Belongs to the histone deacetylase family. HD Type 1 subfamily
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| RNA_pol_Rpb1_1 | PF04997 | 43 - 104 | 4.5e-07 | RNA polymerase Rpb1, domain 1 |
| RNA_pol_Rpb1_2 | PF00623 | 305 - 464 | 6.2e-35 | RNA polymerase Rpb1, domain 2 |
| RNA_pol_Rpb1_3 | PF04983 | 469 - 618 | 5.2e-19 | RNA polymerase Rpb1, domain 3 |
| RNA_pol_Rpb1_4 | PF05000 | 690 - 742 | 5.2e-08 | RNA polymerase Rpb1, domain 4 |
| DUF3223 | PF11523 | 1353 - 1426 | 2.3e-25 | Protein of unknown function (DUF3223) |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| Acc16I | TGCGCA | 1 cut(s) | 2674 |
| Acc36I | ACCTGC | 1 cut(s) | 1636 |
| Acc65I | GGTACC | 2 cut(s) | 182, 1427 |
| AccB1I | GGYRCC | 3 cut(s) | 182, 1427, 1490 |
| AccI | GTMKAC | 1 cut(s) | 2719 |
| AccIII | TCCGGA | 1 cut(s) | 262 |
| AciI | CCGC | 4 cut(s) | 2355, 2450, 2643, 3065 |
| AclWI | GGATC | 8 cut(s) | 128, 488, 572, 950, 1565, 3835, 4018, 4158 |
| AcoI | YGGCCR | 3 cut(s) | 1078, 2644, 4189 |
| AcsI | RAATTY | 6 cut(s) | 795, 1970, 2110, 3088, 3225, 4133 |
| AcuI | CTGAAG | 5 cut(s) | 1719, 2010, 2703, 2768, 3231 |
| AfaI | GTAC | 9 cut(s) | 57, 184, 433, 1429, 1936, 2997, 3959, 4233, 4265 |
| AfeI | AGCGCT | 1 cut(s) | 2856 |
| AfiI | CCNNNNNNNGG | 8 cut(s) | 143, 345, 1313, 1593, 1658, 3372, 3785, 4147 |
| AflII | CTTAAG | 1 cut(s) | 4006 |
| AflIII | ACRYGT | 3 cut(s) | 1102, 1871, 3952 |
| AhdI | GACNNNNNGTC | 1 cut(s) | 2001 |
| AhlI | ACTAGT | 2 cut(s) | 28, 736 |
| AjnI | CCWGG | 8 cut(s) | 123, 549, 2458, 2547, 3316, 3691, 3741, 4026 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 2741, 2773 |
| Alw26I | GTCTC | 5 cut(s) | 1713, 1751, 1988, 4050, 4324 |
| AlwI | GGATC | 8 cut(s) | 128, 488, 572, 950, 1565, 3835, 4018, 4158 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 700 |
| Ama87I | CYCGRG | 1 cut(s) | 75 |
| Aor13HI | TCCGGA | 1 cut(s) | 262 |
| Aor51HI | AGCGCT | 1 cut(s) | 2856 |
| AoxI | GGCC | 4 cut(s) | 1078, 1211, 2644, 4189 |
| ApoI | RAATTY | 6 cut(s) | 795, 1970, 2110, 3088, 3225, 4133 |
| AseI | ATTAAT | 1 cut(s) | 107 |
| Asp700I | GAANNNNTTC | 2 cut(s) | 1736, 3503 |
| Asp718I | GGTACC | 2 cut(s) | 182, 1427 |
| AspLEI | GCGC | 2 cut(s) | 2675, 2857 |
| AspS9I | GGNCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| AsuC2I | CCSGG | 3 cut(s) | 296, 1764, 2099 |
| AsuHPI | GGTGA | 8 cut(s) | 965, 1106, 1328, 1340, 1545, 3250, 3341, 4130 |
| AsuII | TTCGAA | 2 cut(s) | 937, 2824 |
| AvaI | CYCGRG | 1 cut(s) | 75 |
| AvaII | GGWCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 1356, 1389 |
| BalI | TGGCCA | 2 cut(s) | 1080, 4191 |
| BanI | GGYRCC | 3 cut(s) | 182, 1427, 1490 |
| BanII | GRGCYC | 1 cut(s) | 338 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 3361, 3393 |
| BauI | CACGAG | 2 cut(s) | 774, 2419 |
| BbsI | GAAGAC | 3 cut(s) | 2833, 3401, 3828 |
| BbvCI | CCTCAGC | 1 cut(s) | 3558 |
| BceAI | ACGGC | 3 cut(s) | 1614, 4140, 4326 |
| BcgI | CGANNNNNNTGC | 2 cut(s) | 101, 135 |
| BciT130I | CCWGG | 8 cut(s) | 125, 551, 2460, 2549, 3318, 3693, 3743, 4028 |
| BciVI | GTATCC | 2 cut(s) | 1357, 1861 |
| BclI | TGATCA | 2 cut(s) | 925, 2284 |
| BcnI | CCSGG | 3 cut(s) | 296, 1764, 2099 |
| BcoDI | GTCTC | 5 cut(s) | 1713, 1751, 1988, 4050, 4324 |
| BcuI | ACTAGT | 2 cut(s) | 28, 736 |
| BfaI | CTAG | 9 cut(s) | 29, 387, 411, 720, 737, 2075, 2858, 2876, 4229 |
| BfmI | CTRYAG | 5 cut(s) | 352, 1275, 1629, 2589, 3124 |
| BfoI | RGCGCY | 1 cut(s) | 2858 |
| BfrI | CTTAAG | 1 cut(s) | 4006 |
| BfuAI | ACCTGC | 1 cut(s) | 1636 |
| BfuI | GTATCC | 2 cut(s) | 1357, 1861 |
| BglII | AGATCT | 1 cut(s) | 1014 |
| BlpI | GCTNAGC | 2 cut(s) | 2787, 3866 |
| Bme18I | GGWCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| BmeRI | GACNNNNNGTC | 1 cut(s) | 2001 |
| BmeT110I | CYCGRG | 1 cut(s) | 75 |
| BmgT120I | GGNCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| BmiI | GGNNCC | 7 cut(s) | 184, 220, 337, 1429, 1492, 2235, 2543 |
| BmrI | ACTGGG | 2 cut(s) | 60, 2391 |
| BmuI | ACTGGG | 2 cut(s) | 60, 2391 |
| BoxI | GACNNNNGTC | 1 cut(s) | 3405 |
| BpiI | GAAGAC | 3 cut(s) | 2833, 3401, 3828 |
| BplI | GAGNNNNNCTC | 4 cut(s) | 1825, 1857, 2126, 2158 |
| BpmI | CTGGAG | 5 cut(s) | 1172, 3045, 3299, 3725, 3744 |
| Bpu10I | CCTNAGC | 3 cut(s) | 1794, 3558, 3717 |
| Bpu1102I | GCTNAGC | 2 cut(s) | 2787, 3866 |
| Bpu14I | TTCGAA | 2 cut(s) | 937, 2824 |
| BpuEI | CTTGAG | 5 cut(s) | 907, 1064, 1852, 3361, 4348 |
| BpuMI | CCSGG | 3 cut(s) | 296, 1764, 2099 |
| BsaBI | GATNNNNATC | 1 cut(s) | 576 |
| BsaWI | WCCGGW | 3 cut(s) | 262, 3365, 3412 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 1182, 1212 |
| Bsc4I | CCNNNNNNNGG | 8 cut(s) | 143, 345, 1313, 1593, 1658, 3372, 3785, 4147 |
| Bse118I | RCCGGY | 1 cut(s) | 3596 |
| Bse3DI | GCAATG | 3 cut(s) | 1681, 1756, 3627 |
| Bse8I | GATNNNNATC | 1 cut(s) | 576 |
| BseAI | TCCGGA | 1 cut(s) | 262 |
| BseBI | CCWGG | 8 cut(s) | 125, 551, 2460, 2549, 3318, 3693, 3743, 4028 |
| BseGI | GGATG | 4 cut(s) | 247, 2107, 2351, 3445 |
| BseJI | GATNNNNATC | 1 cut(s) | 576 |
| BseLI | CCNNNNNNNGG | 8 cut(s) | 143, 345, 1313, 1593, 1658, 3372, 3785, 4147 |
| BseMI | GCAATG | 3 cut(s) | 1681, 1756, 3627 |
| BseMII | CTCAG | 8 cut(s) | 962, 1459, 1808, 1860, 2805, 3572, 3857, 3905 |
| BseRI | GAGGAG | 3 cut(s) | 2724, 2917, 4293 |
| BseYI | CCCAGC | 2 cut(s) | 766, 3818 |
| BsgI | GTGCAG | 2 cut(s) | 2040, 3454 |
| BshFI | GGCC | 4 cut(s) | 1080, 1213, 2646, 4191 |
| BshNI | GGYRCC | 3 cut(s) | 182, 1427, 1490 |
| BsiHKCI | CYCGRG | 1 cut(s) | 75 |
| BsiSI | CCGG | 7 cut(s) | 263, 296, 1764, 2098, 3366, 3413, 3597 |
| BslFI | GGGAC | 7 cut(s) | 159, 491, 1521, 2476, 2895, 3388, 4258 |
| BslI | CCNNNNNNNGG | 8 cut(s) | 143, 345, 1313, 1593, 1658, 3372, 3785, 4147 |
| BsmAI | GTCTC | 5 cut(s) | 1713, 1751, 1988, 4050, 4324 |
| BsmFI | GGGAC | 7 cut(s) | 159, 491, 1521, 2476, 2895, 3388, 4258 |
| BsmI | GAATGC | 3 cut(s) | 2224, 2405, 4216 |
| BsnI | GGCC | 4 cut(s) | 1080, 1213, 2646, 4191 |
| BsoBI | CYCGRG | 1 cut(s) | 75 |
| Bsp119I | TTCGAA | 2 cut(s) | 937, 2824 |
| Bsp1286I | GDGCHC | 1 cut(s) | 338 |
| Bsp13I | TCCGGA | 1 cut(s) | 262 |
| Bsp1407I | TGTACA | 1 cut(s) | 3957 |
| Bsp1720I | GCTNAGC | 2 cut(s) | 2787, 3866 |
| BspACI | CCGC | 4 cut(s) | 2355, 2450, 2643, 3065 |
| BspANI | GGCC | 4 cut(s) | 1080, 1213, 2646, 4191 |
| BspCNI | CTCAG | 8 cut(s) | 963, 1458, 1807, 1859, 2806, 3571, 3858, 3904 |
| BspEI | TCCGGA | 1 cut(s) | 262 |
| BspHI | TCATGA | 2 cut(s) | 2913, 3856 |
| BspLI | GGNNCC | 7 cut(s) | 184, 220, 337, 1429, 1492, 2235, 2543 |
| BspMAI | CTGCAG | 4 cut(s) | 356, 1633, 2593, 3128 |
| BspMI | ACCTGC | 1 cut(s) | 1636 |
| BspPI | GGATC | 8 cut(s) | 128, 488, 572, 950, 1565, 3835, 4018, 4158 |
| BspQI | GCTCTTC | 1 cut(s) | 2314 |
| BspT104I | TTCGAA | 2 cut(s) | 937, 2824 |
| BspT107I | GGYRCC | 3 cut(s) | 182, 1427, 1490 |
| BspTI | CTTAAG | 1 cut(s) | 4006 |
| BsrDI | GCAATG | 3 cut(s) | 1681, 1756, 3627 |
| BsrFI | RCCGGY | 1 cut(s) | 3596 |
| BsrGI | TGTACA | 1 cut(s) | 3957 |
| BssAI | RCCGGY | 1 cut(s) | 3596 |
| BssSI | CACGAG | 2 cut(s) | 774, 2419 |
| BssT1I | CCWWGG | 4 cut(s) | 1075, 2212, 2960, 3783 |
| Bst2BI | CACGAG | 2 cut(s) | 774, 2419 |
| Bst2UI | CCWGG | 8 cut(s) | 125, 551, 2460, 2549, 3318, 3693, 3743, 4028 |
| Bst6I | CTCTTC | 4 cut(s) | 526, 1986, 2314, 3980 |
| BstAFI | CTTAAG | 1 cut(s) | 4006 |
| BstAPI | GCANNNNNTGC | 4 cut(s) | 360, 2666, 2696, 3041 |
| BstAUI | TGTACA | 1 cut(s) | 3957 |
| BstBI | TTCGAA | 2 cut(s) | 937, 2824 |
| BstC8I | GCNNGC | 9 cut(s) | 43, 1067, 1468, 1664, 2151, 2671, 3675, 3679, 4193 |
| BstDSI | CCRYGG | 1 cut(s) | 4342 |
| BstF5I | GGATG | 4 cut(s) | 247, 2107, 2351, 3445 |
| BstH2I | RGCGCY | 1 cut(s) | 2858 |
| BstHHI | GCGC | 2 cut(s) | 2675, 2857 |
| BstMAI | GTCTC | 5 cut(s) | 1713, 1751, 1988, 4050, 4324 |
| BstNI | CCWGG | 8 cut(s) | 125, 551, 2460, 2549, 3318, 3693, 3743, 4028 |
| BstNSI | RCATGY | 7 cut(s) | 303, 1106, 1621, 1875, 1935, 3650, 3956 |
| BstPAI | GACNNNNGTC | 1 cut(s) | 3405 |
| BstSFI | CTRYAG | 5 cut(s) | 352, 1275, 1629, 2589, 3124 |
| BstV2I | GAAGAC | 3 cut(s) | 2833, 3401, 3828 |
| BstX2I | RGATCY | 4 cut(s) | 493, 1014, 1570, 3827 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 2654 |
| BstYI | RGATCY | 4 cut(s) | 493, 1014, 1570, 3827 |
| BsuI | GTATCC | 2 cut(s) | 1357, 1861 |
| BsuRI | GGCC | 4 cut(s) | 1080, 1213, 2646, 4191 |
| BtgI | CCRYGG | 1 cut(s) | 4342 |
| BtsCI | GGATG | 4 cut(s) | 247, 2107, 2351, 3445 |
| BtsI | GCAGTG | 2 cut(s) | 2788, 3471 |
| BveI | ACCTGC | 1 cut(s) | 1636 |
| Cac8I | GCNNGC | 9 cut(s) | 43, 1067, 1468, 1664, 2151, 2671, 3675, 3679, 4193 |
| CaiI | CAGNNNCTG | 1 cut(s) | 700 |
| CciI | TCATGA | 2 cut(s) | 2913, 3856 |
| CfoI | GCGC | 2 cut(s) | 2675, 2857 |
| Cfr10I | RCCGGY | 1 cut(s) | 3596 |
| Cfr13I | GGNCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| CseI | GACGC | 1 cut(s) | 3764 |
| CsiI | ACCWGGT | 2 cut(s) | 2547, 3316 |
| Csp6I | GTAC | 9 cut(s) | 56, 183, 432, 1428, 1935, 2996, 3958, 4232, 4264 |
| CviQI | GTAC | 9 cut(s) | 56, 183, 432, 1428, 1935, 2996, 3958, 4232, 4264 |
| DraI | TTTAAA | 1 cut(s) | 282 |
| DriI | GACNNNNNGTC | 1 cut(s) | 2001 |
| EaeI | YGGCCR | 3 cut(s) | 1078, 2644, 4189 |
| Eam1104I | CTCTTC | 4 cut(s) | 526, 1986, 2314, 3980 |
| Eam1105I | GACNNNNNGTC | 1 cut(s) | 2001 |
| EarI | CTCTTC | 4 cut(s) | 526, 1986, 2314, 3980 |
| Eco130I | CCWWGG | 4 cut(s) | 1075, 2212, 2960, 3783 |
| Eco147I | AGGCCT | 1 cut(s) | 1213 |
| Eco24I | GRGCYC | 1 cut(s) | 338 |
| Eco32I | GATATC | 1 cut(s) | 4294 |
| Eco47I | GGWCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| Eco47III | AGCGCT | 1 cut(s) | 2856 |
| Eco57I | CTGAAG | 5 cut(s) | 1719, 2010, 2703, 2768, 3231 |
| Eco88I | CYCGRG | 1 cut(s) | 75 |
| EcoO109I | RGGNCCY | 1 cut(s) | 1258 |
| EcoRII | CCWGG | 8 cut(s) | 123, 549, 2458, 2547, 3316, 3691, 3741, 4026 |
| EcoRV | GATATC | 1 cut(s) | 4294 |
| EcoT14I | CCWWGG | 4 cut(s) | 1075, 2212, 2960, 3783 |
| EcoT22I | ATGCAT | 3 cut(s) | 2278, 2952, 3652 |
| EcoT38I | GRGCYC | 1 cut(s) | 338 |
| ErhI | CCWWGG | 4 cut(s) | 1075, 2212, 2960, 3783 |
| FalI | AAGNNNNNCTT | 4 cut(s) | 258, 290, 4000, 4032 |
| FaqI | GGGAC | 7 cut(s) | 159, 491, 1521, 2476, 2895, 3388, 4258 |
| FauNDI | CATATG | 2 cut(s) | 2536, 2614 |
| FbaI | TGATCA | 2 cut(s) | 925, 2284 |
| FblI | GTMKAC | 1 cut(s) | 2719 |
| FokI | GGATG | 4 cut(s) | 234, 2114, 2338, 3432 |
| FriOI | GRGCYC | 1 cut(s) | 338 |
| FspBI | CTAG | 9 cut(s) | 29, 387, 411, 720, 737, 2075, 2858, 2876, 4229 |
| FspI | TGCGCA | 1 cut(s) | 2674 |
| GlaI | GCGC | 2 cut(s) | 2674, 2856 |
| GsaI | CCCAGC | 2 cut(s) | 770, 3822 |
| GsuI | CTGGAG | 5 cut(s) | 1172, 3045, 3299, 3725, 3744 |
| HaeII | RGCGCY | 1 cut(s) | 2858 |
| HaeIII | GGCC | 4 cut(s) | 1080, 1213, 2646, 4191 |
| HapII | CCGG | 7 cut(s) | 263, 296, 1764, 2098, 3366, 3413, 3597 |
| HgaI | GACGC | 1 cut(s) | 3764 |
| HhaI | GCGC | 2 cut(s) | 2675, 2857 |
| Hin6I | GCGC | 2 cut(s) | 2673, 2855 |
| HinP1I | GCGC | 2 cut(s) | 2673, 2855 |
| HindIII | AAGCTT | 3 cut(s) | 2819, 3675, 4113 |
| HpaII | CCGG | 7 cut(s) | 263, 296, 1764, 2098, 3366, 3413, 3597 |
| HphI | GGTGA | 8 cut(s) | 965, 1106, 1328, 1340, 1545, 3250, 3341, 4130 |
| Hpy166II | GTNNAC | 5 cut(s) | 1270, 2720, 3332, 3797, 3958 |
| Hpy8I | GTNNAC | 5 cut(s) | 1270, 2720, 3332, 3797, 3958 |
| Hpy99I | CGWCG | 1 cut(s) | 3461 |
| HpyAV | CCTTC | 9 cut(s) | 1271, 1346, 1445, 1584, 1662, 1694, 2084, 3000, 3363 |
| HpyCH4IV | ACGT | 1 cut(s) | 3456 |
| HpySE526I | ACGT | 1 cut(s) | 3456 |
| HspAI | GCGC | 2 cut(s) | 2673, 2855 |
| Kpn2I | TCCGGA | 1 cut(s) | 262 |
| KpnI | GGTACC | 2 cut(s) | 186, 1431 |
| Ksp22I | TGATCA | 2 cut(s) | 925, 2284 |
| LguI | GCTCTTC | 1 cut(s) | 2314 |
| LmnI | GCTCC | 5 cut(s) | 341, 2852, 3922, 3952, 4306 |
| MabI | ACCWGGT | 2 cut(s) | 2547, 3316 |
| MaeI | CTAG | 9 cut(s) | 29, 387, 411, 720, 737, 2075, 2858, 2876, 4229 |
| MaeII | ACGT | 1 cut(s) | 3456 |
| MfeI | CAATTG | 1 cut(s) | 3638 |
| MflI | RGATCY | 4 cut(s) | 493, 1014, 1570, 3827 |
| MhlI | GDGCHC | 1 cut(s) | 338 |
| MlsI | TGGCCA | 2 cut(s) | 1080, 4191 |
| MluNI | TGGCCA | 2 cut(s) | 1080, 4191 |
| MlyI | GAGTC | 7 cut(s) | 1380, 2348, 2431, 2458, 2877, 3240, 3530 |
| MmeI | TCCRAC | 6 cut(s) | 182, 433, 629, 2296, 3498, 3909 |
| Mox20I | TGGCCA | 2 cut(s) | 1080, 4191 |
| Mph1103I | ATGCAT | 3 cut(s) | 2278, 2952, 3652 |
| MroI | TCCGGA | 1 cut(s) | 262 |
| MroXI | GAANNNNTTC | 2 cut(s) | 1736, 3503 |
| MscI | TGGCCA | 2 cut(s) | 1080, 4191 |
| MslI | CAYNNNNRTG | 9 cut(s) | 63, 1344, 1496, 2835, 2918, 3422, 3763, 4074, 4209 |
| Msp20I | TGGCCA | 2 cut(s) | 1080, 4191 |
| MspA1I | CMGCKG | 3 cut(s) | 119, 2357, 3065 |
| MspCI | CTTAAG | 1 cut(s) | 4006 |
| MspI | CCGG | 7 cut(s) | 263, 296, 1764, 2098, 3366, 3413, 3597 |
| MunI | CAATTG | 1 cut(s) | 3638 |
| Mva1269I | GAATGC | 3 cut(s) | 2224, 2405, 4216 |
| MvaI | CCWGG | 8 cut(s) | 125, 551, 2460, 2549, 3318, 3693, 3743, 4028 |
| NciI | CCSGG | 3 cut(s) | 296, 1764, 2099 |
| NdeI | CATATG | 2 cut(s) | 2536, 2614 |
| NlaIV | GGNNCC | 7 cut(s) | 184, 220, 337, 1429, 1492, 2235, 2543 |
| NsbI | TGCGCA | 1 cut(s) | 2674 |
| NsiI | ATGCAT | 3 cut(s) | 2278, 2952, 3652 |
| NspI | RCATGY | 7 cut(s) | 303, 1106, 1621, 1875, 1935, 3650, 3956 |
| NspV | TTCGAA | 2 cut(s) | 937, 2824 |
| PagI | TCATGA | 2 cut(s) | 2913, 3856 |
| PceI | AGGCCT | 1 cut(s) | 1213 |
| PciI | ACATGT | 3 cut(s) | 1102, 1871, 3952 |
| PciSI | GCTCTTC | 1 cut(s) | 2314 |
| PctI | GAATGC | 3 cut(s) | 2224, 2405, 4216 |
| PdmI | GAANNNNTTC | 2 cut(s) | 1736, 3503 |
| PfeI | GAWTC | 9 cut(s) | 163, 830, 863, 1732, 1958, 2330, 2389, 2470, 4170 |
| PfoI | TCCNGGA | 2 cut(s) | 2097, 4026 |
| PleI | GAGTC | 7 cut(s) | 1379, 2347, 2430, 2458, 2877, 3239, 3529 |
| PpsI | GAGTC | 7 cut(s) | 1379, 2347, 2430, 2458, 2877, 3239, 3529 |
| PpuMI | RGGWCCY | 1 cut(s) | 1258 |
| PscI | ACATGT | 3 cut(s) | 1102, 1871, 3952 |
| PshAI | GACNNNNGTC | 1 cut(s) | 3405 |
| PshBI | ATTAAT | 1 cut(s) | 107 |
| Psp5II | RGGWCCY | 1 cut(s) | 1258 |
| Psp6I | CCWGG | 8 cut(s) | 123, 549, 2458, 2547, 3316, 3691, 3741, 4026 |
| PspFI | CCCAGC | 2 cut(s) | 766, 3818 |
| PspGI | CCWGG | 8 cut(s) | 123, 549, 2458, 2547, 3316, 3691, 3741, 4026 |
| PspN4I | GGNNCC | 7 cut(s) | 184, 220, 337, 1429, 1492, 2235, 2543 |
| PspPI | GGNCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| PspPPI | RGGWCCY | 1 cut(s) | 1258 |
| PstI | CTGCAG | 4 cut(s) | 356, 1633, 2593, 3128 |
| PstNI | CAGNNNCTG | 1 cut(s) | 700 |
| PsuI | RGATCY | 4 cut(s) | 493, 1014, 1570, 3827 |
| PvuII | CAGCTG | 1 cut(s) | 119 |
| RsaI | GTAC | 9 cut(s) | 57, 184, 433, 1429, 1936, 2997, 3959, 4233, 4265 |
| RsaNI | GTAC | 9 cut(s) | 56, 183, 432, 1428, 1935, 2996, 3958, 4232, 4264 |
| RseI | CAYNNNNRTG | 9 cut(s) | 63, 1344, 1496, 2835, 2918, 3422, 3763, 4074, 4209 |
| SapI | GCTCTTC | 1 cut(s) | 2314 |
| Sau96I | GGNCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| SchI | GAGTC | 7 cut(s) | 1380, 2348, 2431, 2458, 2877, 3240, 3530 |
| SduI | GDGCHC | 1 cut(s) | 338 |
| SexAI | ACCWGGT | 2 cut(s) | 2547, 3316 |
| SfcI | CTRYAG | 5 cut(s) | 352, 1275, 1629, 2589, 3124 |
| SfuI | TTCGAA | 2 cut(s) | 937, 2824 |
| SgrAI | CRCCGGYG | 1 cut(s) | 3596 |
| SinI | GGWCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| SmiMI | CAYNNNNRTG | 9 cut(s) | 63, 1344, 1496, 2835, 2918, 3422, 3763, 4074, 4209 |
| SmlI | CTYRAG | 6 cut(s) | 886, 1043, 1831, 3340, 4006, 4327 |
| SmoI | CTYRAG | 6 cut(s) | 886, 1043, 1831, 3340, 4006, 4327 |
| SpeI | ACTAGT | 2 cut(s) | 28, 736 |
| SseBI | AGGCCT | 1 cut(s) | 1213 |
| SsiI | CCGC | 4 cut(s) | 2355, 2450, 2643, 3065 |
| SspMI | CTAG | 9 cut(s) | 29, 387, 411, 720, 737, 2075, 2858, 2876, 4229 |
| StuI | AGGCCT | 1 cut(s) | 1213 |
| StyI | CCWWGG | 4 cut(s) | 1075, 2212, 2960, 3783 |
| TaiI | ACGT | 1 cut(s) | 3459 |
| TatI | WGTACW | 4 cut(s) | 431, 1934, 3957, 4231 |
| TauI | GCSGC | 1 cut(s) | 2646 |
| TfiI | GAWTC | 9 cut(s) | 163, 830, 863, 1732, 1958, 2330, 2389, 2470, 4170 |
| TspGWI | ACGGA | 6 cut(s) | 101, 358, 858, 1576, 2532, 3768 |
| Vha464I | CTTAAG | 1 cut(s) | 4006 |
| VpaK11BI | GGWCC | 4 cut(s) | 219, 1258, 3695, 4346 |
| VspI | ATTAAT | 1 cut(s) | 107 |
| XapI | RAATTY | 6 cut(s) | 795, 1970, 2110, 3088, 3225, 4133 |
| XbaI | TCTAGA | 2 cut(s) | 410, 2875 |
| XceI | RCATGY | 7 cut(s) | 303, 1106, 1621, 1875, 1935, 3650, 3956 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 1073 |
| XmiI | GTMKAC | 1 cut(s) | 2719 |
| XmnI | GAANNNNTTC | 2 cut(s) | 1736, 3503 |
| XspI | CTAG | 9 cut(s) | 29, 387, 411, 720, 737, 2075, 2858, 2876, 4229 |
| Zsp2I | ATGCAT | 3 cut(s) | 2278, 2952, 3652 |