ribonuclease H protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| Exo_endo_phos | PF03372 | 74 - 239 | 4.9e-09 | Endonuclease/Exonuclease/phosphatase family |
| RVT_1 | PF00078 | 487 - 725 | 3.7e-28 | Reverse transcriptase (RNA-dependent DNA polymerase) |
| zf-RVT | PF13966 | 1034 - 1102 | 1.5e-14 | zinc-binding in reverse transcriptase |
| RVT_3 | PF13456 | 1166 - 1281 | 1e-23 | Reverse transcriptase-like |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc16I | TGCGCA | 1 cut(s) | 3495 |
| Acc36I | ACCTGC | 2 cut(s) | 1411, 1735 |
| AccB1I | GGYRCC | 2 cut(s) | 1306, 2753 |
| AccB7I | CCANNNNNTGG | 2 cut(s) | 345, 2488 |
| AccII | CGCG | 1 cut(s) | 2573 |
| AccIII | TCCGGA | 1 cut(s) | 2289 |
| AclI | AACGTT | 2 cut(s) | 211, 3403 |
| AclWI | GGATC | 4 cut(s) | 946, 1832, 2777, 2790 |
| AcoI | YGGCCR | 2 cut(s) | 367, 2104 |
| AcsI | RAATTY | 2 cut(s) | 794, 1399 |
| AcuI | CTGAAG | 4 cut(s) | 514, 2125, 2579, 3633 |
| AdeI | CACNNNGTG | 1 cut(s) | 2651 |
| AfaI | GTAC | 7 cut(s) | 202, 397, 1274, 1449, 2199, 3313, 3925 |
| AfeI | AGCGCT | 1 cut(s) | 2832 |
| AfiI | CCNNNNNNNGG | 9 cut(s) | 44, 345, 379, 1303, 1865, 2437, 2488, 2834, 4009 |
| AflII | CTTAAG | 2 cut(s) | 77, 2069 |
| AflIII | ACRYGT | 1 cut(s) | 1672 |
| AjiI | CACGTC | 1 cut(s) | 928 |
| AjnI | CCWGG | 3 cut(s) | 63, 2223, 2658 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 128, 160 |
| Alw21I | GWGCWC | 2 cut(s) | 1282, 3199 |
| Alw26I | GTCTC | 2 cut(s) | 2451, 3157 |
| AlwI | GGATC | 4 cut(s) | 946, 1832, 2777, 2790 |
| Ama87I | CYCGRG | 1 cut(s) | 1297 |
| Aor13HI | TCCGGA | 1 cut(s) | 2289 |
| Aor51HI | AGCGCT | 1 cut(s) | 2832 |
| ApeKI | GCWGC | 8 cut(s) | 1628, 2180, 2183, 2666, 3344, 3491, 3560, 3706 |
| ApoI | RAATTY | 2 cut(s) | 794, 1399 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 917, 949 |
| AseI | ATTAAT | 2 cut(s) | 891, 3096 |
| Asp700I | GAANNNNTTC | 3 cut(s) | 140, 779, 1097 |
| AspLEI | GCGC | 8 cut(s) | 406, 1993, 2330, 2700, 2762, 2833, 3496, 3838 |
| AspS9I | GGNCC | 9 cut(s) | 57, 497, 578, 625, 1313, 2287, 2682, 3037, 3322 |
| AsuC2I | CCSGG | 6 cut(s) | 1298, 1299, 1311, 1599, 3065, 4004 |
| AsuHPI | GGTGA | 8 cut(s) | 623, 683, 1432, 1566, 1847, 2592, 2749, 3521 |
| AsuII | TTCGAA | 2 cut(s) | 789, 2539 |
| AsuNHI | GCTAGC | 1 cut(s) | 3832 |
| AvaI | CYCGRG | 1 cut(s) | 1297 |
| AvaII | GGWCC | 4 cut(s) | 497, 578, 625, 2287 |
| AxyI | CCTNAGG | 1 cut(s) | 1179 |
| BaeGI | GKGCMC | 1 cut(s) | 1599 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 1431, 1464 |
| BalI | TGGCCA | 1 cut(s) | 2106 |
| BamHI | GGATCC | 1 cut(s) | 2782 |
| BanI | GGYRCC | 2 cut(s) | 1306, 2753 |
| BanII | GRGCYC | 4 cut(s) | 1282, 1690, 3199, 3633 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 3249, 3281 |
| BbsI | GAAGAC | 1 cut(s) | 390 |
| Bbv12I | GWGCWC | 2 cut(s) | 1282, 3199 |
| BbvCI | CCTCAGC | 2 cut(s) | 1191, 1947 |
| BbvI | GCAGC | 8 cut(s) | 1615, 2167, 2195, 2653, 3331, 3478, 3572, 3718 |
| BceAI | ACGGC | 2 cut(s) | 382, 888 |
| BciT130I | CCWGG | 3 cut(s) | 65, 2225, 2660 |
| BciVI | GTATCC | 2 cut(s) | 2957, 3020 |
| BcnI | CCSGG | 6 cut(s) | 1298, 1299, 1311, 1599, 3065, 4004 |
| BcoDI | GTCTC | 2 cut(s) | 2451, 3157 |
| BfmI | CTRYAG | 4 cut(s) | 2181, 2667, 2676, 3704 |
| BfoI | RGCGCY | 4 cut(s) | 407, 2331, 2763, 2834 |
| BfrI | CTTAAG | 2 cut(s) | 77, 2069 |
| BfuAI | ACCTGC | 2 cut(s) | 1411, 1735 |
| BfuI | GTATCC | 2 cut(s) | 2957, 3020 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 65 |
| BglII | AGATCT | 5 cut(s) | 236, 1638, 2719, 3056, 3725 |
| BlpI | GCTNAGC | 1 cut(s) | 2619 |
| Bme1390I | CCNGG | 9 cut(s) | 65, 1298, 1299, 1311, 1599, 2225, 2660, 3065, 4004 |
| Bme18I | GGWCC | 4 cut(s) | 497, 578, 625, 2287 |
| BmeT110I | CYCGRG | 1 cut(s) | 1297 |
| BmgBI | CACGTC | 1 cut(s) | 928 |
| BmgT120I | GGNCC | 9 cut(s) | 57, 497, 578, 625, 1313, 2287, 2682, 3037, 3322 |
| BmrFI | CCNGG | 9 cut(s) | 65, 1298, 1299, 1311, 1599, 2225, 2660, 3065, 4004 |
| BmrI | ACTGGG | 1 cut(s) | 668 |
| BmsI | GCATC | 4 cut(s) | 853, 2108, 2415, 2653 |
| BmtI | GCTAGC | 1 cut(s) | 3836 |
| BmuI | ACTGGG | 1 cut(s) | 668 |
| BpiI | GAAGAC | 1 cut(s) | 390 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 1943, 1975 |
| BpmI | CTGGAG | 3 cut(s) | 261, 862, 2811 |
| Bpu10I | CCTNAGC | 3 cut(s) | 1191, 1947, 1984 |
| Bpu1102I | GCTNAGC | 1 cut(s) | 2619 |
| Bpu14I | TTCGAA | 2 cut(s) | 789, 2539 |
| BpuEI | CTTGAG | 3 cut(s) | 1268, 1676, 2344 |
| BpuMI | CCSGG | 6 cut(s) | 1298, 1299, 1311, 1599, 3065, 4004 |
| Bsa29I | ATCGAT | 1 cut(s) | 3747 |
| BsaAI | YACGTR | 3 cut(s) | 591, 2729, 3536 |
| BsaBI | GATNNNNATC | 1 cut(s) | 3396 |
| BsaJI | CCNNGG | 5 cut(s) | 440, 1297, 2224, 2645, 2786 |
| BsaWI | WCCGGW | 2 cut(s) | 2289, 2602 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 2489, 2519, 3510, 3540 |
| Bsc4I | CCNNNNNNNGG | 9 cut(s) | 44, 345, 379, 1303, 1865, 2437, 2488, 2834, 4009 |
| Bse118I | RCCGGY | 1 cut(s) | 2756 |
| Bse1I | ACTGG | 4 cut(s) | 674, 694, 2163, 3113 |
| Bse21I | CCTNAGG | 1 cut(s) | 1179 |
| Bse8I | GATNNNNATC | 1 cut(s) | 3396 |
| BseAI | TCCGGA | 1 cut(s) | 2289 |
| BseBI | CCWGG | 3 cut(s) | 65, 2225, 2660 |
| BseCI | ATCGAT | 1 cut(s) | 3747 |
| BseDI | CCNNGG | 5 cut(s) | 440, 1297, 2224, 2645, 2786 |
| BseJI | GATNNNNATC | 1 cut(s) | 3396 |
| BseLI | CCNNNNNNNGG | 9 cut(s) | 44, 345, 379, 1303, 1865, 2437, 2488, 2834, 4009 |
| BseNI | ACTGG | 4 cut(s) | 674, 694, 2163, 3113 |
| BseRI | GAGGAG | 4 cut(s) | 1127, 1145, 1964, 2979 |
| BseSI | GKGCMC | 1 cut(s) | 1599 |
| BseXI | GCAGC | 8 cut(s) | 1615, 2167, 2195, 2653, 3331, 3478, 3572, 3718 |
| BseYI | CCCAGC | 2 cut(s) | 2833, 3626 |
| Bsh1236I | CGCG | 1 cut(s) | 2573 |
| BshNI | GGYRCC | 2 cut(s) | 1306, 2753 |
| BshVI | ATCGAT | 1 cut(s) | 3747 |
| BsiHKAI | GWGCWC | 2 cut(s) | 1282, 3199 |
| BsiHKCI | CYCGRG | 1 cut(s) | 1297 |
| BsiSI | CCGG | 9 cut(s) | 628, 1298, 1311, 1599, 2290, 2603, 2757, 3064, 4003 |
| BslFI | GGGAC | 5 cut(s) | 682, 1473, 1755, 1881, 3946 |
| BslI | CCNNNNNNNGG | 9 cut(s) | 44, 345, 379, 1303, 1865, 2437, 2488, 2834, 4009 |
| BsmAI | GTCTC | 2 cut(s) | 2451, 3157 |
| BsmFI | GGGAC | 5 cut(s) | 682, 1473, 1755, 1881, 3946 |
| BsmI | GAATGC | 2 cut(s) | 749, 821 |
| BsoBI | CYCGRG | 1 cut(s) | 1297 |
| Bsp119I | TTCGAA | 2 cut(s) | 789, 2539 |
| Bsp1286I | GDGCHC | 5 cut(s) | 1282, 1599, 1690, 3199, 3633 |
| Bsp13I | TCCGGA | 1 cut(s) | 2289 |
| Bsp1720I | GCTNAGC | 1 cut(s) | 2619 |
| Bsp68I | TCGCGA | 1 cut(s) | 2573 |
| BspDI | ATCGAT | 1 cut(s) | 3747 |
| BspEI | TCCGGA | 1 cut(s) | 2289 |
| BspFNI | CGCG | 1 cut(s) | 2573 |
| BspHI | TCATGA | 1 cut(s) | 88 |
| BspMAI | CTGCAG | 3 cut(s) | 2185, 2671, 3708 |
| BspMI | ACCTGC | 2 cut(s) | 1411, 1735 |
| BspOI | GCTAGC | 1 cut(s) | 3836 |
| BspPI | GGATC | 4 cut(s) | 946, 1832, 2777, 2790 |
| BspQI | GCTCTTC | 1 cut(s) | 3187 |
| BspT104I | TTCGAA | 2 cut(s) | 789, 2539 |
| BspT107I | GGYRCC | 2 cut(s) | 1306, 2753 |
| BspTI | CTTAAG | 2 cut(s) | 77, 2069 |
| BsrFI | RCCGGY | 1 cut(s) | 2756 |
| BsrI | ACTGG | 4 cut(s) | 674, 694, 2163, 3113 |
| BssAI | RCCGGY | 1 cut(s) | 2756 |
| BssECI | CCNNGG | 5 cut(s) | 440, 1297, 2224, 2645, 2786 |
| BssT1I | CCWWGG | 1 cut(s) | 440 |
| Bst2UI | CCWGG | 3 cut(s) | 65, 2225, 2660 |
| Bst4CI | ACNGT | 5 cut(s) | 2432, 2649, 3509, 3661, 3818 |
| Bst6I | CTCTTC | 6 cut(s) | 770, 944, 1009, 1260, 1660, 3187 |
| BstAFI | CTTAAG | 2 cut(s) | 77, 2069 |
| BstBAI | YACGTR | 3 cut(s) | 591, 2729, 3536 |
| BstBI | TTCGAA | 2 cut(s) | 789, 2539 |
| BstC8I | GCNNGC | 8 cut(s) | 2335, 2571, 2635, 3040, 3249, 3498, 3619, 3834 |
| BstDSI | CCRYGG | 2 cut(s) | 2645, 2786 |
| BstEII | GGTNACC | 1 cut(s) | 2229 |
| BstFNI | CGCG | 1 cut(s) | 2573 |
| BstH2I | RGCGCY | 4 cut(s) | 407, 2331, 2763, 2834 |
| BstHHI | GCGC | 8 cut(s) | 406, 1993, 2330, 2700, 2762, 2833, 3496, 3838 |
| BstMAI | GTCTC | 2 cut(s) | 2451, 3157 |
| BstNI | CCWGG | 3 cut(s) | 65, 2225, 2660 |
| BstNSI | RCATGY | 6 cut(s) | 1358, 1676, 3251, 3300, 3587, 3621 |
| BstPI | GGTNACC | 1 cut(s) | 2229 |
| BstSCI | CCNGG | 9 cut(s) | 63, 1296, 1297, 1309, 1597, 2223, 2658, 3063, 4002 |
| BstSFI | CTRYAG | 4 cut(s) | 2181, 2667, 2676, 3704 |
| BstSLI | GKGCMC | 1 cut(s) | 1599 |
| BstSNI | TACGTA | 1 cut(s) | 2729 |
| BstUI | CGCG | 1 cut(s) | 2573 |
| BstV1I | GCAGC | 8 cut(s) | 1615, 2167, 2195, 2653, 3331, 3478, 3572, 3718 |
| BstV2I | GAAGAC | 1 cut(s) | 390 |
| BstX2I | RGATCY | 7 cut(s) | 236, 938, 1638, 2719, 2782, 3056, 3725 |
| BstYI | RGATCY | 7 cut(s) | 236, 938, 1638, 2719, 2782, 3056, 3725 |
| Bsu15I | ATCGAT | 1 cut(s) | 3747 |
| Bsu36I | CCTNAGG | 1 cut(s) | 1179 |
| BsuI | GTATCC | 2 cut(s) | 2957, 3020 |
| BsuTUI | ATCGAT | 1 cut(s) | 3747 |
| BtgI | CCRYGG | 2 cut(s) | 2645, 2786 |
| BtgZI | GCGATG | 3 cut(s) | 358, 1383, 1810 |
| BtrI | CACGTC | 1 cut(s) | 928 |
| BtsI | GCAGTG | 3 cut(s) | 434, 2364, 2676 |
| BtsIMutI | CAGTG | 4 cut(s) | 434, 2235, 2364, 2676 |
| BtuMI | TCGCGA | 1 cut(s) | 2573 |
| BveI | ACCTGC | 2 cut(s) | 1411, 1735 |
| Cac8I | GCNNGC | 8 cut(s) | 2335, 2571, 2635, 3040, 3249, 3498, 3619, 3834 |
| CciI | TCATGA | 1 cut(s) | 88 |
| CfoI | GCGC | 8 cut(s) | 406, 1993, 2330, 2700, 2762, 2833, 3496, 3838 |
| Cfr10I | RCCGGY | 1 cut(s) | 2756 |
| Cfr13I | GGNCC | 9 cut(s) | 57, 497, 578, 625, 1313, 2287, 2682, 3037, 3322 |
| Cfr9I | CCCGGG | 1 cut(s) | 1297 |
| ClaI | ATCGAT | 1 cut(s) | 3747 |
| CseI | GACGC | 1 cut(s) | 3576 |
| Csp6I | GTAC | 7 cut(s) | 201, 396, 1273, 1448, 2198, 3312, 3924 |
| CspCI | CAANNNNNGTGG | 2 cut(s) | 1762, 1797 |
| CviQI | GTAC | 7 cut(s) | 201, 396, 1273, 1448, 2198, 3312, 3924 |
| DraIII | CACNNNGTG | 1 cut(s) | 2651 |
| EaeI | YGGCCR | 2 cut(s) | 367, 2104 |
| Eam1104I | CTCTTC | 6 cut(s) | 770, 944, 1009, 1260, 1660, 3187 |
| EarI | CTCTTC | 6 cut(s) | 770, 944, 1009, 1260, 1660, 3187 |
| Ecl136II | GAGCTC | 2 cut(s) | 1280, 3197 |
| Eco105I | TACGTA | 1 cut(s) | 2729 |
| Eco130I | CCWWGG | 1 cut(s) | 440 |
| Eco147I | AGGCCT | 2 cut(s) | 85, 1712 |
| Eco24I | GRGCYC | 4 cut(s) | 1282, 1690, 3199, 3633 |
| Eco47I | GGWCC | 4 cut(s) | 497, 578, 625, 2287 |
| Eco47III | AGCGCT | 1 cut(s) | 2832 |
| Eco53kI | GAGCTC | 2 cut(s) | 1280, 3197 |
| Eco57I | CTGAAG | 4 cut(s) | 514, 2125, 2579, 3633 |
| Eco81I | CCTNAGG | 1 cut(s) | 1179 |
| Eco88I | CYCGRG | 1 cut(s) | 1297 |
| Eco91I | GGTNACC | 1 cut(s) | 2229 |
| EcoICRI | GAGCTC | 2 cut(s) | 1280, 3197 |
| EcoO109I | RGGNCCY | 1 cut(s) | 2682 |
| EcoO65I | GGTNACC | 1 cut(s) | 2229 |
| EcoRI | GAATTC | 1 cut(s) | 1399 |
| EcoRII | CCWGG | 3 cut(s) | 63, 2223, 2658 |
| EcoT14I | CCWWGG | 1 cut(s) | 440 |
| EcoT22I | ATGCAT | 3 cut(s) | 2695, 2712, 3253 |
| EcoT38I | GRGCYC | 4 cut(s) | 1282, 1690, 3199, 3633 |
| ErhI | CCWWGG | 1 cut(s) | 440 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 128, 160, 2160, 2192 |
| FaqI | GGGAC | 5 cut(s) | 682, 1473, 1755, 1881, 3946 |
| FauI | CCCGC | 3 cut(s) | 908, 2772, 3047 |
| FauNDI | CATATG | 2 cut(s) | 3434, 3603 |
| FriOI | GRGCYC | 4 cut(s) | 1282, 1690, 3199, 3633 |
| FspI | TGCGCA | 1 cut(s) | 3495 |
| GlaI | GCGC | 8 cut(s) | 405, 1992, 2329, 2699, 2761, 2832, 3495, 3837 |
| GsaI | CCCAGC | 2 cut(s) | 2837, 3630 |
| GsuI | CTGGAG | 3 cut(s) | 261, 862, 2811 |
| HaeII | RGCGCY | 4 cut(s) | 407, 2331, 2763, 2834 |
| HapII | CCGG | 9 cut(s) | 628, 1298, 1311, 1599, 2290, 2603, 2757, 3064, 4003 |
| HgaI | GACGC | 1 cut(s) | 3576 |
| HhaI | GCGC | 8 cut(s) | 406, 1993, 2330, 2700, 2762, 2833, 3496, 3838 |
| Hin6I | GCGC | 8 cut(s) | 404, 1991, 2328, 2698, 2760, 2831, 3494, 3836 |
| HinP1I | GCGC | 8 cut(s) | 404, 1991, 2328, 2698, 2760, 2831, 3494, 3836 |
| HincII | GTYRAC | 2 cut(s) | 1107, 1426 |
| HindII | GTYRAC | 2 cut(s) | 1107, 1426 |
| HindIII | AAGCTT | 3 cut(s) | 1061, 2562, 2907 |
| HpaI | GTTAAC | 2 cut(s) | 1107, 1426 |
| HpaII | CCGG | 9 cut(s) | 628, 1298, 1311, 1599, 2290, 2603, 2757, 3064, 4003 |
| HphI | GGTGA | 8 cut(s) | 623, 683, 1432, 1566, 1847, 2592, 2749, 3521 |
| Hpy166II | GTNNAC | 6 cut(s) | 512, 1107, 1164, 1273, 1426, 3312 |
| Hpy8I | GTNNAC | 6 cut(s) | 512, 1107, 1164, 1273, 1426, 3312 |
| Hpy99I | CGWCG | 1 cut(s) | 929 |
| HpyCH4III | ACNGT | 5 cut(s) | 2432, 2649, 3509, 3661, 3818 |
| HpyCH4IV | ACGT | 9 cut(s) | 199, 211, 590, 927, 2172, 2728, 3375, 3403, 3535 |
| HpySE526I | ACGT | 9 cut(s) | 199, 211, 590, 927, 2172, 2728, 3375, 3403, 3535 |
| HspAI | GCGC | 8 cut(s) | 404, 1991, 2328, 2698, 2760, 2831, 3494, 3836 |
| Kpn2I | TCCGGA | 1 cut(s) | 2289 |
| KspAI | GTTAAC | 2 cut(s) | 1107, 1426 |
| LguI | GCTCTTC | 1 cut(s) | 3187 |
| LmnI | GCTCC | 9 cut(s) | 73, 288, 807, 921, 1160, 1365, 1741, 2966, 3689 |
| Lsp1109I | GCAGC | 8 cut(s) | 1615, 2167, 2195, 2653, 3331, 3478, 3572, 3718 |
| LweI | GCATC | 4 cut(s) | 853, 2108, 2415, 2653 |
| MaeII | ACGT | 9 cut(s) | 199, 211, 590, 927, 2172, 2728, 3375, 3403, 3535 |
| MflI | RGATCY | 7 cut(s) | 236, 938, 1638, 2719, 2782, 3056, 3725 |
| MhlI | GDGCHC | 5 cut(s) | 1282, 1599, 1690, 3199, 3633 |
| MlsI | TGGCCA | 1 cut(s) | 2106 |
| MluNI | TGGCCA | 1 cut(s) | 2106 |
| MlyI | GAGTC | 4 cut(s) | 199, 1961, 2093, 2862 |
| MmeI | TCCRAC | 5 cut(s) | 711, 1026, 1563, 2399, 2564 |
| Mox20I | TGGCCA | 1 cut(s) | 2106 |
| Mph1103I | ATGCAT | 3 cut(s) | 2695, 2712, 3253 |
| MroI | TCCGGA | 1 cut(s) | 2289 |
| MroXI | GAANNNNTTC | 3 cut(s) | 140, 779, 1097 |
| MscI | TGGCCA | 1 cut(s) | 2106 |
| MslI | CAYNNNNRTG | 3 cut(s) | 309, 1434, 2305 |
| Msp20I | TGGCCA | 1 cut(s) | 2106 |
| MspA1I | CMGCKG | 2 cut(s) | 1345, 2333 |
| MspCI | CTTAAG | 2 cut(s) | 77, 2069 |
| MspI | CCGG | 9 cut(s) | 628, 1298, 1311, 1599, 2290, 2603, 2757, 3064, 4003 |
| MspR9I | CCNGG | 9 cut(s) | 65, 1298, 1299, 1311, 1599, 2225, 2660, 3065, 4004 |
| Mva1269I | GAATGC | 2 cut(s) | 749, 821 |
| MvaI | CCWGG | 3 cut(s) | 65, 2225, 2660 |
| MvnI | CGCG | 1 cut(s) | 2573 |
| NciI | CCSGG | 6 cut(s) | 1298, 1299, 1311, 1599, 3065, 4004 |
| NdeI | CATATG | 2 cut(s) | 3434, 3603 |
| NheI | GCTAGC | 1 cut(s) | 3832 |
| NmeAIII | GCCGAG | 1 cut(s) | 3550 |
| NmuCI | GTSAC | 8 cut(s) | 72, 1438, 2598, 2651, 2671, 2858, 3289, 3794 |
| NruI | TCGCGA | 1 cut(s) | 2573 |
| NsbI | TGCGCA | 1 cut(s) | 3495 |
| NsiI | ATGCAT | 3 cut(s) | 2695, 2712, 3253 |
| NspI | RCATGY | 6 cut(s) | 1358, 1676, 3251, 3300, 3587, 3621 |
| NspV | TTCGAA | 2 cut(s) | 789, 2539 |
| PaeI | GCATGC | 2 cut(s) | 3251, 3621 |
| PagI | TCATGA | 1 cut(s) | 88 |
| PceI | AGGCCT | 2 cut(s) | 85, 1712 |
| PciI | ACATGT | 1 cut(s) | 1672 |
| PciSI | GCTCTTC | 1 cut(s) | 3187 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 745, 2211 |
| PctI | GAATGC | 2 cut(s) | 749, 821 |
| PdmI | GAANNNNTTC | 3 cut(s) | 140, 779, 1097 |
| PflMI | CCANNNNNTGG | 2 cut(s) | 345, 2488 |
| PfoI | TCCNGGA | 1 cut(s) | 2658 |
| PleI | GAGTC | 4 cut(s) | 198, 1960, 2092, 2861 |
| PpsI | GAGTC | 4 cut(s) | 198, 1960, 2092, 2861 |
| Ppu21I | YACGTR | 3 cut(s) | 591, 2729, 3536 |
| PscI | ACATGT | 1 cut(s) | 1672 |
| PshBI | ATTAAT | 2 cut(s) | 891, 3096 |
| Psp124BI | GAGCTC | 2 cut(s) | 1282, 3199 |
| Psp1406I | AACGTT | 2 cut(s) | 211, 3403 |
| Psp6I | CCWGG | 3 cut(s) | 63, 2223, 2658 |
| PspEI | GGTNACC | 1 cut(s) | 2229 |
| PspFI | CCCAGC | 2 cut(s) | 2833, 3626 |
| PspGI | CCWGG | 3 cut(s) | 63, 2223, 2658 |
| PspPI | GGNCC | 9 cut(s) | 57, 497, 578, 625, 1313, 2287, 2682, 3037, 3322 |
| PstI | CTGCAG | 3 cut(s) | 2185, 2671, 3708 |
| PsuI | RGATCY | 7 cut(s) | 236, 938, 1638, 2719, 2782, 3056, 3725 |
| RruI | TCGCGA | 1 cut(s) | 2573 |
| RsaI | GTAC | 7 cut(s) | 202, 397, 1274, 1449, 2199, 3313, 3925 |
| RsaNI | GTAC | 7 cut(s) | 201, 396, 1273, 1448, 2198, 3312, 3924 |
| RseI | CAYNNNNRTG | 3 cut(s) | 309, 1434, 2305 |
| SacI | GAGCTC | 2 cut(s) | 1282, 3199 |
| SapI | GCTCTTC | 1 cut(s) | 3187 |
| Sau96I | GGNCC | 9 cut(s) | 57, 497, 578, 625, 1313, 2287, 2682, 3037, 3322 |
| SchI | GAGTC | 4 cut(s) | 199, 1961, 2093, 2862 |
| ScrFI | CCNGG | 9 cut(s) | 65, 1298, 1299, 1311, 1599, 2225, 2660, 3065, 4004 |
| SduI | GDGCHC | 5 cut(s) | 1282, 1599, 1690, 3199, 3633 |
| SfaNI | GCATC | 4 cut(s) | 853, 2108, 2415, 2653 |
| SfcI | CTRYAG | 4 cut(s) | 2181, 2667, 2676, 3704 |
| SfuI | TTCGAA | 2 cut(s) | 789, 2539 |
| SgrAI | CRCCGGYG | 1 cut(s) | 2756 |
| SinI | GGWCC | 4 cut(s) | 497, 578, 625, 2287 |
| SmaI | CCCGGG | 1 cut(s) | 1299 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 309, 1434, 2305 |
| SmlI | CTYRAG | 5 cut(s) | 77, 1283, 1691, 2069, 2323 |
| SmoI | CTYRAG | 5 cut(s) | 77, 1283, 1691, 2069, 2323 |
| SnaBI | TACGTA | 1 cut(s) | 2729 |
| SphI | GCATGC | 2 cut(s) | 3251, 3621 |
| SseBI | AGGCCT | 2 cut(s) | 85, 1712 |
| SspI | AATATT | 1 cut(s) | 2767 |
| SstI | GAGCTC | 2 cut(s) | 1282, 3199 |
| StuI | AGGCCT | 2 cut(s) | 85, 1712 |
| StyD4I | CCNGG | 9 cut(s) | 63, 1296, 1297, 1309, 1597, 2223, 2658, 3063, 4002 |
| StyI | CCWWGG | 1 cut(s) | 440 |
| TaaI | ACNGT | 5 cut(s) | 2432, 2649, 3509, 3661, 3818 |
| TaiI | ACGT | 9 cut(s) | 202, 214, 593, 930, 2175, 2731, 3378, 3406, 3538 |
| TaqI | TCGA | 8 cut(s) | 175, 789, 1698, 1942, 2205, 2539, 2962, 3747 |
| TaqII | GACCGA | 1 cut(s) | 1734 |
| TatI | WGTACW | 1 cut(s) | 3923 |
| TauI | GCSGC | 2 cut(s) | 1555, 2333 |
| TscAI | CASTG | 4 cut(s) | 434, 2242, 2364, 2676 |
| TseFI | GTSAC | 8 cut(s) | 72, 1438, 2598, 2651, 2671, 2858, 3289, 3794 |
| TseI | GCWGC | 8 cut(s) | 1628, 2180, 2183, 2666, 3344, 3491, 3560, 3706 |
| Tsp45I | GTSAC | 8 cut(s) | 72, 1438, 2598, 2651, 2671, 2858, 3289, 3794 |
| TspGWI | ACGGA | 6 cut(s) | 60, 208, 301, 1124, 2775, 3794 |
| TspMI | CCCGGG | 1 cut(s) | 1297 |
| TspRI | CASTG | 4 cut(s) | 434, 2242, 2364, 2676 |
| Van91I | CCANNNNNTGG | 2 cut(s) | 345, 2488 |
| Vha464I | CTTAAG | 2 cut(s) | 77, 2069 |
| VpaK11BI | GGWCC | 4 cut(s) | 497, 578, 625, 2287 |
| VspI | ATTAAT | 2 cut(s) | 891, 3096 |
| XapI | RAATTY | 2 cut(s) | 794, 1399 |
| XbaI | TCTAGA | 2 cut(s) | 100, 821 |
| XceI | RCATGY | 6 cut(s) | 1358, 1676, 3251, 3300, 3587, 3621 |
| XmaI | CCCGGG | 1 cut(s) | 1297 |
| XmnI | GAANNNNTTC | 3 cut(s) | 140, 779, 1097 |
| Zsp2I | ATGCAT | 3 cut(s) | 2695, 2712, 3253 |