | GAG-pre-integrase domain |
| rve | PF00665 | 209 - 309 | 5.5e-15 | Integrase core domain |
| SH3_retrovirus | PF25597 | 383 - 445 | 1.5e-25 | Retroviral polymerase SH3-like domain |
| RVT_2 | PF07727 | 559 - 803 | 2.3e-84 | Reverse transcriptase (RNA-dependent DNA polymerase) |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 2675 |
| Acc16I | TGCGCA | 1 cut(s) | 2846 |
| Acc36I | ACCTGC | 1 cut(s) | 2675 |
| Acc65I | GGTACC | 1 cut(s) | 693 |
| AccB1I | GGYRCC | 2 cut(s) | 693, 3118 |
| AccBSI | CCGCTC | 1 cut(s) | 1533 |
| AccI | GTMKAC | 1 cut(s) | 2016 |
| AccIII | TCCGGA | 1 cut(s) | 303 |
| AciI | CCGC | 4 cut(s) | 657, 1533, 1979, 2499 |
| AclWI | GGATC | 5 cut(s) | 1118, 1253, 1589, 1656, 1742 |
| AcoI | YGGCCR | 1 cut(s) | 469 |
| AcsI | RAATTY | 5 cut(s) | 1476, 2160, 2228, 2252, 2850 |
| AcuI | CTGAAG | 8 cut(s) | 266, 456, 617, 1113, 1359, 1569, 1854, 3089 |
| AcvI | CACGTG | 1 cut(s) | 2060 |
| AfaI | GTAC | 8 cut(s) | 230, 695, 2069, 2465, 2492, 2710, 2887, 2970 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 338, 1069, 1096, 2505 |
| AflIII | ACRYGT | 2 cut(s) | 396, 1156 |
| AjnI | CCWGG | 3 cut(s) | 731, 2410, 3121 |
| AleI | CACNNNNGTG | 2 cut(s) | 84, 224 |
| Alw21I | GWGCWC | 3 cut(s) | 27, 2127, 2595 |
| Alw26I | GTCTC | 4 cut(s) | 181, 2489, 2752, 3090 |
| AlwI | GGATC | 5 cut(s) | 1118, 1253, 1589, 1656, 1742 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 434 |
| Aor13HI | TCCGGA | 1 cut(s) | 303 |
| AoxI | GGCC | 4 cut(s) | 469, 1019, 1782, 2507 |
| ApeKI | GCWGC | 9 cut(s) | 69, 72, 580, 914, 1640, 1889, 2579, 2810, 2813 |
| ApoI | RAATTY | 5 cut(s) | 1476, 2160, 2228, 2252, 2850 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 150, 182 |
| AseI | ATTAAT | 1 cut(s) | 2423 |
| Asp700I | GAANNNNTTC | 4 cut(s) | 594, 1476, 2304, 3090 |
| Asp718I | GGTACC | 1 cut(s) | 693 |
| AspLEI | GCGC | 1 cut(s) | 2847 |
| AspS9I | GGNCC | 2 cut(s) | 659, 1020 |
| AsuC2I | CCSGG | 1 cut(s) | 239 |
| AsuHPI | GGTGA | 8 cut(s) | 529, 847, 1357, 1388, 1738, 1775, 2657, 2699 |
| AsuII | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| AvaII | GGWCC | 1 cut(s) | 659 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 2059, 2092 |
| BalI | TGGCCA | 1 cut(s) | 471 |
| BanI | GGYRCC | 2 cut(s) | 693, 3118 |
| BanII | GRGCYC | 2 cut(s) | 27, 1064 |
| BbrPI | CACGTG | 1 cut(s) | 2060 |
| BbsI | GAAGAC | 2 cut(s) | 444, 2748 |
| Bbv12I | GWGCWC | 3 cut(s) | 27, 2127, 2595 |
| BbvCI | CCTCAGC | 1 cut(s) | 412 |
| BbvI | GCAGC | 9 cut(s) | 56, 84, 592, 926, 1627, 1876, 2566, 2797, 2800 |
| BccI | CCATC | 7 cut(s) | 34, 480, 508, 1367, 1851, 2732, 2996 |
| BciT130I | CCWGG | 3 cut(s) | 733, 2412, 3123 |
| BclI | TGATCA | 2 cut(s) | 345, 1972 |
| BcnI | CCSGG | 1 cut(s) | 239 |
| BcoDI | GTCTC | 4 cut(s) | 181, 2489, 2752, 3090 |
| BfaI | CTAG | 6 cut(s) | 143, 1481, 1854, 1919, 2505, 3074 |
| BfmI | CTRYAG | 4 cut(s) | 70, 880, 912, 2889 |
| BfuAI | ACCTGC | 1 cut(s) | 2675 |
| BisI | GCNGC | 9 cut(s) | 70, 73, 581, 915, 1641, 1890, 2580, 2811, 2814 |
| BlpI | GCTNAGC | 1 cut(s) | 260 |
| BlsI | GCNGC | 9 cut(s) | 71, 74, 582, 916, 1642, 1891, 2581, 2812, 2815 |
| Bme1390I | CCNGG | 4 cut(s) | 239, 733, 2412, 3123 |
| Bme18I | GGWCC | 1 cut(s) | 659 |
| BmgT120I | GGNCC | 2 cut(s) | 659, 1020 |
| BmiI | GGNNCC | 4 cut(s) | 695, 1061, 2055, 3120 |
| BmrFI | CCNGG | 4 cut(s) | 239, 733, 2412, 3123 |
| BmrI | ACTGGG | 1 cut(s) | 2930 |
| BmsI | GCATC | 6 cut(s) | 1450, 1506, 2268, 2443, 2832, 3040 |
| BmuI | ACTGGG | 1 cut(s) | 2930 |
| BpiI | GAAGAC | 2 cut(s) | 444, 2748 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 842, 874 |
| BpmI | CTGGAG | 1 cut(s) | 1728 |
| Bpu10I | CCTNAGC | 2 cut(s) | 412, 2594 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 260 |
| Bpu14I | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| BpuEI | CTTGAG | 4 cut(s) | 390, 846, 2030, 2678 |
| BpuMI | CCSGG | 1 cut(s) | 239 |
| BsaAI | YACGTR | 2 cut(s) | 389, 2060 |
| BsaJI | CCNNGG | 3 cut(s) | 732, 1068, 2411 |
| BsaWI | WCCGGW | 1 cut(s) | 303 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 38, 68, 1360, 1390 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 338, 1069, 1096, 2505 |
| Bse118I | RCCGGY | 1 cut(s) | 1702 |
| Bse1I | ACTGG | 3 cut(s) | 1847, 2206, 2936 |
| Bse3DI | GCAATG | 5 cut(s) | 104, 1149, 1650, 2212, 2805 |
| BseAI | TCCGGA | 1 cut(s) | 303 |
| BseBI | CCWGG | 3 cut(s) | 733, 2412, 3123 |
| BseDI | CCNNGG | 3 cut(s) | 732, 1068, 2411 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 338, 1069, 1096, 2505 |
| BseMI | GCAATG | 5 cut(s) | 104, 1149, 1650, 2212, 2805 |
| BseMII | CTCAG | 6 cut(s) | 426, 660, 1947, 2403, 2553, 2608 |
| BseNI | ACTGG | 3 cut(s) | 1847, 2206, 2936 |
| BseRI | GAGGAG | 3 cut(s) | 59, 858, 861 |
| BseXI | GCAGC | 9 cut(s) | 56, 84, 592, 926, 1627, 1876, 2566, 2797, 2800 |
| BshFI | GGCC | 4 cut(s) | 471, 1021, 1784, 2509 |
| BshNI | GGYRCC | 2 cut(s) | 693, 3118 |
| BsiHKAI | GWGCWC | 3 cut(s) | 27, 2127, 2595 |
| BsiSI | CCGG | 4 cut(s) | 66, 239, 304, 1703 |
| BslFI | GGGAC | 2 cut(s) | 742, 1874 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 338, 1069, 1096, 2505 |
| BsmAI | GTCTC | 4 cut(s) | 181, 2489, 2752, 3090 |
| BsmFI | GGGAC | 2 cut(s) | 742, 1874 |
| BsmI | GAATGC | 2 cut(s) | 1506, 2663 |
| BsnI | GGCC | 4 cut(s) | 471, 1021, 1784, 2509 |
| Bsp119I | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| Bsp1286I | GDGCHC | 4 cut(s) | 27, 1064, 2127, 2595 |
| Bsp13I | TCCGGA | 1 cut(s) | 303 |
| Bsp1407I | TGTACA | 1 cut(s) | 2463 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 260 |
| BspACI | CCGC | 4 cut(s) | 657, 1533, 1979, 2499 |
| BspANI | GGCC | 4 cut(s) | 471, 1021, 1784, 2509 |
| BspCNI | CTCAG | 6 cut(s) | 425, 659, 1948, 2402, 2554, 2607 |
| BspEI | TCCGGA | 1 cut(s) | 303 |
| BspHI | TCATGA | 1 cut(s) | 2119 |
| BspLI | GGNNCC | 4 cut(s) | 695, 1061, 2055, 3120 |
| BspMAI | CTGCAG | 2 cut(s) | 74, 916 |
| BspMI | ACCTGC | 1 cut(s) | 2675 |
| BspPI | GGATC | 5 cut(s) | 1118, 1253, 1589, 1656, 1742 |
| BspQI | GCTCTTC | 1 cut(s) | 599 |
| BspT104I | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| BspT107I | GGYRCC | 2 cut(s) | 693, 3118 |
| BsrBI | CCGCTC | 1 cut(s) | 1533 |
| BsrDI | GCAATG | 5 cut(s) | 104, 1149, 1650, 2212, 2805 |
| BsrFI | RCCGGY | 1 cut(s) | 1702 |
| BsrGI | TGTACA | 1 cut(s) | 2463 |
| BsrI | ACTGG | 3 cut(s) | 1847, 2206, 2936 |
| BssAI | RCCGGY | 1 cut(s) | 1702 |
| BssECI | CCNNGG | 3 cut(s) | 732, 1068, 2411 |
| BssNAI | GTATAC | 1 cut(s) | 2017 |
| BssT1I | CCWWGG | 1 cut(s) | 1068 |
| Bst1107I | GTATAC | 1 cut(s) | 2017 |
| Bst2UI | CCWGG | 3 cut(s) | 733, 2412, 3123 |
| Bst4CI | ACNGT | 5 cut(s) | 430, 2072, 2614, 2822, 2893 |
| Bst6I | CTCTTC | 8 cut(s) | 504, 599, 1089, 1299, 1335, 1431, 1545, 2643 |
| BstAUI | TGTACA | 1 cut(s) | 2463 |
| BstBAI | YACGTR | 2 cut(s) | 389, 2060 |
| BstBI | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| BstC8I | GCNNGC | 4 cut(s) | 418, 1704, 2052, 2577 |
| BstHHI | GCGC | 1 cut(s) | 2847 |
| BstMAI | GTCTC | 4 cut(s) | 181, 2489, 2752, 3090 |
| BstMWI | GCNNNNNNNGC | 7 cut(s) | 127, 477, 891, 1850, 1889, 2060, 2822 |
| BstNI | CCWGG | 3 cut(s) | 733, 2412, 3123 |
| BstNSI | RCATGY | 4 cut(s) | 400, 613, 988, 1160 |
| BstSCI | CCNGG | 4 cut(s) | 237, 731, 2410, 3121 |
| BstSFI | CTRYAG | 4 cut(s) | 70, 880, 912, 2889 |
| BstV1I | GCAGC | 9 cut(s) | 56, 84, 592, 926, 1627, 1876, 2566, 2797, 2800 |
| BstV2I | GAAGAC | 2 cut(s) | 444, 2748 |
| BstX2I | RGATCY | 1 cut(s) | 1734 |
| BstXI | CCANNNNNNTGG | 4 cut(s) | 86, 1792, 1873, 2064 |
| BstYI | RGATCY | 1 cut(s) | 1734 |
| BstZ17I | GTATAC | 1 cut(s) | 2017 |
| BsuRI | GGCC | 4 cut(s) | 471, 1021, 1784, 2509 |
| BtsI | GCAGTG | 1 cut(s) | 1080 |
| BveI | ACCTGC | 1 cut(s) | 2675 |
| Cac8I | GCNNGC | 4 cut(s) | 418, 1704, 2052, 2577 |
| CaiI | CAGNNNCTG | 1 cut(s) | 434 |
| CciI | TCATGA | 1 cut(s) | 2119 |
| CfoI | GCGC | 1 cut(s) | 2847 |
| Cfr10I | RCCGGY | 1 cut(s) | 1702 |
| Cfr13I | GGNCC | 2 cut(s) | 659, 1020 |
| Csp6I | GTAC | 8 cut(s) | 229, 694, 2068, 2464, 2491, 2709, 2886, 2969 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 2819, 2854 |
| CviQI | GTAC | 8 cut(s) | 229, 694, 2068, 2464, 2491, 2709, 2886, 2969 |
| EaeI | YGGCCR | 1 cut(s) | 469 |
| Eam1104I | CTCTTC | 8 cut(s) | 504, 599, 1089, 1299, 1335, 1431, 1545, 2643 |
| EarI | CTCTTC | 8 cut(s) | 504, 599, 1089, 1299, 1335, 1431, 1545, 2643 |
| Ecl136II | GAGCTC | 1 cut(s) | 25 |
| Eco130I | CCWWGG | 1 cut(s) | 1068 |
| Eco147I | AGGCCT | 1 cut(s) | 2509 |
| Eco24I | GRGCYC | 2 cut(s) | 27, 1064 |
| Eco47I | GGWCC | 1 cut(s) | 659 |
| Eco53kI | GAGCTC | 1 cut(s) | 25 |
| Eco57I | CTGAAG | 8 cut(s) | 266, 456, 617, 1113, 1359, 1569, 1854, 3089 |
| Eco72I | CACGTG | 1 cut(s) | 2060 |
| EcoICRI | GAGCTC | 1 cut(s) | 25 |
| EcoRI | GAATTC | 1 cut(s) | 2228 |
| EcoRII | CCWGG | 3 cut(s) | 731, 2410, 3121 |
| EcoT14I | CCWWGG | 1 cut(s) | 1068 |
| EcoT22I | ATGCAT | 1 cut(s) | 2946 |
| EcoT38I | GRGCYC | 2 cut(s) | 27, 1064 |
| ErhI | CCWWGG | 1 cut(s) | 1068 |
| FalI | AAGNNNNNCTT | 6 cut(s) | 239, 271, 1721, 1753, 2640, 2672 |
| FaqI | GGGAC | 2 cut(s) | 742, 1874 |
| FauNDI | CATATG | 1 cut(s) | 2571 |
| FbaI | TGATCA | 2 cut(s) | 345, 1972 |
| FblI | GTMKAC | 1 cut(s) | 2016 |
| Fnu4HI | GCNGC | 9 cut(s) | 70, 73, 581, 915, 1641, 1890, 2580, 2811, 2814 |
| FriOI | GRGCYC | 2 cut(s) | 27, 1064 |
| Fsp4HI | GCNGC | 9 cut(s) | 70, 73, 581, 915, 1641, 1890, 2580, 2811, 2814 |
| FspBI | CTAG | 6 cut(s) | 143, 1481, 1854, 1919, 2505, 3074 |
| FspI | TGCGCA | 1 cut(s) | 2846 |
| GlaI | GCGC | 1 cut(s) | 2846 |
| GluI | GCNGC | 9 cut(s) | 70, 73, 581, 915, 1641, 1890, 2580, 2811, 2814 |
| GsuI | CTGGAG | 1 cut(s) | 1728 |
| HaeIII | GGCC | 4 cut(s) | 471, 1021, 1784, 2509 |
| HapII | CCGG | 4 cut(s) | 66, 239, 304, 1703 |
| HhaI | GCGC | 1 cut(s) | 2847 |
| Hin6I | GCGC | 1 cut(s) | 2845 |
| HinP1I | GCGC | 1 cut(s) | 2845 |
| HincII | GTYRAC | 1 cut(s) | 1692 |
| HindII | GTYRAC | 1 cut(s) | 1692 |
| HindIII | AAGCTT | 7 cut(s) | 478, 762, 1242, 1614, 2530, 2654, 2921 |
| HinfI | GANTC | 9 cut(s) | 62, 204, 590, 1235, 1394, 1675, 2043, 2398, 2482 |
| HpaI | GTTAAC | 1 cut(s) | 1692 |
| HpaII | CCGG | 4 cut(s) | 66, 239, 304, 1703 |
| HphI | GGTGA | 8 cut(s) | 529, 847, 1357, 1388, 1738, 1775, 2657, 2699 |
| Hpy188I | TCNGA | 9 cut(s) | 436, 649, 981, 994, 1270, 1549, 2266, 2372, 2703 |
| HpyCH4III | ACNGT | 5 cut(s) | 430, 2072, 2614, 2822, 2893 |
| HpyCH4IV | ACGT | 5 cut(s) | 18, 388, 1273, 2059, 2971 |
| HpyF10VI | GCNNNNNNNGC | 7 cut(s) | 127, 477, 891, 1850, 1889, 2060, 2822 |
| HpySE526I | ACGT | 5 cut(s) | 18, 388, 1273, 2059, 2971 |
| HspAI | GCGC | 1 cut(s) | 2845 |
| Kpn2I | TCCGGA | 1 cut(s) | 303 |
| KpnI | GGTACC | 1 cut(s) | 697 |
| KroI | GCCGGC | 1 cut(s) | 1702 |
| KroNI | GCCGGC | 1 cut(s) | 1704 |
| Ksp22I | TGATCA | 2 cut(s) | 345, 1972 |
| KspAI | GTTAAC | 1 cut(s) | 1692 |
| LguI | GCTCTTC | 1 cut(s) | 599 |
| LmnI | GCTCC | 8 cut(s) | 241, 981, 1059, 1709, 1948, 2059, 2741, 3013 |
| Lsp1109I | GCAGC | 9 cut(s) | 56, 84, 592, 926, 1627, 1876, 2566, 2797, 2800 |
| LweI | GCATC | 6 cut(s) | 1450, 1506, 2268, 2443, 2832, 3040 |
| MaeI | CTAG | 6 cut(s) | 143, 1481, 1854, 1919, 2505, 3074 |
| MaeII | ACGT | 5 cut(s) | 18, 388, 1273, 2059, 2971 |
| MaeIII | GTNAC | 7 cut(s) | 3, 205, 289, 1588, 2565, 2776, 2900 |
| MbiI | CCGCTC | 1 cut(s) | 1533 |
| MfeI | CAATTG | 5 cut(s) | 272, 905, 1665, 1719, 2403 |
| MflI | RGATCY | 1 cut(s) | 1734 |
| MhlI | GDGCHC | 4 cut(s) | 27, 1064, 2127, 2595 |
| MlsI | TGGCCA | 1 cut(s) | 471 |
| MluNI | TGGCCA | 1 cut(s) | 471 |
| MlyI | GAGTC | 4 cut(s) | 213, 1403, 2037, 2491 |
| MmeI | TCCRAC | 4 cut(s) | 972, 1622, 1883, 2582 |
| Mox20I | TGGCCA | 1 cut(s) | 471 |
| Mph1103I | ATGCAT | 1 cut(s) | 2946 |
| MroI | TCCGGA | 1 cut(s) | 303 |
| MroNI | GCCGGC | 1 cut(s) | 1702 |
| MroXI | GAANNNNTTC | 4 cut(s) | 594, 1476, 2304, 3090 |
| MscI | TGGCCA | 1 cut(s) | 471 |
| MseI | TTAA | 8 cut(s) | 786, 870, 1691, 1740, 2009, 2423, 2534, 2604 |
| MslI | CAYNNNNRTG | 7 cut(s) | 84, 224, 1574, 1871, 2062, 2522, 2964 |
| Msp20I | TGGCCA | 1 cut(s) | 471 |
| MspA1I | CMGCKG | 1 cut(s) | 1121 |
| MspI | CCGG | 4 cut(s) | 66, 239, 304, 1703 |
| MspR9I | CCNGG | 4 cut(s) | 239, 733, 2412, 3123 |
| MunI | CAATTG | 5 cut(s) | 272, 905, 1665, 1719, 2403 |
| Mva1269I | GAATGC | 2 cut(s) | 1506, 2663 |
| MvaI | CCWGG | 3 cut(s) | 733, 2412, 3123 |
| MwoI | GCNNNNNNNGC | 7 cut(s) | 127, 477, 891, 1850, 1889, 2060, 2822 |
| NaeI | GCCGGC | 1 cut(s) | 1704 |
| NciI | CCSGG | 1 cut(s) | 239 |
| NdeI | CATATG | 1 cut(s) | 2571 |
| NgoMIV | GCCGGC | 1 cut(s) | 1702 |
| NlaIV | GGNNCC | 4 cut(s) | 695, 1061, 2055, 3120 |
| NmeAIII | GCCGAG | 1 cut(s) | 970 |
| NmuCI | GTSAC | 3 cut(s) | 205, 1588, 2900 |
| NsbI | TGCGCA | 1 cut(s) | 2846 |
| NsiI | ATGCAT | 1 cut(s) | 2946 |
| NspI | RCATGY | 4 cut(s) | 400, 613, 988, 1160 |
| NspV | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| OliI | CACNNNNGTG | 2 cut(s) | 84, 224 |
| PagI | TCATGA | 1 cut(s) | 2119 |
| PaqCI | CACCTGC | 1 cut(s) | 2675 |
| PceI | AGGCCT | 1 cut(s) | 2509 |
| PciI | ACATGT | 2 cut(s) | 396, 1156 |
| PciSI | GCTCTTC | 1 cut(s) | 599 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 942 |
| PctI | GAATGC | 2 cut(s) | 1506, 2663 |
| PdiI | GCCGGC | 1 cut(s) | 1704 |
| PdmI | GAANNNNTTC | 4 cut(s) | 594, 1476, 2304, 3090 |
| PfeI | GAWTC | 5 cut(s) | 62, 590, 1235, 1675, 2398 |
| PfoI | TCCNGGA | 1 cut(s) | 237 |
| PkrI | GCNGC | 9 cut(s) | 71, 74, 582, 916, 1642, 1891, 2581, 2812, 2815 |
| PleI | GAGTC | 4 cut(s) | 212, 1402, 2037, 2490 |
| PmaCI | CACGTG | 1 cut(s) | 2060 |
| PmlI | CACGTG | 1 cut(s) | 2060 |
| PpsI | GAGTC | 4 cut(s) | 212, 1402, 2037, 2490 |
| Ppu21I | YACGTR | 2 cut(s) | 389, 2060 |
| PscI | ACATGT | 2 cut(s) | 396, 1156 |
| PshBI | ATTAAT | 1 cut(s) | 2423 |
| Psp124BI | GAGCTC | 1 cut(s) | 27 |
| Psp6I | CCWGG | 3 cut(s) | 731, 2410, 3121 |
| PspCI | CACGTG | 1 cut(s) | 2060 |
| PspGI | CCWGG | 3 cut(s) | 731, 2410, 3121 |
| PspN4I | GGNNCC | 4 cut(s) | 695, 1061, 2055, 3120 |
| PspPI | GGNCC | 2 cut(s) | 659, 1020 |
| PstI | CTGCAG | 2 cut(s) | 74, 916 |
| PstNI | CAGNNNCTG | 1 cut(s) | 434 |
| PsuI | RGATCY | 1 cut(s) | 1734 |
| PvuII | CAGCTG | 1 cut(s) | 1121 |
| RsaI | GTAC | 8 cut(s) | 230, 695, 2069, 2465, 2492, 2710, 2887, 2970 |
| RsaNI | GTAC | 8 cut(s) | 229, 694, 2068, 2464, 2491, 2709, 2886, 2969 |
| RseI | CAYNNNNRTG | 7 cut(s) | 84, 224, 1574, 1871, 2062, 2522, 2964 |
| SacI | GAGCTC | 1 cut(s) | 27 |
| SapI | GCTCTTC | 1 cut(s) | 599 |
| SaqAI | TTAA | 8 cut(s) | 786, 870, 1691, 1740, 2009, 2423, 2534, 2604 |
| SatI | GCNGC | 9 cut(s) | 70, 73, 581, 915, 1641, 1890, 2580, 2811, 2814 |
| Sau96I | GGNCC | 2 cut(s) | 659, 1020 |
| SchI | GAGTC | 4 cut(s) | 213, 1403, 2037, 2491 |
| ScrFI | CCNGG | 4 cut(s) | 239, 733, 2412, 3123 |
| SduI | GDGCHC | 4 cut(s) | 27, 1064, 2127, 2595 |
| SfaNI | GCATC | 6 cut(s) | 1450, 1506, 2268, 2443, 2832, 3040 |
| SfcI | CTRYAG | 4 cut(s) | 70, 880, 912, 2889 |
| SfuI | TTCGAA | 3 cut(s) | 1302, 2927, 3084 |
| SinI | GGWCC | 1 cut(s) | 659 |
| SmiMI | CAYNNNNRTG | 7 cut(s) | 84, 224, 1574, 1871, 2062, 2522, 2964 |
| SmlI | CTYRAG | 4 cut(s) | 405, 861, 2045, 2657 |
| SmoI | CTYRAG | 4 cut(s) | 405, 861, 2045, 2657 |
| SseBI | AGGCCT | 1 cut(s) | 2509 |
| SsiI | CCGC | 4 cut(s) | 657, 1533, 1979, 2499 |
| SspMI | CTAG | 6 cut(s) | 143, 1481, 1854, 1919, 2505, 3074 |
| SstI | GAGCTC | 1 cut(s) | 27 |
| StuI | AGGCCT | 1 cut(s) | 2509 |
| StyD4I | CCNGG | 4 cut(s) | 237, 731, 2410, 3121 |
| StyI | CCWWGG | 1 cut(s) | 1068 |
| TaaI | ACNGT | 5 cut(s) | 430, 2072, 2614, 2822, 2893 |
| TaiI | ACGT | 5 cut(s) | 21, 391, 1276, 2062, 2974 |
| TatI | WGTACW | 5 cut(s) | 228, 2463, 2490, 2708, 2885 |
| TfiI | GAWTC | 5 cut(s) | 62, 590, 1235, 1675, 2398 |
| Tru1I | TTAA | 8 cut(s) | 786, 870, 1691, 1740, 2009, 2423, 2534, 2604 |
| Tru9I | TTAA | 8 cut(s) | 786, 870, 1691, 1740, 2009, 2423, 2534, 2604 |
| TseFI | GTSAC | 3 cut(s) | 205, 1588, 2900 |
| TseI | GCWGC | 9 cut(s) | 69, 72, 580, 914, 1640, 1889, 2579, 2810, 2813 |
| Tsp45I | GTSAC | 3 cut(s) | 205, 1588, 2900 |
| VpaK11BI | GGWCC | 1 cut(s) | 659 |
| VspI | ATTAAT | 1 cut(s) | 2423 |
| XapI | RAATTY | 5 cut(s) | 1476, 2160, 2228, 2252, 2850 |
| XbaI | TCTAGA | 1 cut(s) | 1480 |
| XceI | RCATGY | 4 cut(s) | 400, 613, 988, 1160 |
| XcmI | CCANNNNNNNNNTGG | 3 cut(s) | 970, 1014, 1854 |
| XmiI | GTMKAC | 1 cut(s) | 2016 |
| XmnI | GAANNNNTTC | 4 cut(s) | 594, 1476, 2304, 3090 |
| XspI | CTAG | 6 cut(s) | 143, 1481, 1854, 1919, 2505, 3074 |
| Zsp2I | ATGCAT | 1 cut(s) | 2946 |