DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
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| Species | Orthologous Gene IDs |
|---|---|
| arabidopsis_thaliana | AT1G68990 AT1G68990 |
| fragaria_vesca | FvH4_4g28970 FvH4_4g28970 FvH4_4g28970 FvH4_4g28970 FvH4_4g28970 |
| malus_domestica | MD13G1055100.v1.1 MD16G1054000.v1.1 |
| prunus_persica | Prupe.1G295700_v2.0.a1 Prupe.1G295700_v2.0.a1 |
| pyrus_communis | pycom13g04880 pycom16g04700 |
| rosa_chinensis | RchiOBHm_Chr4g0437111 |
| rosa_laevigata | RLG00000006467 |
| rosa_multiflora | Rmu_co8109606.1_g000001 Rmu_ssc0000006.1_g000008 |
| rosa_roxburghii | Rroxscaffold_5G00378180 |
| rosa_rugosa | Rorug04G0298100 |
| rosa_samantha | Rh4AG352900 Rh4BG362400 Rh4CG376600 Rh4DG356400 |
| rosa_wichuraiana | Rw4G030900 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc16I | TGCGCA | 1 cut(s) | 231 |
| Acc36I | ACCTGC | 1 cut(s) | 1087 |
| Acc65I | GGTACC | 1 cut(s) | 2336 |
| AccB1I | GGYRCC | 1 cut(s) | 2336 |
| AccI | GTMKAC | 1 cut(s) | 2912 |
| AciI | CCGC | 5 cut(s) | 356, 374, 695, 2144, 2864 |
| AclI | AACGTT | 1 cut(s) | 1659 |
| AclWI | GGATC | 6 cut(s) | 245, 776, 1151, 1928, 1941, 2180 |
| AcoI | YGGCCR | 1 cut(s) | 858 |
| AcsI | RAATTY | 4 cut(s) | 505, 1093, 1520, 2638 |
| AcuI | CTGAAG | 7 cut(s) | 276, 425, 453, 1805, 2016, 2457, 2552 |
| AcvI | CACGTG | 1 cut(s) | 2303 |
| AfaI | GTAC | 6 cut(s) | 73, 897, 1283, 1482, 2338, 2523 |
| AfiI | CCNNNNNNNGG | 4 cut(s) | 1239, 1904, 2694, 2879 |
| AgsI | TTSAA | 8 cut(s) | 212, 566, 958, 1904, 1943, 2398, 2420, 2926 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 1199 |
| AjnI | CCWGG | 3 cut(s) | 2025, 2232, 2539 |
| AleI | CACNNNNGTG | 1 cut(s) | 1585 |
| Alw21I | GWGCWC | 3 cut(s) | 388, 1602, 2796 |
| Alw26I | GTCTC | 5 cut(s) | 406, 422, 1567, 2585, 2667 |
| AlwI | GGATC | 6 cut(s) | 245, 776, 1151, 1928, 1941, 2180 |
| AlwNI | CAGNNNCTG | 4 cut(s) | 833, 1012, 1434, 2093 |
| Ama87I | CYCGRG | 2 cut(s) | 1607, 1709 |
| AoxI | GGCC | 3 cut(s) | 858, 1174, 2697 |
| ApoI | RAATTY | 4 cut(s) | 505, 1093, 1520, 2638 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 2247, 2279 |
| AseI | ATTAAT | 1 cut(s) | 1962 |
| Asp700I | GAANNNNTTC | 3 cut(s) | 25, 2196, 2843 |
| Asp718I | GGTACC | 1 cut(s) | 2336 |
| AspLEI | GCGC | 4 cut(s) | 232, 616, 995, 2300 |
| AspS9I | GGNCC | 5 cut(s) | 1061, 1165, 1174, 2697, 2902 |
| AsuHPI | GGTGA | 3 cut(s) | 430, 2123, 2462 |
| AvaI | CYCGRG | 2 cut(s) | 1607, 1709 |
| AvaII | GGWCC | 3 cut(s) | 1061, 1165, 2902 |
| BalI | TGGCCA | 1 cut(s) | 860 |
| BamHI | GGATCC | 1 cut(s) | 1933 |
| BanI | GGYRCC | 1 cut(s) | 2336 |
| BanII | GRGCYC | 3 cut(s) | 1264, 1602, 2796 |
| BbrPI | CACGTG | 1 cut(s) | 2303 |
| BbsI | GAAGAC | 4 cut(s) | 102, 258, 1515, 2551 |
| Bbv12I | GWGCWC | 3 cut(s) | 388, 1602, 2796 |
| BceAI | ACGGC | 1 cut(s) | 2571 |
| BciT130I | CCWGG | 3 cut(s) | 2027, 2234, 2541 |
| BclI | TGATCA | 1 cut(s) | 1252 |
| BcoDI | GTCTC | 5 cut(s) | 406, 422, 1567, 2585, 2667 |
| BfaI | CTAG | 9 cut(s) | 60, 339, 473, 533, 719, 1191, 1379, 2148, 2906 |
| BfmI | CTRYAG | 1 cut(s) | 222 |
| BfuAI | ACCTGC | 1 cut(s) | 1087 |
| Bme1390I | CCNGG | 3 cut(s) | 2027, 2234, 2541 |
| Bme18I | GGWCC | 3 cut(s) | 1061, 1165, 2902 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 1199 |
| BmeT110I | CYCGRG | 2 cut(s) | 1607, 1709 |
| BmgT120I | GGNCC | 5 cut(s) | 1061, 1165, 1174, 2697, 2902 |
| BmiI | GGNNCC | 3 cut(s) | 1353, 1935, 2338 |
| BmrFI | CCNGG | 3 cut(s) | 2027, 2234, 2541 |
| BmsI | GCATC | 5 cut(s) | 1155, 1740, 2080, 2164, 2378 |
| BpiI | GAAGAC | 4 cut(s) | 102, 258, 1515, 2551 |
| BpmI | CTGGAG | 2 cut(s) | 1023, 1370 |
| BpuEI | CTTGAG | 5 cut(s) | 963, 1757, 1999, 2141, 2725 |
| BsaAI | YACGTR | 2 cut(s) | 1619, 2303 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1540 |
| BsaI | GGTCTC | 1 cut(s) | 2667 |
| BsaJI | CCNNGG | 3 cut(s) | 97, 962, 1726 |
| BsaWI | WCCGGW | 1 cut(s) | 68 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 1126, 1156 |
| Bsc4I | CCNNNNNNNGG | 4 cut(s) | 1239, 1904, 2694, 2879 |
| Bse118I | RCCGGY | 3 cut(s) | 634, 2119, 2699 |
| Bse1I | ACTGG | 6 cut(s) | 83, 155, 1244, 1353, 1355, 2516 |
| Bse3DI | GCAATG | 1 cut(s) | 369 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1540 |
| BseBI | CCWGG | 3 cut(s) | 2027, 2234, 2541 |
| BseDI | CCNNGG | 3 cut(s) | 97, 962, 1726 |
| BseGI | GGATG | 6 cut(s) | 1071, 1636, 1690, 1731, 2019, 2035 |
| BseJI | GATNNNNATC | 1 cut(s) | 1540 |
| BseLI | CCNNNNNNNGG | 4 cut(s) | 1239, 1904, 2694, 2879 |
| BseMI | GCAATG | 1 cut(s) | 369 |
| BseMII | CTCAG | 7 cut(s) | 136, 309, 749, 825, 1848, 2788, 2885 |
| BseNI | ACTGG | 6 cut(s) | 83, 155, 1244, 1353, 1355, 2516 |
| BseRI | GAGGAG | 3 cut(s) | 55, 2493, 2626 |
| BshFI | GGCC | 3 cut(s) | 860, 1176, 2699 |
| BshNI | GGYRCC | 1 cut(s) | 2336 |
| BsiHKAI | GWGCWC | 3 cut(s) | 388, 1602, 2796 |
| BsiHKCI | CYCGRG | 2 cut(s) | 1607, 1709 |
| BsiSI | CCGG | 5 cut(s) | 69, 635, 1499, 2120, 2700 |
| BsiWI | CGTACG | 1 cut(s) | 1281 |
| BslI | CCNNNNNNNGG | 4 cut(s) | 1239, 1904, 2694, 2879 |
| BsmAI | GTCTC | 5 cut(s) | 406, 422, 1567, 2585, 2667 |
| BsmI | GAATGC | 2 cut(s) | 730, 1157 |
| BsnI | GGCC | 3 cut(s) | 860, 1176, 2699 |
| Bso31I | GGTCTC | 1 cut(s) | 2667 |
| BsoBI | CYCGRG | 2 cut(s) | 1607, 1709 |
| Bsp1286I | GDGCHC | 4 cut(s) | 388, 1264, 1602, 2796 |
| Bsp1407I | TGTACA | 1 cut(s) | 2521 |
| Bsp19I | CCATGG | 1 cut(s) | 962 |
| BspACI | CCGC | 5 cut(s) | 356, 374, 695, 2144, 2864 |
| BspANI | GGCC | 3 cut(s) | 860, 1176, 2699 |
| BspCNI | CTCAG | 7 cut(s) | 135, 310, 748, 826, 1849, 2787, 2886 |
| BspHI | TCATGA | 2 cut(s) | 1287, 2265 |
| BspLI | GGNNCC | 3 cut(s) | 1353, 1935, 2338 |
| BspMI | ACCTGC | 1 cut(s) | 1087 |
| BspPI | GGATC | 6 cut(s) | 245, 776, 1151, 1928, 1941, 2180 |
| BspQI | GCTCTTC | 2 cut(s) | 16, 1488 |
| BspT107I | GGYRCC | 1 cut(s) | 2336 |
| BspTNI | GGTCTC | 1 cut(s) | 2667 |
| BsrDI | GCAATG | 1 cut(s) | 369 |
| BsrFI | RCCGGY | 3 cut(s) | 634, 2119, 2699 |
| BsrGI | TGTACA | 1 cut(s) | 2521 |
| BsrI | ACTGG | 6 cut(s) | 83, 155, 1244, 1353, 1355, 2516 |
| BssAI | RCCGGY | 3 cut(s) | 634, 2119, 2699 |
| BssECI | CCNNGG | 3 cut(s) | 97, 962, 1726 |
| BssT1I | CCWWGG | 1 cut(s) | 962 |
| Bst2UI | CCWGG | 3 cut(s) | 2027, 2234, 2541 |
| Bst4CI | ACNGT | 7 cut(s) | 776, 895, 1050, 1105, 1321, 1472, 2263 |
| Bst6I | CTCTTC | 4 cut(s) | 16, 1488, 2312, 2403 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 1152 |
| BstAUI | TGTACA | 1 cut(s) | 2521 |
| BstBAI | YACGTR | 2 cut(s) | 1619, 2303 |
| BstDEI | CTNAG | 9 cut(s) | 122, 318, 735, 834, 1857, 2582, 2774, 2812, 2894 |
| BstDSI | CCRYGG | 2 cut(s) | 97, 962 |
| BstENI | CCTNNNNNAGG | 2 cut(s) | 1902, 2692 |
| BstF5I | GGATG | 6 cut(s) | 1071, 1636, 1690, 1731, 2019, 2035 |
| BstHHI | GCGC | 4 cut(s) | 232, 616, 995, 2300 |
| BstMAI | GTCTC | 5 cut(s) | 406, 422, 1567, 2585, 2667 |
| BstMWI | GCNNNNNNNGC | 7 cut(s) | 227, 233, 344, 1152, 1351, 2213, 2429 |
| BstNI | CCWGG | 3 cut(s) | 2027, 2234, 2541 |
| BstNSI | RCATGY | 1 cut(s) | 2744 |
| BstSCI | CCNGG | 3 cut(s) | 2025, 2232, 2539 |
| BstSFI | CTRYAG | 1 cut(s) | 222 |
| BstV2I | GAAGAC | 4 cut(s) | 102, 258, 1515, 2551 |
| BstX2I | RGATCY | 2 cut(s) | 1933, 2185 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 2030 |
| BstYI | RGATCY | 2 cut(s) | 1933, 2185 |
| BsuRI | GGCC | 3 cut(s) | 860, 1176, 2699 |
| BtgI | CCRYGG | 2 cut(s) | 97, 962 |
| BtsCI | GGATG | 6 cut(s) | 1071, 1636, 1690, 1731, 2019, 2035 |
| BtsIMutI | CAGTG | 5 cut(s) | 90, 130, 1317, 2280, 2354 |
| BveI | ACCTGC | 1 cut(s) | 1087 |
| CaiI | CAGNNNCTG | 4 cut(s) | 833, 1012, 1434, 2093 |
| CciI | TCATGA | 2 cut(s) | 1287, 2265 |
| CfoI | GCGC | 4 cut(s) | 232, 616, 995, 2300 |
| Cfr10I | RCCGGY | 3 cut(s) | 634, 2119, 2699 |
| Cfr13I | GGNCC | 5 cut(s) | 1061, 1165, 1174, 2697, 2902 |
| CseI | GACGC | 1 cut(s) | 2746 |
| CsiI | ACCWGGT | 1 cut(s) | 2232 |
| Csp6I | GTAC | 6 cut(s) | 72, 896, 1282, 1481, 2337, 2522 |
| CviQI | GTAC | 6 cut(s) | 72, 896, 1282, 1481, 2337, 2522 |
| DdeI | CTNAG | 9 cut(s) | 122, 318, 735, 834, 1857, 2582, 2774, 2812, 2894 |
| DraI | TTTAAA | 2 cut(s) | 586, 1525 |
| DriI | GACNNNNNGTC | 1 cut(s) | 1199 |
| EaeI | YGGCCR | 1 cut(s) | 858 |
| Eam1104I | CTCTTC | 4 cut(s) | 16, 1488, 2312, 2403 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 1199 |
| EarI | CTCTTC | 4 cut(s) | 16, 1488, 2312, 2403 |
| EciI | GGCGGA | 1 cut(s) | 2853 |
| Ecl136II | GAGCTC | 2 cut(s) | 1600, 2794 |
| Eco130I | CCWWGG | 1 cut(s) | 962 |
| Eco24I | GRGCYC | 3 cut(s) | 1264, 1602, 2796 |
| Eco31I | GGTCTC | 1 cut(s) | 2667 |
| Eco47I | GGWCC | 3 cut(s) | 1061, 1165, 2902 |
| Eco53kI | GAGCTC | 2 cut(s) | 1600, 2794 |
| Eco57I | CTGAAG | 7 cut(s) | 276, 425, 453, 1805, 2016, 2457, 2552 |
| Eco72I | CACGTG | 1 cut(s) | 2303 |
| Eco88I | CYCGRG | 2 cut(s) | 1607, 1709 |
| EcoICRI | GAGCTC | 2 cut(s) | 1600, 2794 |
| EcoNI | CCTNNNNNAGG | 2 cut(s) | 1902, 2692 |
| EcoO109I | RGGNCCY | 2 cut(s) | 1174, 2902 |
| EcoRII | CCWGG | 3 cut(s) | 2025, 2232, 2539 |
| EcoT14I | CCWWGG | 1 cut(s) | 962 |
| EcoT22I | ATGCAT | 3 cut(s) | 666, 1027, 2371 |
| EcoT38I | GRGCYC | 3 cut(s) | 1264, 1602, 2796 |
| ErhI | CCWWGG | 1 cut(s) | 962 |
| FalI | AAGNNNNNCTT | 6 cut(s) | 327, 359, 558, 590, 2795, 2827 |
| FauI | CCCGC | 1 cut(s) | 367 |
| FauNDI | CATATG | 2 cut(s) | 1197, 2212 |
| FbaI | TGATCA | 1 cut(s) | 1252 |
| FblI | GTMKAC | 1 cut(s) | 2912 |
| FokI | GGATG | 6 cut(s) | 1058, 1643, 1677, 1718, 2006, 2042 |
| FriOI | GRGCYC | 3 cut(s) | 1264, 1602, 2796 |
| FspBI | CTAG | 9 cut(s) | 60, 339, 473, 533, 719, 1191, 1379, 2148, 2906 |
| FspI | TGCGCA | 1 cut(s) | 231 |
| GlaI | GCGC | 4 cut(s) | 231, 615, 994, 2299 |
| GsuI | CTGGAG | 2 cut(s) | 1023, 1370 |
| HaeIII | GGCC | 3 cut(s) | 860, 1176, 2699 |
| HapII | CCGG | 5 cut(s) | 69, 635, 1499, 2120, 2700 |
| HgaI | GACGC | 1 cut(s) | 2746 |
| HhaI | GCGC | 4 cut(s) | 232, 616, 995, 2300 |
| Hin6I | GCGC | 4 cut(s) | 230, 614, 993, 2298 |
| HinP1I | GCGC | 4 cut(s) | 230, 614, 993, 2298 |
| HincII | GTYRAC | 7 cut(s) | 160, 1468, 2098, 2239, 2577, 2755, 2913 |
| HindII | GTYRAC | 7 cut(s) | 160, 1468, 2098, 2239, 2577, 2755, 2913 |
| HindIII | AAGCTT | 1 cut(s) | 494 |
| HpaI | GTTAAC | 1 cut(s) | 2577 |
| HpaII | CCGG | 5 cut(s) | 69, 635, 1499, 2120, 2700 |
| HphI | GGTGA | 3 cut(s) | 430, 2123, 2462 |
| HpyCH4III | ACNGT | 7 cut(s) | 776, 895, 1050, 1105, 1321, 1472, 2263 |
| HpyCH4IV | ACGT | 7 cut(s) | 997, 1284, 1618, 1659, 2302, 2332, 2757 |
| HpyF10VI | GCNNNNNNNGC | 7 cut(s) | 227, 233, 344, 1152, 1351, 2213, 2429 |
| HpyF3I | CTNAG | 9 cut(s) | 122, 318, 735, 834, 1857, 2582, 2774, 2812, 2894 |
| HpySE526I | ACGT | 7 cut(s) | 997, 1284, 1618, 1659, 2302, 2332, 2757 |
| HspAI | GCGC | 4 cut(s) | 230, 614, 993, 2298 |
| KpnI | GGTACC | 1 cut(s) | 2340 |
| KroI | GCCGGC | 2 cut(s) | 2119, 2699 |
| KroNI | GCCGGC | 2 cut(s) | 2121, 2701 |
| Ksp22I | TGATCA | 1 cut(s) | 1252 |
| KspAI | GTTAAC | 1 cut(s) | 2577 |
| LguI | GCTCTTC | 2 cut(s) | 16, 1488 |
| LmnI | GCTCC | 7 cut(s) | 68, 383, 625, 1301, 1342, 1351, 2084 |
| LweI | GCATC | 5 cut(s) | 1155, 1740, 2080, 2164, 2378 |
| MabI | ACCWGGT | 1 cut(s) | 2232 |
| MaeI | CTAG | 9 cut(s) | 60, 339, 473, 533, 719, 1191, 1379, 2148, 2906 |
| MaeII | ACGT | 7 cut(s) | 997, 1284, 1618, 1659, 2302, 2332, 2757 |
| MaeIII | GTNAC | 7 cut(s) | 630, 889, 1105, 1862, 2104, 2284, 2303 |
| MflI | RGATCY | 2 cut(s) | 1933, 2185 |
| MhlI | GDGCHC | 4 cut(s) | 388, 1264, 1602, 2796 |
| MlsI | TGGCCA | 1 cut(s) | 860 |
| MluCI | AATT | 9 cut(s) | 290, 505, 852, 1093, 1520, 1528, 1554, 2139, 2638 |
| MluNI | TGGCCA | 1 cut(s) | 860 |
| MlyI | GAGTC | 8 cut(s) | 102, 272, 375, 944, 1827, 1870, 2494, 2918 |
| MmeI | TCCRAC | 3 cut(s) | 1099, 2474, 2805 |
| Mox20I | TGGCCA | 1 cut(s) | 860 |
| Mph1103I | ATGCAT | 3 cut(s) | 666, 1027, 2371 |
| MroNI | GCCGGC | 2 cut(s) | 2119, 2699 |
| MroXI | GAANNNNTTC | 3 cut(s) | 25, 2196, 2843 |
| MscI | TGGCCA | 1 cut(s) | 860 |
| MslI | CAYNNNNRTG | 5 cut(s) | 1322, 1585, 2028, 2672, 2745 |
| Msp20I | TGGCCA | 1 cut(s) | 860 |
| MspA1I | CMGCKG | 3 cut(s) | 227, 1009, 1043 |
| MspI | CCGG | 5 cut(s) | 69, 635, 1499, 2120, 2700 |
| MspR9I | CCNGG | 3 cut(s) | 2027, 2234, 2541 |
| Mva1269I | GAATGC | 2 cut(s) | 730, 1157 |
| MvaI | CCWGG | 3 cut(s) | 2027, 2234, 2541 |
| MwoI | GCNNNNNNNGC | 7 cut(s) | 227, 233, 344, 1152, 1351, 2213, 2429 |
| NaeI | GCCGGC | 2 cut(s) | 2121, 2701 |
| NcoI | CCATGG | 1 cut(s) | 962 |
| NdeI | CATATG | 2 cut(s) | 1197, 2212 |
| NgoMIV | GCCGGC | 2 cut(s) | 2119, 2699 |
| NlaIV | GGNNCC | 3 cut(s) | 1353, 1935, 2338 |
| NmeAIII | GCCGAG | 1 cut(s) | 1751 |
| NmuCI | GTSAC | 3 cut(s) | 1105, 1862, 2303 |
| NsbI | TGCGCA | 1 cut(s) | 231 |
| NsiI | ATGCAT | 3 cut(s) | 666, 1027, 2371 |
| NspI | RCATGY | 1 cut(s) | 2744 |
| OliI | CACNNNNGTG | 1 cut(s) | 1585 |
| PaeI | GCATGC | 1 cut(s) | 2744 |
| PaeR7I | CTCGAG | 1 cut(s) | 1607 |
| PagI | TCATGA | 2 cut(s) | 1287, 2265 |
| PciSI | GCTCTTC | 2 cut(s) | 16, 1488 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 875, 2796 |
| PctI | GAATGC | 2 cut(s) | 730, 1157 |
| PdiI | GCCGGC | 2 cut(s) | 2121, 2701 |
| PdmI | GAANNNNTTC | 3 cut(s) | 25, 2196, 2843 |
| Pfl23II | CGTACG | 1 cut(s) | 1281 |
| PleI | GAGTC | 8 cut(s) | 101, 271, 374, 944, 1826, 1869, 2494, 2917 |
| PmaCI | CACGTG | 1 cut(s) | 2303 |
| PmlI | CACGTG | 1 cut(s) | 2303 |
| PpsI | GAGTC | 8 cut(s) | 101, 271, 374, 944, 1826, 1869, 2494, 2917 |
| Ppu21I | YACGTR | 2 cut(s) | 1619, 2303 |
| PpuMI | RGGWCCY | 1 cut(s) | 2902 |
| PshBI | ATTAAT | 1 cut(s) | 1962 |
| Psp124BI | GAGCTC | 2 cut(s) | 1602, 2796 |
| Psp1406I | AACGTT | 1 cut(s) | 1659 |
| Psp5II | RGGWCCY | 1 cut(s) | 2902 |
| Psp6I | CCWGG | 3 cut(s) | 2025, 2232, 2539 |
| PspCI | CACGTG | 1 cut(s) | 2303 |
| PspGI | CCWGG | 3 cut(s) | 2025, 2232, 2539 |
| PspLI | CGTACG | 1 cut(s) | 1281 |
| PspN4I | GGNNCC | 3 cut(s) | 1353, 1935, 2338 |
| PspPI | GGNCC | 5 cut(s) | 1061, 1165, 1174, 2697, 2902 |
| PspPPI | RGGWCCY | 1 cut(s) | 2902 |
| PspXI | VCTCGAGB | 1 cut(s) | 1607 |
| PstNI | CAGNNNCTG | 4 cut(s) | 833, 1012, 1434, 2093 |
| PsuI | RGATCY | 2 cut(s) | 1933, 2185 |
| PvuII | CAGCTG | 3 cut(s) | 227, 1009, 1043 |
| RsaI | GTAC | 6 cut(s) | 73, 897, 1283, 1482, 2338, 2523 |
| RsaNI | GTAC | 6 cut(s) | 72, 896, 1282, 1481, 2337, 2522 |
| RseI | CAYNNNNRTG | 5 cut(s) | 1322, 1585, 2028, 2672, 2745 |
| SacI | GAGCTC | 2 cut(s) | 1602, 2796 |
| SalI | GTCGAC | 1 cut(s) | 2911 |
| SapI | GCTCTTC | 2 cut(s) | 16, 1488 |
| Sau96I | GGNCC | 5 cut(s) | 1061, 1165, 1174, 2697, 2902 |
| SchI | GAGTC | 8 cut(s) | 102, 272, 375, 944, 1827, 1870, 2494, 2918 |
| ScrFI | CCNGG | 3 cut(s) | 2027, 2234, 2541 |
| SduI | GDGCHC | 4 cut(s) | 388, 1264, 1602, 2796 |
| SexAI | ACCWGGT | 1 cut(s) | 2232 |
| SfaNI | GCATC | 5 cut(s) | 1155, 1740, 2080, 2164, 2378 |
| SfcI | CTRYAG | 1 cut(s) | 222 |
| Sfr274I | CTCGAG | 1 cut(s) | 1607 |
| SinI | GGWCC | 3 cut(s) | 1061, 1165, 2902 |
| SlaI | CTCGAG | 1 cut(s) | 1607 |
| SmiMI | CAYNNNNRTG | 5 cut(s) | 1322, 1585, 2028, 2672, 2745 |
| SmlI | CTYRAG | 6 cut(s) | 978, 1607, 1736, 1978, 2156, 2704 |
| SmoI | CTYRAG | 6 cut(s) | 978, 1607, 1736, 1978, 2156, 2704 |
| SphI | GCATGC | 1 cut(s) | 2744 |
| Sse9I | AATT | 9 cut(s) | 290, 505, 852, 1093, 1520, 1528, 1554, 2139, 2638 |
| SsiI | CCGC | 5 cut(s) | 356, 374, 695, 2144, 2864 |
| SspMI | CTAG | 9 cut(s) | 60, 339, 473, 533, 719, 1191, 1379, 2148, 2906 |
| SstI | GAGCTC | 2 cut(s) | 1602, 2796 |
| StyD4I | CCNGG | 3 cut(s) | 2025, 2232, 2539 |
| StyI | CCWWGG | 1 cut(s) | 962 |
| TaaI | ACNGT | 7 cut(s) | 776, 895, 1050, 1105, 1321, 1472, 2263 |
| TaiI | ACGT | 7 cut(s) | 1000, 1287, 1621, 1662, 2305, 2335, 2760 |
| TaqI | TCGA | 8 cut(s) | 245, 1149, 1608, 1821, 2229, 2533, 2790, 2912 |
| TasI | AATT | 9 cut(s) | 290, 505, 852, 1093, 1520, 1528, 1554, 2139, 2638 |
| TatI | WGTACW | 2 cut(s) | 895, 2521 |
| TauI | GCSGC | 1 cut(s) | 2147 |
| TscAI | CASTG | 5 cut(s) | 90, 130, 1324, 2280, 2361 |
| TseFI | GTSAC | 3 cut(s) | 1105, 1862, 2303 |
| Tsp45I | GTSAC | 3 cut(s) | 1105, 1862, 2303 |
| TspDTI | ATGAA | 9 cut(s) | 18, 294, 303, 533, 1340, 1640, 2025, 2354, 2777 |
| TspGWI | ACGGA | 5 cut(s) | 86, 314, 317, 597, 884 |
| TspRI | CASTG | 5 cut(s) | 90, 130, 1324, 2280, 2361 |
| VpaK11BI | GGWCC | 3 cut(s) | 1061, 1165, 2902 |
| VspI | ATTAAT | 1 cut(s) | 1962 |
| XagI | CCTNNNNNAGG | 2 cut(s) | 1902, 2692 |
| XapI | RAATTY | 4 cut(s) | 505, 1093, 1520, 2638 |
| XceI | RCATGY | 1 cut(s) | 2744 |
| XhoI | CTCGAG | 1 cut(s) | 1607 |
| XmiI | GTMKAC | 1 cut(s) | 2912 |
| XmnI | GAANNNNTTC | 3 cut(s) | 25, 2196, 2843 |
| XspI | CTAG | 9 cut(s) | 60, 339, 473, 533, 719, 1191, 1379, 2148, 2906 |
| Zsp2I | ATGCAT | 3 cut(s) | 666, 1027, 2371 |