PHD zinc finger
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| Species | Orthologous Gene IDs |
|---|---|
| arabidopsis_thaliana | AT5G63900 |
| fragaria_vesca | FvH4_2g33101 FvH4_2g33110 |
| malus_domestica | MD03G1066400.v1.1 MD08G1084100.v1.1 MD15G1070200.v1.1 |
| prunus_persica | Prupe.1G423000_v2.0.a1 |
| pyrus_communis | pycom08g06970 |
| rosa_chinensis | RchiOBHm_Chr6g0309551 RchiOBHm_Chr6g0309571 |
| rosa_laevigata | RLG00000010552 RLG00000010554 |
| rosa_multiflora | Rmu_co8092108.1_g000001 Rmu_co8455997.1_g000001 Rmu_co8522085.1_g000002 Rmu_sc0007283.1_g000012 Rmu_sc0007283.1_g000014 Rmu_sc0024715.1_g000002 Rmu_sc0024715.1_g000003 Rmu_sc0030536.1_g000004 Rmu_sc0042371.1_g000001 |
| rosa_roxburghii | Rroxscaffold_7G00159310 |
| rosa_rugosa | Rorug06G0372800 Rorug06G0372900 |
| rosa_samantha | Rh6AG486200 Rh6AG486400 Rh6BG204300 Rh6BG495600 Rh6BG495800 Rh6CG500600 Rh6CG500700 Rh6DG486500 Rh6DG486600 |
| rosa_wichuraiana | Rw6G042350 Rw6G042360 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 1 cut(s) | 204 |
| Acc65I | GGTACC | 1 cut(s) | 1595 |
| AccB1I | GGYRCC | 1 cut(s) | 1595 |
| AccBSI | CCGCTC | 2 cut(s) | 1522, 1555 |
| AccI | GTMKAC | 2 cut(s) | 261, 1474 |
| AccII | CGCG | 3 cut(s) | 932, 1061, 1293 |
| AccIII | TCCGGA | 2 cut(s) | 424, 754 |
| AciI | CCGC | 6 cut(s) | 930, 1059, 1291, 1293, 1522, 1555 |
| AclWI | GGATC | 2 cut(s) | 922, 1369 |
| AcsI | RAATTY | 2 cut(s) | 4, 472 |
| AcuI | CTGAAG | 3 cut(s) | 686, 810, 1604 |
| AcvI | CACGTG | 1 cut(s) | 984 |
| AfaI | GTAC | 1 cut(s) | 1597 |
| AfiI | CCNNNNNNNGG | 3 cut(s) | 1142, 1252, 1384 |
| AflIII | ACRYGT | 1 cut(s) | 983 |
| AgsI | TTSAA | 1 cut(s) | 991 |
| AjnI | CCWGG | 1 cut(s) | 43 |
| AjuI | GAANNNNNNNTTGG | 2 cut(s) | 1214, 1246 |
| AleI | CACNNNNGTG | 1 cut(s) | 792 |
| AluBI | AGCT | 6 cut(s) | 37, 239, 422, 1133, 1177, 1564 |
| AluI | AGCT | 6 cut(s) | 37, 239, 422, 1133, 1177, 1564 |
| Alw21I | GWGCWC | 1 cut(s) | 1135 |
| Alw26I | GTCTC | 7 cut(s) | 130, 213, 581, 729, 1236, 1461, 1667 |
| AlwI | GGATC | 2 cut(s) | 922, 1369 |
| Ama87I | CYCGRG | 1 cut(s) | 866 |
| Aor13HI | TCCGGA | 2 cut(s) | 424, 754 |
| AoxI | GGCC | 2 cut(s) | 644, 1288 |
| ApeKI | GCWGC | 6 cut(s) | 196, 697, 897, 900, 1343, 1490 |
| ApoI | RAATTY | 2 cut(s) | 4, 472 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 1353, 1385 |
| Asp718I | GGTACC | 1 cut(s) | 1595 |
| AspA2I | CCTAGG | 1 cut(s) | 1075 |
| AspLEI | GCGC | 1 cut(s) | 1063 |
| AspS9I | GGNCC | 2 cut(s) | 553, 1288 |
| AsuHPI | GGTGA | 7 cut(s) | 142, 667, 827, 918, 1118, 1157, 1193 |
| AsuII | TTCGAA | 1 cut(s) | 356 |
| AvaI | CYCGRG | 1 cut(s) | 866 |
| AvaII | GGWCC | 1 cut(s) | 553 |
| AvrII | CCTAGG | 1 cut(s) | 1075 |
| BaeI | ACNNNNGTAYC | 2 cut(s) | 525, 558 |
| BanI | GGYRCC | 1 cut(s) | 1595 |
| BanII | GRGCYC | 1 cut(s) | 1135 |
| BbrPI | CACGTG | 1 cut(s) | 984 |
| BbsI | GAAGAC | 3 cut(s) | 854, 879, 1002 |
| Bbv12I | GWGCWC | 1 cut(s) | 1135 |
| BbvI | GCAGC | 6 cut(s) | 208, 709, 884, 887, 1355, 1477 |
| BceAI | ACGGC | 1 cut(s) | 552 |
| BciT130I | CCWGG | 1 cut(s) | 45 |
| BclI | TGATCA | 1 cut(s) | 456 |
| BcoDI | GTCTC | 7 cut(s) | 130, 213, 581, 729, 1236, 1461, 1667 |
| BfaI | CTAG | 5 cut(s) | 342, 858, 1076, 1178, 1398 |
| BfmI | CTRYAG | 3 cut(s) | 736, 1030, 1647 |
| BisI | GCNGC | 8 cut(s) | 197, 698, 898, 901, 1291, 1344, 1491, 1556 |
| BlnI | CCTAGG | 1 cut(s) | 1075 |
| BlsI | GCNGC | 8 cut(s) | 198, 699, 899, 902, 1292, 1345, 1492, 1557 |
| Bme1390I | CCNGG | 1 cut(s) | 45 |
| Bme18I | GGWCC | 1 cut(s) | 553 |
| BmeT110I | CYCGRG | 1 cut(s) | 866 |
| BmgT120I | GGNCC | 2 cut(s) | 553, 1288 |
| BmiI | GGNNCC | 4 cut(s) | 49, 554, 974, 1597 |
| BmrFI | CCNGG | 1 cut(s) | 45 |
| BmrI | ACTGGG | 1 cut(s) | 799 |
| BmuI | ACTGGG | 1 cut(s) | 799 |
| BpiI | GAAGAC | 3 cut(s) | 854, 879, 1002 |
| BpmI | CTGGAG | 2 cut(s) | 1302, 1580 |
| Bpu10I | CCTNAGC | 1 cut(s) | 240 |
| Bpu14I | TTCGAA | 1 cut(s) | 356 |
| BpuEI | CTTGAG | 1 cut(s) | 1085 |
| BsaAI | YACGTR | 1 cut(s) | 984 |
| BsaBI | GATNNNNATC | 3 cut(s) | 438, 461, 569 |
| BsaI | GGTCTC | 2 cut(s) | 581, 1236 |
| BsaJI | CCNNGG | 6 cut(s) | 213, 847, 867, 1075, 1204, 1291 |
| BsaWI | WCCGGW | 2 cut(s) | 424, 754 |
| Bsc4I | CCNNNNNNNGG | 3 cut(s) | 1142, 1252, 1384 |
| Bse118I | RCCGGY | 1 cut(s) | 1486 |
| Bse1I | ACTGG | 3 cut(s) | 794, 1285, 1482 |
| Bse8I | GATNNNNATC | 3 cut(s) | 438, 461, 569 |
| BseAI | TCCGGA | 2 cut(s) | 424, 754 |
| BseBI | CCWGG | 1 cut(s) | 45 |
| BseDI | CCNNGG | 6 cut(s) | 213, 847, 867, 1075, 1204, 1291 |
| BseGI | GGATG | 4 cut(s) | 412, 439, 1422, 1441 |
| BseJI | GATNNNNATC | 3 cut(s) | 438, 461, 569 |
| BseLI | CCNNNNNNNGG | 3 cut(s) | 1142, 1252, 1384 |
| BseMII | CTCAG | 3 cut(s) | 348, 1472, 1509 |
| BseNI | ACTGG | 3 cut(s) | 794, 1285, 1482 |
| BseXI | GCAGC | 6 cut(s) | 208, 709, 884, 887, 1355, 1477 |
| BsgI | GTGCAG | 1 cut(s) | 1441 |
| Bsh1236I | CGCG | 3 cut(s) | 932, 1061, 1293 |
| Bsh1285I | CGRYCG | 1 cut(s) | 113 |
| BshFI | GGCC | 2 cut(s) | 646, 1290 |
| BshNI | GGYRCC | 1 cut(s) | 1595 |
| BsiEI | CGRYCG | 1 cut(s) | 113 |
| BsiHKAI | GWGCWC | 1 cut(s) | 1135 |
| BsiHKCI | CYCGRG | 1 cut(s) | 866 |
| BsiSI | CCGG | 3 cut(s) | 425, 755, 1487 |
| BslFI | GGGAC | 1 cut(s) | 566 |
| BslI | CCNNNNNNNGG | 3 cut(s) | 1142, 1252, 1384 |
| BsmAI | GTCTC | 7 cut(s) | 130, 213, 581, 729, 1236, 1461, 1667 |
| BsmFI | GGGAC | 1 cut(s) | 566 |
| BsmI | GAATGC | 1 cut(s) | 1584 |
| BsnI | GGCC | 2 cut(s) | 646, 1290 |
| Bso31I | GGTCTC | 2 cut(s) | 581, 1236 |
| BsoBI | CYCGRG | 1 cut(s) | 866 |
| Bsp119I | TTCGAA | 1 cut(s) | 356 |
| Bsp1286I | GDGCHC | 1 cut(s) | 1135 |
| Bsp13I | TCCGGA | 2 cut(s) | 424, 754 |
| Bsp143I | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| BspACI | CCGC | 6 cut(s) | 930, 1059, 1291, 1293, 1522, 1555 |
| BspANI | GGCC | 2 cut(s) | 646, 1290 |
| BspCNI | CTCAG | 3 cut(s) | 347, 1471, 1510 |
| BspEI | TCCGGA | 2 cut(s) | 424, 754 |
| BspFNI | CGCG | 3 cut(s) | 932, 1061, 1293 |
| BspLI | GGNNCC | 4 cut(s) | 49, 554, 974, 1597 |
| BspMAI | CTGCAG | 1 cut(s) | 1651 |
| BspPI | GGATC | 2 cut(s) | 922, 1369 |
| BspT104I | TTCGAA | 1 cut(s) | 356 |
| BspT107I | GGYRCC | 1 cut(s) | 1595 |
| BspTNI | GGTCTC | 2 cut(s) | 581, 1236 |
| BsrBI | CCGCTC | 2 cut(s) | 1522, 1555 |
| BsrFI | RCCGGY | 1 cut(s) | 1486 |
| BsrI | ACTGG | 3 cut(s) | 794, 1285, 1482 |
| BssAI | RCCGGY | 1 cut(s) | 1486 |
| BssECI | CCNNGG | 6 cut(s) | 213, 847, 867, 1075, 1204, 1291 |
| BssMI | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| BssT1I | CCWWGG | 3 cut(s) | 213, 1075, 1204 |
| Bst2UI | CCWGG | 1 cut(s) | 45 |
| Bst4CI | ACNGT | 6 cut(s) | 73, 767, 1106, 1306, 1339, 1547 |
| Bst6I | CTCTTC | 5 cut(s) | 51, 128, 605, 627, 1647 |
| BstBAI | YACGTR | 1 cut(s) | 984 |
| BstBI | TTCGAA | 1 cut(s) | 356 |
| BstC8I | GCNNGC | 1 cut(s) | 844 |
| BstDEI | CTNAG | 6 cut(s) | 38, 240, 334, 728, 1458, 1518 |
| BstDSI | CCRYGG | 1 cut(s) | 1291 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 1250 |
| BstF5I | GGATG | 4 cut(s) | 412, 439, 1422, 1441 |
| BstFNI | CGCG | 3 cut(s) | 932, 1061, 1293 |
| BstHHI | GCGC | 1 cut(s) | 1063 |
| BstKTI | GATC | 6 cut(s) | 113, 459, 567, 917, 1314, 1377 |
| BstMAI | GTCTC | 7 cut(s) | 130, 213, 581, 729, 1236, 1461, 1667 |
| BstMBI | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| BstMCI | CGRYCG | 1 cut(s) | 113 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 321, 1561 |
| BstNI | CCWGG | 1 cut(s) | 45 |
| BstSCI | CCNGG | 1 cut(s) | 43 |
| BstSFI | CTRYAG | 3 cut(s) | 736, 1030, 1647 |
| BstUI | CGCG | 3 cut(s) | 932, 1061, 1293 |
| BstV1I | GCAGC | 6 cut(s) | 208, 709, 884, 887, 1355, 1477 |
| BstV2I | GAAGAC | 3 cut(s) | 854, 879, 1002 |
| BstX2I | RGATCY | 1 cut(s) | 1374 |
| BstYI | RGATCY | 1 cut(s) | 1374 |
| BsuRI | GGCC | 2 cut(s) | 646, 1290 |
| BtgI | CCRYGG | 1 cut(s) | 1291 |
| BtsCI | GGATG | 4 cut(s) | 412, 439, 1422, 1441 |
| BtsI | GCAGTG | 2 cut(s) | 965, 1353 |
| BtsIMutI | CAGTG | 3 cut(s) | 787, 965, 1353 |
| Cac8I | GCNNGC | 1 cut(s) | 844 |
| CfoI | GCGC | 1 cut(s) | 1063 |
| Cfr10I | RCCGGY | 1 cut(s) | 1486 |
| Cfr13I | GGNCC | 2 cut(s) | 553, 1288 |
| Cfr42I | CCGCGG | 1 cut(s) | 1294 |
| Csp6I | GTAC | 1 cut(s) | 1596 |
| CviAII | CATG | 7 cut(s) | 80, 596, 713, 760, 839, 1574, 1603 |
| CviQI | GTAC | 1 cut(s) | 1596 |
| DdeI | CTNAG | 6 cut(s) | 38, 240, 334, 728, 1458, 1518 |
| DpnI | GATC | 6 cut(s) | 112, 458, 566, 916, 1313, 1376 |
| DpnII | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| Eam1104I | CTCTTC | 5 cut(s) | 51, 128, 605, 627, 1647 |
| EarI | CTCTTC | 5 cut(s) | 51, 128, 605, 627, 1647 |
| Ecl136II | GAGCTC | 1 cut(s) | 1133 |
| Eco130I | CCWWGG | 3 cut(s) | 213, 1075, 1204 |
| Eco24I | GRGCYC | 1 cut(s) | 1135 |
| Eco31I | GGTCTC | 2 cut(s) | 581, 1236 |
| Eco32I | GATATC | 1 cut(s) | 907 |
| Eco47I | GGWCC | 1 cut(s) | 553 |
| Eco53kI | GAGCTC | 1 cut(s) | 1133 |
| Eco57I | CTGAAG | 3 cut(s) | 686, 810, 1604 |
| Eco72I | CACGTG | 1 cut(s) | 984 |
| Eco88I | CYCGRG | 1 cut(s) | 866 |
| EcoICRI | GAGCTC | 1 cut(s) | 1133 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 1250 |
| EcoRI | GAATTC | 1 cut(s) | 4 |
| EcoRII | CCWGG | 1 cut(s) | 43 |
| EcoRV | GATATC | 1 cut(s) | 907 |
| EcoT14I | CCWWGG | 3 cut(s) | 213, 1075, 1204 |
| EcoT38I | GRGCYC | 1 cut(s) | 1135 |
| ErhI | CCWWGG | 3 cut(s) | 213, 1075, 1204 |
| FaeI | CATG | 7 cut(s) | 83, 599, 716, 763, 842, 1577, 1606 |
| FalI | AAGNNNNNCTT | 2 cut(s) | 48, 80 |
| FaqI | GGGAC | 1 cut(s) | 566 |
| FatI | CATG | 7 cut(s) | 79, 595, 712, 759, 838, 1573, 1602 |
| FauI | CCCGC | 2 cut(s) | 937, 1286 |
| FbaI | TGATCA | 1 cut(s) | 456 |
| FblI | GTMKAC | 2 cut(s) | 261, 1474 |
| Fnu4HI | GCNGC | 8 cut(s) | 197, 698, 898, 901, 1291, 1344, 1491, 1556 |
| FokI | GGATG | 4 cut(s) | 419, 426, 1429, 1448 |
| FriOI | GRGCYC | 1 cut(s) | 1135 |
| Fsp4HI | GCNGC | 8 cut(s) | 197, 698, 898, 901, 1291, 1344, 1491, 1556 |
| FspBI | CTAG | 5 cut(s) | 342, 858, 1076, 1178, 1398 |
| GlaI | GCGC | 1 cut(s) | 1062 |
| GluI | GCNGC | 8 cut(s) | 197, 698, 898, 901, 1291, 1344, 1491, 1556 |
| GsuI | CTGGAG | 2 cut(s) | 1302, 1580 |
| HaeIII | GGCC | 2 cut(s) | 646, 1290 |
| HapII | CCGG | 3 cut(s) | 425, 755, 1487 |
| HhaI | GCGC | 1 cut(s) | 1063 |
| Hin1II | CATG | 7 cut(s) | 83, 599, 716, 763, 842, 1577, 1606 |
| Hin6I | GCGC | 1 cut(s) | 1061 |
| HinP1I | GCGC | 1 cut(s) | 1061 |
| HincII | GTYRAC | 2 cut(s) | 262, 1357 |
| HindII | GTYRAC | 2 cut(s) | 262, 1357 |
| HpaII | CCGG | 3 cut(s) | 425, 755, 1487 |
| HphI | GGTGA | 7 cut(s) | 142, 667, 827, 918, 1118, 1157, 1193 |
| Hpy166II | GTNNAC | 4 cut(s) | 262, 1148, 1357, 1475 |
| Hpy188III | TCNNGA | 8 cut(s) | 425, 755, 866, 1117, 1192, 1309, 1315, 1372 |
| Hpy8I | GTNNAC | 4 cut(s) | 262, 1148, 1357, 1475 |
| Hpy99I | CGWCG | 3 cut(s) | 73, 111, 1106 |
| HpyAV | CCTTC | 7 cut(s) | 326, 609, 664, 834, 963, 1136, 1618 |
| HpyCH4III | ACNGT | 6 cut(s) | 73, 767, 1106, 1306, 1339, 1547 |
| HpyCH4IV | ACGT | 1 cut(s) | 983 |
| HpyCH4V | TGCA | 6 cut(s) | 1005, 1044, 1091, 1422, 1493, 1649 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 321, 1561 |
| HpyF3I | CTNAG | 6 cut(s) | 38, 240, 334, 728, 1458, 1518 |
| HpySE526I | ACGT | 1 cut(s) | 983 |
| Hsp92II | CATG | 7 cut(s) | 83, 599, 716, 763, 842, 1577, 1606 |
| HspAI | GCGC | 1 cut(s) | 1061 |
| Kpn2I | TCCGGA | 2 cut(s) | 424, 754 |
| KpnI | GGTACC | 1 cut(s) | 1599 |
| Ksp22I | TGATCA | 1 cut(s) | 456 |
| KspI | CCGCGG | 1 cut(s) | 1294 |
| Kzo9I | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| LmnI | GCTCC | 5 cut(s) | 47, 427, 1138, 1552, 1561 |
| Lsp1109I | GCAGC | 6 cut(s) | 208, 709, 884, 887, 1355, 1477 |
| MaeI | CTAG | 5 cut(s) | 342, 858, 1076, 1178, 1398 |
| MaeII | ACGT | 1 cut(s) | 983 |
| MaeIII | GTNAC | 3 cut(s) | 785, 1400, 1504 |
| MalI | GATC | 6 cut(s) | 112, 458, 566, 916, 1313, 1376 |
| MbiI | CCGCTC | 2 cut(s) | 1522, 1555 |
| MboI | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| MflI | RGATCY | 1 cut(s) | 1374 |
| MhlI | GDGCHC | 1 cut(s) | 1135 |
| MluCI | AATT | 4 cut(s) | 4, 288, 472, 1086 |
| MlyI | GAGTC | 6 cut(s) | 263, 347, 731, 992, 1059, 1664 |
| MmeI | TCCRAC | 1 cut(s) | 1422 |
| MroI | TCCGGA | 2 cut(s) | 424, 754 |
| MseI | TTAA | 1 cut(s) | 546 |
| MslI | CAYNNNNRTG | 3 cut(s) | 128, 792, 1155 |
| MspA1I | CMGCKG | 1 cut(s) | 1293 |
| MspI | CCGG | 3 cut(s) | 425, 755, 1487 |
| MspR9I | CCNGG | 1 cut(s) | 45 |
| Mva1269I | GAATGC | 1 cut(s) | 1584 |
| MvaI | CCWGG | 1 cut(s) | 45 |
| MvnI | CGCG | 3 cut(s) | 932, 1061, 1293 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 321, 1561 |
| NdeII | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| NlaIII | CATG | 7 cut(s) | 83, 599, 716, 763, 842, 1577, 1606 |
| NlaIV | GGNNCC | 4 cut(s) | 49, 554, 974, 1597 |
| NmeAIII | GCCGAG | 1 cut(s) | 125 |
| NmuCI | GTSAC | 2 cut(s) | 785, 1504 |
| NspV | TTCGAA | 1 cut(s) | 356 |
| OliI | CACNNNNGTG | 1 cut(s) | 792 |
| PctI | GAATGC | 1 cut(s) | 1584 |
| PfeI | GAWTC | 7 cut(s) | 358, 570, 732, 923, 1069, 1181, 1643 |
| PflFI | GACNNNGTC | 1 cut(s) | 1393 |
| PfoI | TCCNGGA | 1 cut(s) | 43 |
| PkrI | GCNGC | 8 cut(s) | 198, 699, 899, 902, 1292, 1345, 1492, 1557 |
| Ple19I | CGATCG | 1 cut(s) | 113 |
| PleI | GAGTC | 6 cut(s) | 263, 346, 730, 992, 1058, 1663 |
| PmaCI | CACGTG | 1 cut(s) | 984 |
| PmlI | CACGTG | 1 cut(s) | 984 |
| PpsI | GAGTC | 6 cut(s) | 263, 346, 730, 992, 1058, 1663 |
| Ppu21I | YACGTR | 1 cut(s) | 984 |
| PsiI | TTATAA | 1 cut(s) | 204 |
| Psp124BI | GAGCTC | 1 cut(s) | 1135 |
| Psp6I | CCWGG | 1 cut(s) | 43 |
| PspCI | CACGTG | 1 cut(s) | 984 |
| PspGI | CCWGG | 1 cut(s) | 43 |
| PspN4I | GGNNCC | 4 cut(s) | 49, 554, 974, 1597 |
| PspPI | GGNCC | 2 cut(s) | 553, 1288 |
| PstI | CTGCAG | 1 cut(s) | 1651 |
| PsuI | RGATCY | 1 cut(s) | 1374 |
| PsyI | GACNNNGTC | 1 cut(s) | 1393 |
| PvuI | CGATCG | 1 cut(s) | 113 |
| RsaI | GTAC | 1 cut(s) | 1597 |
| RsaNI | GTAC | 1 cut(s) | 1596 |
| RseI | CAYNNNNRTG | 3 cut(s) | 128, 792, 1155 |
| SacI | GAGCTC | 1 cut(s) | 1135 |
| SacII | CCGCGG | 1 cut(s) | 1294 |
| SalI | GTCGAC | 1 cut(s) | 260 |
| SaqAI | TTAA | 1 cut(s) | 546 |
| SatI | GCNGC | 8 cut(s) | 197, 698, 898, 901, 1291, 1344, 1491, 1556 |
| Sau3AI | GATC | 6 cut(s) | 110, 456, 564, 914, 1311, 1374 |
| Sau96I | GGNCC | 2 cut(s) | 553, 1288 |
| SchI | GAGTC | 6 cut(s) | 263, 347, 731, 992, 1059, 1664 |
| ScrFI | CCNGG | 1 cut(s) | 45 |
| SduI | GDGCHC | 1 cut(s) | 1135 |
| SfcI | CTRYAG | 3 cut(s) | 736, 1030, 1647 |
| Sfr303I | CCGCGG | 1 cut(s) | 1294 |
| SfuI | TTCGAA | 1 cut(s) | 356 |
| SgrBI | CCGCGG | 1 cut(s) | 1294 |
| SinI | GGWCC | 1 cut(s) | 553 |
| SmiMI | CAYNNNNRTG | 3 cut(s) | 128, 792, 1155 |
| SmlI | CTYRAG | 1 cut(s) | 1064 |
| SmoI | CTYRAG | 1 cut(s) | 1064 |
| Sse9I | AATT | 4 cut(s) | 4, 288, 472, 1086 |
| SsiI | CCGC | 6 cut(s) | 930, 1059, 1291, 1293, 1522, 1555 |
| SspI | AATATT | 1 cut(s) | 328 |
| SspMI | CTAG | 5 cut(s) | 342, 858, 1076, 1178, 1398 |
| SstI | GAGCTC | 1 cut(s) | 1135 |
| StyD4I | CCNGG | 1 cut(s) | 43 |
| StyI | CCWWGG | 3 cut(s) | 213, 1075, 1204 |
| TaaI | ACNGT | 6 cut(s) | 73, 767, 1106, 1306, 1339, 1547 |
| TaiI | ACGT | 1 cut(s) | 986 |
| TaqI | TCGA | 9 cut(s) | 54, 68, 261, 356, 396, 1013, 1191, 1314, 1371 |
| TaqII | GACCGA | 1 cut(s) | 563 |
| TasI | AATT | 4 cut(s) | 4, 288, 472, 1086 |
| TauI | GCSGC | 2 cut(s) | 1293, 1558 |
| TfiI | GAWTC | 7 cut(s) | 358, 570, 732, 923, 1069, 1181, 1643 |
| Tru1I | TTAA | 1 cut(s) | 546 |
| Tru9I | TTAA | 1 cut(s) | 546 |
| TscAI | CASTG | 3 cut(s) | 794, 965, 1353 |
| TseFI | GTSAC | 2 cut(s) | 785, 1504 |
| TseI | GCWGC | 6 cut(s) | 196, 697, 897, 900, 1343, 1490 |
| Tsp45I | GTSAC | 2 cut(s) | 785, 1504 |
| TspDTI | ATGAA | 6 cut(s) | 17, 530, 729, 776, 1176, 1556 |
| TspGWI | ACGGA | 3 cut(s) | 107, 114, 432 |
| TspRI | CASTG | 3 cut(s) | 794, 965, 1353 |
| Tth111I | GACNNNGTC | 1 cut(s) | 1393 |
| VpaK11BI | GGWCC | 1 cut(s) | 553 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 1250 |
| XapI | RAATTY | 2 cut(s) | 4, 472 |
| XmaJI | CCTAGG | 1 cut(s) | 1075 |
| XmiI | GTMKAC | 2 cut(s) | 261, 1474 |
| XspI | CTAG | 5 cut(s) | 342, 858, 1076, 1178, 1398 |