Structure-specific nuclease with 5'-flap endonuclease and 5'-3' exonuclease activities involved in DNA replication and repair. During DNA replication, cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. It enters the flap from the 5'-end and then tracks to cleave the flap base, leaving a nick for ligation. Also involved in the long patch base excision repair (LP-BER) pathway, by cleaving within the apurinic apyrimidinic (AP) site-terminated flap. Acts as a genome stabilization factor that prevents flaps from equilibrating into structurs that lead to duplications and deletions. Also possesses 5'-3' exonuclease activity on nicked or gapped double- stranded DNA, and exhibits RNase H activity. Also involved in replication and repair of rDNA and in repairing mitochondrial DNA
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| Species | Orthologous Gene IDs |
|---|---|
| arabidopsis_thaliana | AT5G26680 AT5G26680 AT5G26680 AT5G26680 AT5G26680 |
| fragaria_vesca | FvH4_6g08670 FvH4_6g08670 FvH4_6g08670 |
| malus_domestica | MD04G1184400.v1.1 |
| prunus_persica | Prupe.6G302900_v2.0.a1 Prupe.6G302900_v2.0.a1 Prupe.6G302900_v2.0.a1 Prupe.6G302900_v2.0.a1 Prupe.6G302900_v2.0.a1 Prupe.6G302900_v2.0.a1 |
| pyrus_communis | pycom04g16340 |
| rosa_chinensis | RchiOBHm_Chr3g0458811 |
| rosa_laevigata | RLG00000025134 |
| rosa_multiflora | Rmu_sc0001634.1_g000030 Rmu_sc0016560.1_g000001 Rmu_sc0022983.1_g000002 |
| rosa_roxburghii | Rroxscaffold_6G00420780 |
| rosa_rugosa | Rorug03G0031900 Rorug03G0032000 |
| rosa_samantha | Rh3AG089600 Rh3BG092500 Rh3CG092800 Rh3DG093500 |
| rosa_wichuraiana | Rw3G007670 |
| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AarI | CACCTGC | 1 cut(s) | 84 |
| Acc36I | ACCTGC | 1 cut(s) | 84 |
| Acc65I | GGTACC | 1 cut(s) | 1023 |
| AccB1I | GGYRCC | 2 cut(s) | 670, 1023 |
| AccI | GTMKAC | 1 cut(s) | 997 |
| AccIII | TCCGGA | 1 cut(s) | 911 |
| AciI | CCGC | 5 cut(s) | 128, 251, 560, 1266, 1353 |
| AclWI | GGATC | 3 cut(s) | 803, 816, 891 |
| AcoI | YGGCCR | 1 cut(s) | 301 |
| AcsI | RAATTY | 2 cut(s) | 284, 839 |
| AcuI | CTGAAG | 1 cut(s) | 774 |
| AdeI | CACNNNGTG | 1 cut(s) | 710 |
| AfaI | GTAC | 3 cut(s) | 599, 1025, 1281 |
| AfiI | CCNNNNNNNGG | 1 cut(s) | 835 |
| AgsI | TTSAA | 4 cut(s) | 499, 964, 1247, 1258 |
| AhlI | ACTAGT | 1 cut(s) | 404 |
| Alw21I | GWGCWC | 1 cut(s) | 60 |
| Alw26I | GTCTC | 2 cut(s) | 95, 1057 |
| Alw44I | GTGCAC | 1 cut(s) | 56 |
| AlwI | GGATC | 3 cut(s) | 803, 816, 891 |
| AlwNI | CAGNNNCTG | 1 cut(s) | 563 |
| Ama87I | CYCGRG | 1 cut(s) | 1001 |
| Aor13HI | TCCGGA | 1 cut(s) | 911 |
| AoxI | GGCC | 5 cut(s) | 108, 267, 301, 747, 1043 |
| ApaLI | GTGCAC | 1 cut(s) | 56 |
| ApeKI | GCWGC | 4 cut(s) | 244, 557, 628, 1214 |
| ApoI | RAATTY | 2 cut(s) | 284, 839 |
| ArsI | GACNNNNNNTTYG | 2 cut(s) | 1135, 1167 |
| Asp718I | GGTACC | 1 cut(s) | 1023 |
| AspLEI | GCGC | 1 cut(s) | 784 |
| AspS9I | GGNCC | 1 cut(s) | 1044 |
| AsuHPI | GGTGA | 3 cut(s) | 407, 631, 1168 |
| AvaI | CYCGRG | 1 cut(s) | 1001 |
| BaeGI | GKGCMC | 1 cut(s) | 60 |
| BamHI | GGATCC | 1 cut(s) | 808 |
| BanI | GGYRCC | 2 cut(s) | 670, 1023 |
| BanII | GRGCYC | 1 cut(s) | 87 |
| BauI | CACGAG | 1 cut(s) | 80 |
| BbsI | GAAGAC | 3 cut(s) | 591, 762, 1246 |
| Bbv12I | GWGCWC | 1 cut(s) | 60 |
| BbvI | GCAGC | 4 cut(s) | 231, 569, 640, 1226 |
| BccI | CCATC | 5 cut(s) | 323, 473, 566, 799, 1282 |
| BceAI | ACGGC | 1 cut(s) | 1329 |
| BcoDI | GTCTC | 2 cut(s) | 95, 1057 |
| BcuI | ACTAGT | 1 cut(s) | 404 |
| BfaI | CTAG | 2 cut(s) | 405, 813 |
| BfmI | CTRYAG | 1 cut(s) | 675 |
| BfoI | RGCGCY | 1 cut(s) | 785 |
| BfuAI | ACCTGC | 1 cut(s) | 84 |
| BglI | GCCNNNNNGGC | 1 cut(s) | 266 |
| BisI | GCNGC | 5 cut(s) | 245, 558, 561, 629, 1215 |
| BlsI | GCNGC | 5 cut(s) | 246, 559, 562, 630, 1216 |
| BmeT110I | CYCGRG | 1 cut(s) | 1001 |
| BmgT120I | GGNCC | 1 cut(s) | 1044 |
| BmiI | GGNNCC | 6 cut(s) | 672, 687, 810, 985, 1025, 1077 |
| BmrI | ACTGGG | 1 cut(s) | 375 |
| BmsI | GCATC | 3 cut(s) | 310, 366, 529 |
| BmuI | ACTGGG | 1 cut(s) | 375 |
| BpiI | GAAGAC | 3 cut(s) | 591, 762, 1246 |
| BplI | GAGNNNNNCTC | 2 cut(s) | 674, 706 |
| BpmI | CTGGAG | 3 cut(s) | 137, 474, 1110 |
| Bpu10I | CCTNAGC | 1 cut(s) | 852 |
| BpuEI | CTTGAG | 1 cut(s) | 802 |
| Bsa29I | ATCGAT | 1 cut(s) | 318 |
| BsaBI | GATNNNNATC | 1 cut(s) | 314 |
| BsaWI | WCCGGW | 2 cut(s) | 52, 911 |
| Bsc4I | CCNNNNNNNGG | 1 cut(s) | 835 |
| Bse1I | ACTGG | 4 cut(s) | 65, 340, 370, 1079 |
| Bse3DI | GCAATG | 1 cut(s) | 225 |
| Bse8I | GATNNNNATC | 1 cut(s) | 314 |
| BseAI | TCCGGA | 1 cut(s) | 911 |
| BseCI | ATCGAT | 1 cut(s) | 318 |
| BseGI | GGATG | 4 cut(s) | 141, 577, 920, 969 |
| BseJI | GATNNNNATC | 1 cut(s) | 314 |
| BseLI | CCNNNNNNNGG | 1 cut(s) | 835 |
| BseMI | GCAATG | 1 cut(s) | 225 |
| BseMII | CTCAG | 3 cut(s) | 26, 363, 705 |
| BseNI | ACTGG | 4 cut(s) | 65, 340, 370, 1079 |
| BseRI | GAGGAG | 3 cut(s) | 194, 878, 1052 |
| BseSI | GKGCMC | 1 cut(s) | 60 |
| BseX3I | CGGCCG | 1 cut(s) | 301 |
| BseXI | GCAGC | 4 cut(s) | 231, 569, 640, 1226 |
| BsgI | GTGCAG | 1 cut(s) | 62 |
| Bsh1285I | CGRYCG | 2 cut(s) | 304, 1266 |
| BshFI | GGCC | 5 cut(s) | 110, 269, 303, 749, 1045 |
| BshNI | GGYRCC | 2 cut(s) | 670, 1023 |
| BshVI | ATCGAT | 1 cut(s) | 318 |
| BsiEI | CGRYCG | 2 cut(s) | 304, 1266 |
| BsiHKAI | GWGCWC | 1 cut(s) | 60 |
| BsiHKCI | CYCGRG | 1 cut(s) | 1001 |
| BsiSI | CCGG | 2 cut(s) | 53, 912 |
| BslFI | GGGAC | 1 cut(s) | 382 |
| BslI | CCNNNNNNNGG | 1 cut(s) | 835 |
| BsmAI | GTCTC | 2 cut(s) | 95, 1057 |
| BsmFI | GGGAC | 1 cut(s) | 382 |
| BsmI | GAATGC | 2 cut(s) | 903, 933 |
| BsnI | GGCC | 5 cut(s) | 110, 269, 303, 749, 1045 |
| BsoBI | CYCGRG | 1 cut(s) | 1001 |
| Bsp1286I | GDGCHC | 2 cut(s) | 60, 87 |
| Bsp13I | TCCGGA | 1 cut(s) | 911 |
| Bsp143I | GATC | 4 cut(s) | 28, 309, 808, 883 |
| BspACI | CCGC | 5 cut(s) | 128, 251, 560, 1266, 1353 |
| BspANI | GGCC | 5 cut(s) | 110, 269, 303, 749, 1045 |
| BspCNI | CTCAG | 3 cut(s) | 27, 364, 704 |
| BspDI | ATCGAT | 1 cut(s) | 318 |
| BspEI | TCCGGA | 1 cut(s) | 911 |
| BspLI | GGNNCC | 6 cut(s) | 672, 687, 810, 985, 1025, 1077 |
| BspMI | ACCTGC | 1 cut(s) | 84 |
| BspPI | GGATC | 3 cut(s) | 803, 816, 891 |
| BspT107I | GGYRCC | 2 cut(s) | 670, 1023 |
| BsrDI | GCAATG | 1 cut(s) | 225 |
| BsrI | ACTGG | 4 cut(s) | 65, 340, 370, 1079 |
| BssMI | GATC | 4 cut(s) | 28, 309, 808, 883 |
| BssNAI | GTATAC | 1 cut(s) | 998 |
| BssSI | CACGAG | 1 cut(s) | 80 |
| Bst1107I | GTATAC | 1 cut(s) | 998 |
| Bst2BI | CACGAG | 1 cut(s) | 80 |
| Bst4CI | ACNGT | 3 cut(s) | 602, 613, 708 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 710 |
| BstC8I | GCNNGC | 3 cut(s) | 249, 325, 513 |
| BstDEI | CTNAG | 6 cut(s) | 35, 372, 656, 691, 786, 852 |
| BstF5I | GGATG | 4 cut(s) | 141, 577, 920, 969 |
| BstH2I | RGCGCY | 1 cut(s) | 785 |
| BstHHI | GCGC | 1 cut(s) | 784 |
| BstKTI | GATC | 4 cut(s) | 31, 312, 811, 886 |
| BstMAI | GTCTC | 2 cut(s) | 95, 1057 |
| BstMBI | GATC | 4 cut(s) | 28, 309, 808, 883 |
| BstMCI | CGRYCG | 2 cut(s) | 304, 1266 |
| BstMWI | GCNNNNNNNGC | 7 cut(s) | 10, 257, 266, 300, 320, 517, 710 |
| BstNSI | RCATGY | 1 cut(s) | 424 |
| BstSFI | CTRYAG | 1 cut(s) | 675 |
| BstSLI | GKGCMC | 1 cut(s) | 60 |
| BstV1I | GCAGC | 4 cut(s) | 231, 569, 640, 1226 |
| BstV2I | GAAGAC | 3 cut(s) | 591, 762, 1246 |
| BstX2I | RGATCY | 1 cut(s) | 808 |
| BstXI | CCANNNNNNTGG | 1 cut(s) | 1041 |
| BstYI | RGATCY | 1 cut(s) | 808 |
| BstZ17I | GTATAC | 1 cut(s) | 998 |
| BstZI | CGGCCG | 1 cut(s) | 301 |
| Bsu15I | ATCGAT | 1 cut(s) | 318 |
| BsuRI | GGCC | 5 cut(s) | 110, 269, 303, 749, 1045 |
| BsuTUI | ATCGAT | 1 cut(s) | 318 |
| BtgZI | GCGATG | 1 cut(s) | 1215 |
| BtsCI | GGATG | 4 cut(s) | 141, 577, 920, 969 |
| BtsIMutI | CAGTG | 3 cut(s) | 58, 543, 713 |
| BveI | ACCTGC | 1 cut(s) | 84 |
| Cac8I | GCNNGC | 3 cut(s) | 249, 325, 513 |
| CaiI | CAGNNNCTG | 1 cut(s) | 563 |
| CfoI | GCGC | 1 cut(s) | 784 |
| Cfr13I | GGNCC | 1 cut(s) | 1044 |
| ClaI | ATCGAT | 1 cut(s) | 318 |
| Csp6I | GTAC | 3 cut(s) | 598, 1024, 1280 |
| CviAII | CATG | 7 cut(s) | 271, 328, 421, 664, 760, 835, 980 |
| CviQI | GTAC | 3 cut(s) | 598, 1024, 1280 |
| DdeI | CTNAG | 6 cut(s) | 35, 372, 656, 691, 786, 852 |
| DpnI | GATC | 4 cut(s) | 30, 311, 810, 885 |
| DpnII | GATC | 4 cut(s) | 28, 309, 808, 883 |
| DraIII | CACNNNGTG | 1 cut(s) | 710 |
| EaeI | YGGCCR | 1 cut(s) | 301 |
| EagI | CGGCCG | 1 cut(s) | 301 |
| EciI | GGCGGA | 1 cut(s) | 266 |
| EclXI | CGGCCG | 1 cut(s) | 301 |
| Eco24I | GRGCYC | 1 cut(s) | 87 |
| Eco52I | CGGCCG | 1 cut(s) | 301 |
| Eco57I | CTGAAG | 1 cut(s) | 774 |
| Eco88I | CYCGRG | 1 cut(s) | 1001 |
| EcoRI | GAATTC | 1 cut(s) | 839 |
| EcoT38I | GRGCYC | 1 cut(s) | 87 |
| FaeI | CATG | 7 cut(s) | 274, 331, 424, 667, 763, 838, 983 |
| FaqI | GGGAC | 1 cut(s) | 382 |
| FatI | CATG | 7 cut(s) | 270, 327, 420, 663, 759, 834, 979 |
| FauI | CCCGC | 1 cut(s) | 121 |
| FblI | GTMKAC | 1 cut(s) | 997 |
| Fnu4HI | GCNGC | 5 cut(s) | 245, 558, 561, 629, 1215 |
| FokI | GGATG | 4 cut(s) | 128, 584, 927, 956 |
| FriOI | GRGCYC | 1 cut(s) | 87 |
| Fsp4HI | GCNGC | 5 cut(s) | 245, 558, 561, 629, 1215 |
| FspBI | CTAG | 2 cut(s) | 405, 813 |
| GlaI | GCGC | 1 cut(s) | 783 |
| GluI | GCNGC | 5 cut(s) | 245, 558, 561, 629, 1215 |
| GsuI | CTGGAG | 3 cut(s) | 137, 474, 1110 |
| HaeII | RGCGCY | 1 cut(s) | 785 |
| HaeIII | GGCC | 5 cut(s) | 110, 269, 303, 749, 1045 |
| HapII | CCGG | 2 cut(s) | 53, 912 |
| HhaI | GCGC | 1 cut(s) | 784 |
| Hin1II | CATG | 7 cut(s) | 274, 331, 424, 667, 763, 838, 983 |
| Hin6I | GCGC | 1 cut(s) | 782 |
| HinP1I | GCGC | 1 cut(s) | 782 |
| HinfI | GANTC | 3 cut(s) | 138, 764, 1247 |
| HpaII | CCGG | 2 cut(s) | 53, 912 |
| HphI | GGTGA | 3 cut(s) | 407, 631, 1168 |
| Hpy166II | GTNNAC | 3 cut(s) | 58, 605, 998 |
| Hpy188I | TCNGA | 5 cut(s) | 9, 694, 754, 1062, 1093 |
| Hpy188III | TCNNGA | 8 cut(s) | 289, 446, 491, 729, 912, 1003, 1052, 1127 |
| Hpy8I | GTNNAC | 3 cut(s) | 58, 605, 998 |
| HpyAV | CCTTC | 3 cut(s) | 259, 268, 1130 |
| HpyCH4III | ACNGT | 3 cut(s) | 602, 613, 708 |
| HpyCH4V | TGCA | 8 cut(s) | 58, 79, 218, 415, 645, 723, 903, 1148 |
| HpyF10VI | GCNNNNNNNGC | 7 cut(s) | 10, 257, 266, 300, 320, 517, 710 |
| HpyF3I | CTNAG | 6 cut(s) | 35, 372, 656, 691, 786, 852 |
| Hsp92II | CATG | 7 cut(s) | 274, 331, 424, 667, 763, 838, 983 |
| HspAI | GCGC | 1 cut(s) | 782 |
| Kpn2I | TCCGGA | 1 cut(s) | 911 |
| KpnI | GGTACC | 1 cut(s) | 1027 |
| Kzo9I | GATC | 4 cut(s) | 28, 309, 808, 883 |
| LmnI | GCTCC | 6 cut(s) | 277, 691, 779, 865, 989, 1129 |
| Lsp1109I | GCAGC | 4 cut(s) | 231, 569, 640, 1226 |
| LweI | GCATC | 3 cut(s) | 310, 366, 529 |
| MaeI | CTAG | 2 cut(s) | 405, 813 |
| MaeIII | GTNAC | 5 cut(s) | 400, 521, 619, 926, 1186 |
| MalI | GATC | 4 cut(s) | 30, 311, 810, 885 |
| MboI | GATC | 4 cut(s) | 28, 309, 808, 883 |
| MboII | GAAGA | 9 cut(s) | 204, 372, 511, 596, 767, 785, 1109, 1145, 1251 |
| MflI | RGATCY | 1 cut(s) | 808 |
| MhlI | GDGCHC | 2 cut(s) | 60, 87 |
| MluCI | AATT | 6 cut(s) | 284, 456, 494, 839, 887, 1206 |
| MmeI | TCCRAC | 1 cut(s) | 840 |
| MroI | TCCGGA | 1 cut(s) | 911 |
| MseI | TTAA | 7 cut(s) | 236, 459, 1071, 1113, 1173, 1209, 1287 |
| MslI | CAYNNNNRTG | 2 cut(s) | 636, 668 |
| MspA1I | CMGCKG | 1 cut(s) | 560 |
| MspI | CCGG | 2 cut(s) | 53, 912 |
| Mva1269I | GAATGC | 2 cut(s) | 903, 933 |
| MwoI | GCNNNNNNNGC | 7 cut(s) | 10, 257, 266, 300, 320, 517, 710 |
| NdeII | GATC | 4 cut(s) | 28, 309, 808, 883 |
| NlaIII | CATG | 7 cut(s) | 274, 331, 424, 667, 763, 838, 983 |
| NlaIV | GGNNCC | 6 cut(s) | 672, 687, 810, 985, 1025, 1077 |
| NmuCI | GTSAC | 3 cut(s) | 619, 926, 1186 |
| NspI | RCATGY | 1 cut(s) | 424 |
| PaeR7I | CTCGAG | 1 cut(s) | 1001 |
| PaqCI | CACCTGC | 1 cut(s) | 84 |
| PctI | GAATGC | 2 cut(s) | 903, 933 |
| PfeI | GAWTC | 3 cut(s) | 138, 764, 1247 |
| PkrI | GCNGC | 5 cut(s) | 246, 559, 562, 630, 1216 |
| PspN4I | GGNNCC | 6 cut(s) | 672, 687, 810, 985, 1025, 1077 |
| PspPI | GGNCC | 1 cut(s) | 1044 |
| PstNI | CAGNNNCTG | 1 cut(s) | 563 |
| PsuI | RGATCY | 1 cut(s) | 808 |
| RsaI | GTAC | 3 cut(s) | 599, 1025, 1281 |
| RsaNI | GTAC | 3 cut(s) | 598, 1024, 1280 |
| RseI | CAYNNNNRTG | 2 cut(s) | 636, 668 |
| SaqAI | TTAA | 7 cut(s) | 236, 459, 1071, 1113, 1173, 1209, 1287 |
| SatI | GCNGC | 5 cut(s) | 245, 558, 561, 629, 1215 |
| Sau3AI | GATC | 4 cut(s) | 28, 309, 808, 883 |
| Sau96I | GGNCC | 1 cut(s) | 1044 |
| SduI | GDGCHC | 2 cut(s) | 60, 87 |
| SfaNI | GCATC | 3 cut(s) | 310, 366, 529 |
| SfcI | CTRYAG | 1 cut(s) | 675 |
| Sfr274I | CTCGAG | 1 cut(s) | 1001 |
| SlaI | CTCGAG | 1 cut(s) | 1001 |
| SmiMI | CAYNNNNRTG | 2 cut(s) | 636, 668 |
| SmlI | CTYRAG | 2 cut(s) | 817, 1001 |
| SmoI | CTYRAG | 2 cut(s) | 817, 1001 |
| SpeI | ACTAGT | 1 cut(s) | 404 |
| Sse9I | AATT | 6 cut(s) | 284, 456, 494, 839, 887, 1206 |
| SsiI | CCGC | 5 cut(s) | 128, 251, 560, 1266, 1353 |
| SspMI | CTAG | 2 cut(s) | 405, 813 |
| TaaI | ACNGT | 3 cut(s) | 602, 613, 708 |
| TaqI | TCGA | 8 cut(s) | 31, 122, 288, 318, 477, 843, 937, 1002 |
| TasI | AATT | 6 cut(s) | 284, 456, 494, 839, 887, 1206 |
| TatI | WGTACW | 1 cut(s) | 597 |
| TauI | GCSGC | 1 cut(s) | 563 |
| TfiI | GAWTC | 3 cut(s) | 138, 764, 1247 |
| Tru1I | TTAA | 7 cut(s) | 236, 459, 1071, 1113, 1173, 1209, 1287 |
| Tru9I | TTAA | 7 cut(s) | 236, 459, 1071, 1113, 1173, 1209, 1287 |
| TscAI | CASTG | 3 cut(s) | 65, 550, 713 |
| TseFI | GTSAC | 3 cut(s) | 619, 926, 1186 |
| TseI | GCWGC | 4 cut(s) | 244, 557, 628, 1214 |
| Tsp45I | GTSAC | 3 cut(s) | 619, 926, 1186 |
| TspDTI | ATGAA | 7 cut(s) | 5, 130, 287, 880, 1110, 1146, 1176 |
| TspGWI | ACGGA | 2 cut(s) | 445, 962 |
| TspRI | CASTG | 3 cut(s) | 65, 550, 713 |
| VneI | GTGCAC | 1 cut(s) | 56 |
| XapI | RAATTY | 2 cut(s) | 284, 839 |
| XceI | RCATGY | 1 cut(s) | 424 |
| XcmI | CCANNNNNNNNNTGG | 1 cut(s) | 550 |
| XhoI | CTCGAG | 1 cut(s) | 1001 |
| XmiI | GTMKAC | 1 cut(s) | 997 |
| XspI | CTAG | 2 cut(s) | 405, 813 |