Pentatricopeptide repeat-containing protein
| Domain Name | Pfam ID | Position | E-value | Description |
|---|---|---|---|---|
| PHD | PF00628 | 190 - 233 | 3.3e-08 | PHD-finger |
| BAH | PF01426 | 269 - 358 | 2.9e-11 | BAH domain |
| AAA_16 | PF13191 | 464 - 608 | 1.7e-07 | AAA ATPase domain |
| AAA_22 | PF13401 | 490 - 616 | 4.2e-08 | AAA domain |
| AAA | PF00004 | 493 - 638 | 2.7e-17 | ATPase family associated with various cellular activities (AAA) |
| Cdc6-ORC-like_ATPase_lid | PF22606 | 646 - 698 | 2.2e-07 | Cdc6/ORC-like, ATPase lid domain |
| AAA_lid_10 | PF17872 | 666 - 700 | 2.6e-10 | AAA lid domain |
| WHD_Cdc6 | PF09079 | 739 - 830 | 5.6e-08 | CDC6, C terminal winged helix domain |
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 2328 |
| AarI | CACCTGC | 1 cut(s) | 442 |
| Acc36I | ACCTGC | 1 cut(s) | 442 |
| AccB1I | GGYRCC | 1 cut(s) | 2200 |
| AccBSI | CCGCTC | 2 cut(s) | 106, 373 |
| AccII | CGCG | 2 cut(s) | 133, 427 |
| AciI | CCGC | 9 cut(s) | 5, 104, 111, 136, 373, 690, 808, 1270, 2101 |
| AclWI | GGATC | 6 cut(s) | 36, 51, 56, 120, 194, 1875 |
| AcoI | YGGCCR | 1 cut(s) | 2520 |
| AcsI | RAATTY | 3 cut(s) | 1255, 1534, 1715 |
| AcuI | CTGAAG | 3 cut(s) | 693, 1566, 2513 |
| AfaI | GTAC | 3 cut(s) | 1064, 1518, 2338 |
| AfiI | CCNNNNNNNGG | 5 cut(s) | 242, 746, 747, 1017, 1499 |
| AflIII | ACRYGT | 1 cut(s) | 425 |
| AhlI | ACTAGT | 1 cut(s) | 190 |
| AjnI | CCWGG | 4 cut(s) | 1492, 2196, 2211, 2359 |
| Alw21I | GWGCWC | 3 cut(s) | 539, 1208, 1240 |
| Alw26I | GTCTC | 2 cut(s) | 15, 875 |
| AlwI | GGATC | 6 cut(s) | 36, 51, 56, 120, 194, 1875 |
| AlwNI | CAGNNNCTG | 2 cut(s) | 1169, 1613 |
| Ama87I | CYCGRG | 2 cut(s) | 1233, 1310 |
| AoxI | GGCC | 4 cut(s) | 400, 1814, 1930, 2520 |
| ApoI | RAATTY | 3 cut(s) | 1255, 1534, 1715 |
| Asp700I | GAANNNNTTC | 3 cut(s) | 552, 963, 2355 |
| AspLEI | GCGC | 1 cut(s) | 135 |
| AspS9I | GGNCC | 3 cut(s) | 375, 724, 1931 |
| AsuC2I | CCSGG | 1 cut(s) | 875 |
| AsuHPI | GGTGA | 5 cut(s) | 497, 512, 2227, 2303, 2411 |
| AsuNHI | GCTAGC | 1 cut(s) | 437 |
| AvaI | CYCGRG | 2 cut(s) | 1233, 1310 |
| AvaII | GGWCC | 2 cut(s) | 375, 724 |
| BalI | TGGCCA | 1 cut(s) | 2522 |
| BanI | GGYRCC | 1 cut(s) | 2200 |
| BanII | GRGCYC | 2 cut(s) | 539, 1240 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 2166, 2198 |
| BbsI | GAAGAC | 2 cut(s) | 901, 1021 |
| Bbv12I | GWGCWC | 3 cut(s) | 539, 1208, 1240 |
| BbvI | GCAGC | 9 cut(s) | 277, 790, 874, 1237, 1619, 1960, 2045, 2093, 2189 |
| BccI | CCATC | 3 cut(s) | 949, 1237, 1700 |
| BceAI | ACGGC | 1 cut(s) | 143 |
| BciT130I | CCWGG | 4 cut(s) | 1494, 2198, 2213, 2361 |
| BcnI | CCSGG | 1 cut(s) | 875 |
| BcoDI | GTCTC | 2 cut(s) | 15, 875 |
| BcuI | ACTAGT | 1 cut(s) | 190 |
| BfaI | CTAG | 2 cut(s) | 191, 438 |
| BfmI | CTRYAG | 3 cut(s) | 336, 1624, 2007 |
| BfuAI | ACCTGC | 1 cut(s) | 442 |
| Bme1390I | CCNGG | 5 cut(s) | 875, 1494, 2198, 2213, 2361 |
| Bme18I | GGWCC | 2 cut(s) | 375, 724 |
| BmeT110I | CYCGRG | 2 cut(s) | 1233, 1310 |
| BmgT120I | GGNCC | 3 cut(s) | 375, 724, 1931 |
| BmiI | GGNNCC | 5 cut(s) | 247, 632, 669, 1933, 2202 |
| BmrFI | CCNGG | 5 cut(s) | 875, 1494, 2198, 2213, 2361 |
| BmrI | ACTGGG | 1 cut(s) | 2246 |
| BmsI | GCATC | 9 cut(s) | 145, 520, 1114, 1313, 1382, 1543, 1663, 1978, 2038 |
| BmtI | GCTAGC | 1 cut(s) | 441 |
| BmuI | ACTGGG | 1 cut(s) | 2246 |
| BpiI | GAAGAC | 2 cut(s) | 901, 1021 |
| BpmI | CTGGAG | 1 cut(s) | 264 |
| BpuEI | CTTGAG | 2 cut(s) | 729, 772 |
| BpuMI | CCSGG | 1 cut(s) | 875 |
| BsaAI | YACGTR | 1 cut(s) | 1892 |
| BsaI | GGTCTC | 1 cut(s) | 15 |
| BsaJI | CCNNGG | 3 cut(s) | 295, 1863, 2513 |
| BsaXI | ACNNNNNCTCC | 4 cut(s) | 314, 344, 669, 699 |
| Bsc4I | CCNNNNNNNGG | 5 cut(s) | 242, 746, 747, 1017, 1499 |
| Bse118I | RCCGGY | 1 cut(s) | 358 |
| Bse1I | ACTGG | 6 cut(s) | 1064, 1224, 1504, 1524, 1817, 2241 |
| Bse3DI | GCAATG | 4 cut(s) | 572, 1376, 2322, 2350 |
| BseBI | CCWGG | 4 cut(s) | 1494, 2198, 2213, 2361 |
| BseDI | CCNNGG | 3 cut(s) | 295, 1863, 2513 |
| BseGI | GGATG | 4 cut(s) | 535, 1027, 1111, 1735 |
| BseLI | CCNNNNNNNGG | 5 cut(s) | 242, 746, 747, 1017, 1499 |
| BseMI | GCAATG | 4 cut(s) | 572, 1376, 2322, 2350 |
| BseMII | CTCAG | 4 cut(s) | 902, 1119, 1176, 1605 |
| BseNI | ACTGG | 6 cut(s) | 1064, 1224, 1504, 1524, 1817, 2241 |
| BseXI | GCAGC | 9 cut(s) | 277, 790, 874, 1237, 1619, 1960, 2045, 2093, 2189 |
| BsgI | GTGCAG | 2 cut(s) | 171, 2100 |
| Bsh1236I | CGCG | 2 cut(s) | 133, 427 |
| BshFI | GGCC | 4 cut(s) | 402, 1816, 1932, 2522 |
| BshNI | GGYRCC | 1 cut(s) | 2200 |
| BsiHKAI | GWGCWC | 3 cut(s) | 539, 1208, 1240 |
| BsiHKCI | CYCGRG | 2 cut(s) | 1233, 1310 |
| BsiSI | CCGG | 5 cut(s) | 203, 359, 368, 875, 1557 |
| BslFI | GGGAC | 2 cut(s) | 37, 146 |
| BslI | CCNNNNNNNGG | 5 cut(s) | 242, 746, 747, 1017, 1499 |
| BsmAI | GTCTC | 2 cut(s) | 15, 875 |
| BsmFI | GGGAC | 2 cut(s) | 37, 146 |
| BsmI | GAATGC | 2 cut(s) | 1427, 2408 |
| BsnI | GGCC | 4 cut(s) | 402, 1816, 1932, 2522 |
| Bso31I | GGTCTC | 1 cut(s) | 15 |
| BsoBI | CYCGRG | 2 cut(s) | 1233, 1310 |
| Bsp1286I | GDGCHC | 3 cut(s) | 539, 1208, 1240 |
| Bsp1407I | TGTACA | 1 cut(s) | 2336 |
| Bsp143I | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| Bsp19I | CCATGG | 1 cut(s) | 1863 |
| BspACI | CCGC | 9 cut(s) | 5, 104, 111, 136, 373, 690, 808, 1270, 2101 |
| BspANI | GGCC | 4 cut(s) | 402, 1816, 1932, 2522 |
| BspCNI | CTCAG | 4 cut(s) | 903, 1120, 1175, 1606 |
| BspFNI | CGCG | 2 cut(s) | 133, 427 |
| BspHI | TCATGA | 1 cut(s) | 1240 |
| BspLI | GGNNCC | 5 cut(s) | 247, 632, 669, 1933, 2202 |
| BspMI | ACCTGC | 1 cut(s) | 442 |
| BspOI | GCTAGC | 1 cut(s) | 441 |
| BspPI | GGATC | 6 cut(s) | 36, 51, 56, 120, 194, 1875 |
| BspT107I | GGYRCC | 1 cut(s) | 2200 |
| BspTNI | GGTCTC | 1 cut(s) | 15 |
| BsrBI | CCGCTC | 2 cut(s) | 106, 373 |
| BsrDI | GCAATG | 4 cut(s) | 572, 1376, 2322, 2350 |
| BsrFI | RCCGGY | 1 cut(s) | 358 |
| BsrGI | TGTACA | 1 cut(s) | 2336 |
| BsrI | ACTGG | 6 cut(s) | 1064, 1224, 1504, 1524, 1817, 2241 |
| BssAI | RCCGGY | 1 cut(s) | 358 |
| BssECI | CCNNGG | 3 cut(s) | 295, 1863, 2513 |
| BssMI | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| BssT1I | CCWWGG | 3 cut(s) | 295, 1863, 2513 |
| Bst2UI | CCWGG | 4 cut(s) | 1494, 2198, 2213, 2361 |
| Bst4CI | ACNGT | 7 cut(s) | 340, 839, 1067, 1487, 1577, 2132, 2323 |
| Bst6I | CTCTTC | 5 cut(s) | 218, 389, 440, 512, 1194 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 2443 |
| BstAUI | TGTACA | 1 cut(s) | 2336 |
| BstBAI | YACGTR | 1 cut(s) | 1892 |
| BstC8I | GCNNGC | 5 cut(s) | 439, 535, 808, 2075, 2079 |
| BstDEI | CTNAG | 7 cut(s) | 911, 1128, 1162, 1383, 1614, 1821, 1976 |
| BstDSI | CCRYGG | 1 cut(s) | 1863 |
| BstF5I | GGATG | 4 cut(s) | 535, 1027, 1111, 1735 |
| BstFNI | CGCG | 2 cut(s) | 133, 427 |
| BstHHI | GCGC | 1 cut(s) | 135 |
| BstKTI | GATC | 8 cut(s) | 44, 59, 64, 128, 202, 1768, 1870, 1962 |
| BstMAI | GTCTC | 2 cut(s) | 15, 875 |
| BstMBI | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| BstMWI | GCNNNNNNNGC | 6 cut(s) | 11, 364, 1693, 1822, 2057, 2443 |
| BstNI | CCWGG | 4 cut(s) | 1494, 2198, 2213, 2361 |
| BstNSI | RCATGY | 1 cut(s) | 1319 |
| BstSCI | CCNGG | 5 cut(s) | 873, 1492, 2196, 2211, 2359 |
| BstSFI | CTRYAG | 3 cut(s) | 336, 1624, 2007 |
| BstUI | CGCG | 2 cut(s) | 133, 427 |
| BstV1I | GCAGC | 9 cut(s) | 277, 790, 874, 1237, 1619, 1960, 2045, 2093, 2189 |
| BstV2I | GAAGAC | 2 cut(s) | 901, 1021 |
| BstX2I | RGATCY | 3 cut(s) | 41, 199, 1867 |
| BstYI | RGATCY | 3 cut(s) | 41, 199, 1867 |
| BsuRI | GGCC | 4 cut(s) | 402, 1816, 1932, 2522 |
| BtgI | CCRYGG | 1 cut(s) | 1863 |
| BtgZI | GCGATG | 2 cut(s) | 60, 627 |
| BtsCI | GGATG | 4 cut(s) | 535, 1027, 1111, 1735 |
| BtsIMutI | CAGTG | 3 cut(s) | 1057, 2137, 2489 |
| BveI | ACCTGC | 1 cut(s) | 442 |
| Cac8I | GCNNGC | 5 cut(s) | 439, 535, 808, 2075, 2079 |
| CaiI | CAGNNNCTG | 2 cut(s) | 1169, 1613 |
| CciI | TCATGA | 1 cut(s) | 1240 |
| CfoI | GCGC | 1 cut(s) | 135 |
| Cfr10I | RCCGGY | 1 cut(s) | 358 |
| Cfr13I | GGNCC | 3 cut(s) | 375, 724, 1931 |
| CpoI | CGGWCCG | 1 cut(s) | 375 |
| CseI | GACGC | 1 cut(s) | 1064 |
| Csp6I | GTAC | 3 cut(s) | 1063, 1517, 2337 |
| CspI | CGGWCCG | 1 cut(s) | 375 |
| CviAII | CATG | 6 cut(s) | 269, 404, 1241, 1316, 1864, 2366 |
| CviQI | GTAC | 3 cut(s) | 1063, 1517, 2337 |
| DdeI | CTNAG | 7 cut(s) | 911, 1128, 1162, 1383, 1614, 1821, 1976 |
| DpnI | GATC | 8 cut(s) | 43, 58, 63, 127, 201, 1767, 1869, 1961 |
| DpnII | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| EaeI | YGGCCR | 1 cut(s) | 2520 |
| Eam1104I | CTCTTC | 5 cut(s) | 218, 389, 440, 512, 1194 |
| EarI | CTCTTC | 5 cut(s) | 218, 389, 440, 512, 1194 |
| EciI | GGCGGA | 2 cut(s) | 20, 100 |
| Ecl136II | GAGCTC | 2 cut(s) | 537, 1238 |
| Eco130I | CCWWGG | 3 cut(s) | 295, 1863, 2513 |
| Eco24I | GRGCYC | 2 cut(s) | 539, 1240 |
| Eco31I | GGTCTC | 1 cut(s) | 15 |
| Eco47I | GGWCC | 2 cut(s) | 375, 724 |
| Eco53kI | GAGCTC | 2 cut(s) | 537, 1238 |
| Eco57I | CTGAAG | 3 cut(s) | 693, 1566, 2513 |
| Eco88I | CYCGRG | 2 cut(s) | 1233, 1310 |
| EcoICRI | GAGCTC | 2 cut(s) | 537, 1238 |
| EcoRII | CCWGG | 4 cut(s) | 1492, 2196, 2211, 2359 |
| EcoT14I | CCWWGG | 3 cut(s) | 295, 1863, 2513 |
| EcoT22I | ATGCAT | 1 cut(s) | 1993 |
| EcoT38I | GRGCYC | 2 cut(s) | 539, 1240 |
| ErhI | CCWWGG | 3 cut(s) | 295, 1863, 2513 |
| FaeI | CATG | 6 cut(s) | 272, 407, 1244, 1319, 1867, 2369 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 641, 673 |
| FaqI | GGGAC | 2 cut(s) | 37, 146 |
| FatI | CATG | 6 cut(s) | 268, 403, 1240, 1315, 1863, 2365 |
| FauI | CCCGC | 1 cut(s) | 815 |
| FokI | GGATG | 4 cut(s) | 542, 1034, 1118, 1742 |
| FriOI | GRGCYC | 2 cut(s) | 539, 1240 |
| FspBI | CTAG | 2 cut(s) | 191, 438 |
| GlaI | GCGC | 1 cut(s) | 134 |
| GsuI | CTGGAG | 1 cut(s) | 264 |
| HaeIII | GGCC | 4 cut(s) | 402, 1816, 1932, 2522 |
| HapII | CCGG | 5 cut(s) | 203, 359, 368, 875, 1557 |
| HgaI | GACGC | 1 cut(s) | 1064 |
| HhaI | GCGC | 1 cut(s) | 135 |
| Hin1II | CATG | 6 cut(s) | 272, 407, 1244, 1319, 1867, 2369 |
| Hin6I | GCGC | 1 cut(s) | 133 |
| HinP1I | GCGC | 1 cut(s) | 133 |
| HincII | GTYRAC | 2 cut(s) | 274, 835 |
| HindII | GTYRAC | 2 cut(s) | 274, 835 |
| HindIII | AAGCTT | 2 cut(s) | 779, 2393 |
| HinfI | GANTC | 6 cut(s) | 959, 1160, 1166, 1911, 1969, 2423 |
| HpaII | CCGG | 5 cut(s) | 203, 359, 368, 875, 1557 |
| HphI | GGTGA | 5 cut(s) | 497, 512, 2227, 2303, 2411 |
| Hpy166II | GTNNAC | 5 cut(s) | 274, 333, 835, 1517, 2337 |
| Hpy8I | GTNNAC | 5 cut(s) | 274, 333, 835, 1517, 2337 |
| Hpy99I | CGWCG | 4 cut(s) | 184, 545, 2058, 2477 |
| HpyAV | CCTTC | 8 cut(s) | 90, 406, 460, 586, 655, 668, 1010, 2488 |
| HpyCH4III | ACNGT | 7 cut(s) | 340, 839, 1067, 1487, 1577, 2132, 2323 |
| HpyCH4IV | ACGT | 3 cut(s) | 1150, 1468, 1891 |
| HpyF10VI | GCNNNNNNNGC | 6 cut(s) | 11, 364, 1693, 1822, 2057, 2443 |
| HpyF3I | CTNAG | 7 cut(s) | 911, 1128, 1162, 1383, 1614, 1821, 1976 |
| HpySE526I | ACGT | 3 cut(s) | 1150, 1468, 1891 |
| Hsp92II | CATG | 6 cut(s) | 272, 407, 1244, 1319, 1867, 2369 |
| HspAI | GCGC | 1 cut(s) | 133 |
| Kzo9I | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| LmnI | GCTCC | 5 cut(s) | 245, 370, 542, 562, 2429 |
| Lsp1109I | GCAGC | 9 cut(s) | 277, 790, 874, 1237, 1619, 1960, 2045, 2093, 2189 |
| LweI | GCATC | 9 cut(s) | 145, 520, 1114, 1313, 1382, 1543, 1663, 1978, 2038 |
| MaeI | CTAG | 2 cut(s) | 191, 438 |
| MaeII | ACGT | 3 cut(s) | 1150, 1468, 1891 |
| MaeIII | GTNAC | 3 cut(s) | 418, 1774, 2451 |
| MalI | GATC | 8 cut(s) | 43, 58, 63, 127, 201, 1767, 1869, 1961 |
| MbiI | CCGCTC | 2 cut(s) | 106, 373 |
| MboI | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| MflI | RGATCY | 3 cut(s) | 41, 199, 1867 |
| MhlI | GDGCHC | 3 cut(s) | 539, 1208, 1240 |
| MlsI | TGGCCA | 1 cut(s) | 2522 |
| MluI | ACGCGT | 1 cut(s) | 425 |
| MluNI | TGGCCA | 1 cut(s) | 2522 |
| MlyI | GAGTC | 2 cut(s) | 1154, 1978 |
| MmeI | TCCRAC | 3 cut(s) | 564, 1395, 1646 |
| Mox20I | TGGCCA | 1 cut(s) | 2522 |
| Mph1103I | ATGCAT | 1 cut(s) | 1993 |
| MroXI | GAANNNNTTC | 3 cut(s) | 552, 963, 2355 |
| MscI | TGGCCA | 1 cut(s) | 2522 |
| MseI | TTAA | 2 cut(s) | 1646, 2378 |
| MslI | CAYNNNNRTG | 2 cut(s) | 153, 953 |
| Msp20I | TGGCCA | 1 cut(s) | 2522 |
| MspA1I | CMGCKG | 1 cut(s) | 2084 |
| MspI | CCGG | 5 cut(s) | 203, 359, 368, 875, 1557 |
| MspR9I | CCNGG | 5 cut(s) | 875, 1494, 2198, 2213, 2361 |
| Mva1269I | GAATGC | 2 cut(s) | 1427, 2408 |
| MvaI | CCWGG | 4 cut(s) | 1494, 2198, 2213, 2361 |
| MvnI | CGCG | 2 cut(s) | 133, 427 |
| MwoI | GCNNNNNNNGC | 6 cut(s) | 11, 364, 1693, 1822, 2057, 2443 |
| NciI | CCSGG | 1 cut(s) | 875 |
| NcoI | CCATGG | 1 cut(s) | 1863 |
| NdeII | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| NheI | GCTAGC | 1 cut(s) | 437 |
| NlaIII | CATG | 6 cut(s) | 272, 407, 1244, 1319, 1867, 2369 |
| NlaIV | GGNNCC | 5 cut(s) | 247, 632, 669, 1933, 2202 |
| NmuCI | GTSAC | 1 cut(s) | 1774 |
| NsiI | ATGCAT | 1 cut(s) | 1993 |
| NspI | RCATGY | 1 cut(s) | 1319 |
| PaeR7I | CTCGAG | 1 cut(s) | 1233 |
| PagI | TCATGA | 1 cut(s) | 1240 |
| PaqCI | CACCTGC | 1 cut(s) | 442 |
| PctI | GAATGC | 2 cut(s) | 1427, 2408 |
| PdmI | GAANNNNTTC | 3 cut(s) | 552, 963, 2355 |
| PfeI | GAWTC | 4 cut(s) | 959, 1166, 1911, 2423 |
| PflFI | GACNNNGTC | 1 cut(s) | 269 |
| PfoI | TCCNGGA | 3 cut(s) | 873, 1492, 2359 |
| PleI | GAGTC | 2 cut(s) | 1154, 1977 |
| PpsI | GAGTC | 2 cut(s) | 1154, 1977 |
| Ppu21I | YACGTR | 1 cut(s) | 1892 |
| PsiI | TTATAA | 1 cut(s) | 2328 |
| Psp124BI | GAGCTC | 2 cut(s) | 539, 1240 |
| Psp6I | CCWGG | 4 cut(s) | 1492, 2196, 2211, 2359 |
| PspGI | CCWGG | 4 cut(s) | 1492, 2196, 2211, 2359 |
| PspN4I | GGNNCC | 5 cut(s) | 247, 632, 669, 1933, 2202 |
| PspPI | GGNCC | 3 cut(s) | 375, 724, 1931 |
| PstNI | CAGNNNCTG | 2 cut(s) | 1169, 1613 |
| PsuI | RGATCY | 3 cut(s) | 41, 199, 1867 |
| PsyI | GACNNNGTC | 1 cut(s) | 269 |
| PvuII | CAGCTG | 1 cut(s) | 2084 |
| RsaI | GTAC | 3 cut(s) | 1064, 1518, 2338 |
| RsaNI | GTAC | 3 cut(s) | 1063, 1517, 2337 |
| RseI | CAYNNNNRTG | 2 cut(s) | 153, 953 |
| Rsr2I | CGGWCCG | 1 cut(s) | 375 |
| RsrII | CGGWCCG | 1 cut(s) | 375 |
| SacI | GAGCTC | 2 cut(s) | 539, 1240 |
| SaqAI | TTAA | 2 cut(s) | 1646, 2378 |
| Sau3AI | GATC | 8 cut(s) | 41, 56, 61, 125, 199, 1765, 1867, 1959 |
| Sau96I | GGNCC | 3 cut(s) | 375, 724, 1931 |
| SchI | GAGTC | 2 cut(s) | 1154, 1978 |
| ScrFI | CCNGG | 5 cut(s) | 875, 1494, 2198, 2213, 2361 |
| SduI | GDGCHC | 3 cut(s) | 539, 1208, 1240 |
| SfaNI | GCATC | 9 cut(s) | 145, 520, 1114, 1313, 1382, 1543, 1663, 1978, 2038 |
| SfcI | CTRYAG | 3 cut(s) | 336, 1624, 2007 |
| Sfr274I | CTCGAG | 1 cut(s) | 1233 |
| SgrAI | CRCCGGYG | 1 cut(s) | 358 |
| SinI | GGWCC | 2 cut(s) | 375, 724 |
| SlaI | CTCGAG | 1 cut(s) | 1233 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 153, 953 |
| SmlI | CTYRAG | 3 cut(s) | 744, 787, 1233 |
| SmoI | CTYRAG | 3 cut(s) | 744, 787, 1233 |
| SpeI | ACTAGT | 1 cut(s) | 190 |
| SsiI | CCGC | 9 cut(s) | 5, 104, 111, 136, 373, 690, 808, 1270, 2101 |
| SspMI | CTAG | 2 cut(s) | 191, 438 |
| SstI | GAGCTC | 2 cut(s) | 539, 1240 |
| StyD4I | CCNGG | 5 cut(s) | 873, 1492, 2196, 2211, 2359 |
| StyI | CCWWGG | 3 cut(s) | 295, 1863, 2513 |
| TaaI | ACNGT | 7 cut(s) | 340, 839, 1067, 1487, 1577, 2132, 2323 |
| TaiI | ACGT | 3 cut(s) | 1153, 1471, 1894 |
| TaqI | TCGA | 9 cut(s) | 153, 195, 308, 706, 772, 1234, 1657, 1903, 1967 |
| TatI | WGTACW | 2 cut(s) | 1516, 2336 |
| TauI | GCSGC | 1 cut(s) | 138 |
| TfiI | GAWTC | 4 cut(s) | 959, 1166, 1911, 2423 |
| Tru1I | TTAA | 2 cut(s) | 1646, 2378 |
| Tru9I | TTAA | 2 cut(s) | 1646, 2378 |
| TscAI | CASTG | 3 cut(s) | 1064, 2137, 2496 |
| TseFI | GTSAC | 1 cut(s) | 1774 |
| Tsp45I | GTSAC | 1 cut(s) | 1774 |
| TspGWI | ACGGA | 1 cut(s) | 495 |
| TspRI | CASTG | 3 cut(s) | 1064, 2137, 2496 |
| Tth111I | GACNNNGTC | 1 cut(s) | 269 |
| VpaK11BI | GGWCC | 2 cut(s) | 375, 724 |
| XapI | RAATTY | 3 cut(s) | 1255, 1534, 1715 |
| XceI | RCATGY | 1 cut(s) | 1319 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 952 |
| XhoI | CTCGAG | 1 cut(s) | 1233 |
| XmnI | GAANNNNTTC | 3 cut(s) | 552, 963, 2355 |
| XspI | CTAG | 2 cut(s) | 191, 438 |
| Zsp2I | ATGCAT | 1 cut(s) | 1993 |