AT5G26680

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0005415
Physical Location & Seq
Reverse (-)
9311446 .. 9315550
4105 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G26680.4

Sequence Viewer

Length: 1362 bp
ATGGGTATTAAGGGTTTAACGAAGCTTTTAGCCGACAATGCGCCTAGTTGTATGAAAGAACAGAAATTCGAGAGCTATTTTGGTCGGAAAATCGCTGTTGATGCTAGCATGAGCATTTACCAATTCCTCATTGTTGTTGGAAGAACTGGGACTGAAATGCTCACTAATGAAGCTGGTGAAGTCACTAGTCATTTACAAGGGATGTTTAATCGAACGATTCGTCTTCTTGAAGCTGGAATTAAGCCTGTCTATGTTTTCGATGGGAAGCCCCCGGAGTTAAAGAGACAGGAACTGGCTAAACGTTACTCCAAGAGAGCTGATGCAACTGCAGATTTGACTGGTGCAATTGAGGCAGGAAACAAGGAAGACATTGAGAAGTACAGCAAACGAACTGTGAAGGTGACAAAACAGCATAATGATGACTGCAAAAGACTCTTGAGACTCATGGGGGTGCCTGTTGTTGAGGCCACTTCCGAGGCTGAAGCGCAATGTGCTGCACTTTGCAAGTCAGGAAAGGTTTATGGTGTGGCTTCTGAAGATATGGATTCCTTGACTTTTGGAGCTCCTAAGTTTCTTCGCCACCTGATGGATCCTAGCTCCAGAAAGATCCCTGTCATGGAATTTGAAGTTGCTAAGATTTTAGAAGAGCTTCAACTTACCATGGATCAGTTCATCGACTTGTGTATATTGTCTGGATGTGACTATTGTGACAGCATCCGAGGTATCGGAGGGCAGACTGCCCTAAAGCTCATTCGCCAGCATGGATCTATTGAGACTATACTCGAAAATCTAAACAAAGAAAGGTATCAAATACCTGAGGAATGGCCATATAATGAAGCTCGAAAACTTTTCAAAGAACCTGACGTAATAACAGACGAAGAGCAGCTTGATATTAAGTGGACCTCTCCAGATGAAGAGGGTATAGTTCAGTTTTTGGTGAATGAAAATGGATTCAACATAGACAGGGTAACCAAGGCGATAGAGAAAATTAAAACTGCGAAGAATAAATCATCGCAGGGCAGGCTGGAGTCATTTTTCAAGCCAGTTGCTAACTCATCCGTACCTGCTAAGAGAAAGGGAAACCTTATATGCCTAGTTGCCTCCGAAGTGATTCCCAATATACTGGATCACAGGGTACCAAATGCTTGCTCAGGCAGTATAAACCAGCCATCAGCAATAAAGTCTCCTCTCTGCATGCTTTTGGATGGTACTCCTCCGATAACATTGTTAGCGTTAGGCTGTTCTCTCTATCCCGGGCTTCCAACCTTTCGGTTCACATGGCTGGAGGAAATCCCAGAGAGTACCACTAAAGGAGCAGCAAATAAGAAAACCAAAGGAGCTGGTGGAAGGAAGAAGAAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03410 ko03450 map03030 map03410 map03450
Pfam Domains
Protein Families
XPG_I XPG_N

Protein Analysis

453

Amino Acids

50.24

Weight (kDa)

8.48

Isoelectric Point (pI)

43.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
XPG_N PF00752 1 - 107 4.5e-29 XPG N-terminal domain
XPG_I PF00867 150 - 234 3.1e-31 XPG I-region
5_3_exonuc PF01367 220 - 266 3.1e-06 5'-3' exonuclease, C-terminal SAM fold
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 1072
Acc65I GGTACC 1 cut(s) 1135
AccB1I GGYRCC 2 cut(s) 451, 1135
AccB7I CCANNNNNTGG 1 cut(s) 586
AclI AACGTT 1 cut(s) 301
AclWI GGATC 6 cut(s) 584, 597, 601, 672, 772, 1134
AcoI YGGCCR 1 cut(s) 824
AcsI RAATTY 2 cut(s) 65, 620
AcuI CTGAAG 2 cut(s) 501, 555
AfaI GTAC 5 cut(s) 380, 1062, 1137, 1210, 1303
AfiI CCNNNNNNNGG 2 cut(s) 586, 616
AgsI TTSAA 6 cut(s) 230, 626, 653, 853, 955, 1039
AhlI ACTAGT 1 cut(s) 185
Alw21I GWGCWC 1 cut(s) 565
Alw26I GTCTC 4 cut(s) 277, 433, 767, 1188
AlwI GGATC 6 cut(s) 584, 597, 601, 672, 772, 1134
AlwNI CAGNNNCTG 1 cut(s) 292
Ama87I CYCGRG 1 cut(s) 1253
AoxI GGCC 2 cut(s) 465, 824
ApeKI GCWGC 3 cut(s) 494, 883, 1316
ApoI RAATTY 2 cut(s) 65, 620
ArsI GACNNNNNNTTYG 2 cut(s) 205, 237
Asp700I GAANNNNTTC 2 cut(s) 648, 1110
Asp718I GGTACC 1 cut(s) 1135
AspLEI GCGC 2 cut(s) 43, 487
AspS9I GGNCC 1 cut(s) 900
AsuC2I CCSGG 3 cut(s) 272, 1254, 1255
AsuHPI GGTGA 3 cut(s) 188, 412, 949
AsuNHI GCTAGC 1 cut(s) 104
AvaI CYCGRG 1 cut(s) 1253
AvaII GGWCC 1 cut(s) 900
AxyI CCTNAGG 1 cut(s) 816
BalI TGGCCA 1 cut(s) 826
BamHI GGATCC 1 cut(s) 589
BanI GGYRCC 2 cut(s) 451, 1135
BanII GRGCYC 1 cut(s) 565
BbsI GAAGAC 2 cut(s) 215, 372
Bbv12I GWGCWC 1 cut(s) 565
BbvI GCAGC 3 cut(s) 481, 895, 1328
BccI CCATC 4 cut(s) 254, 580, 1177, 1199
BcnI CCSGG 3 cut(s) 272, 1254, 1255
BcoDI GTCTC 4 cut(s) 277, 433, 767, 1188
BcuI ACTAGT 1 cut(s) 185
BfaI CTAG 5 cut(s) 45, 105, 186, 594, 1094
BfmI CTRYAG 1 cut(s) 327
BfuAI ACCTGC 1 cut(s) 1072
BisI GCNGC 3 cut(s) 495, 884, 1317
BlsI GCNGC 3 cut(s) 496, 885, 1318
Bme1390I CCNGG 3 cut(s) 272, 1254, 1255
Bme18I GGWCC 1 cut(s) 900
BmeT110I CYCGRG 1 cut(s) 1253
BmgT120I GGNCC 1 cut(s) 900
BmiI GGNNCC 3 cut(s) 453, 591, 1137
BmrFI CCNGG 3 cut(s) 272, 1254, 1255
BmrI ACTGGG 1 cut(s) 156
BmsI GCATC 3 cut(s) 91, 310, 723
BmtI GCTAGC 1 cut(s) 108
BmuI ACTGGG 1 cut(s) 156
BpiI GAAGAC 2 cut(s) 215, 372
BpmI CTGGAG 4 cut(s) 583, 891, 1046, 1304
Bpu10I CCTNAGC 1 cut(s) 1150
BpuEI CTTGAG 1 cut(s) 457
BpuMI CCSGG 3 cut(s) 272, 1254, 1255
BsaJI CCNNGG 6 cut(s) 270, 474, 660, 718, 972, 1253
Bsc4I CCNNNNNNNGG 2 cut(s) 586, 616
Bse1I ACTGG 5 cut(s) 151, 297, 343, 1043, 1128
Bse21I CCTNAGG 1 cut(s) 816
Bse3DI GCAATG 1 cut(s) 494
BseDI CCNNGG 6 cut(s) 270, 474, 660, 718, 972, 1253
BseGI GGATG 5 cut(s) 207, 701, 714, 1055, 1210
BseLI CCNNNNNNNGG 2 cut(s) 586, 616
BseMI GCAATG 1 cut(s) 494
BseMII CTCAG 2 cut(s) 807, 1164
BseNI ACTGG 5 cut(s) 151, 297, 343, 1043, 1128
BseRI GAGGAG 2 cut(s) 1176, 1203
BseXI GCAGC 3 cut(s) 481, 895, 1328
BsgI GTGCAG 1 cut(s) 480
BshFI GGCC 2 cut(s) 467, 826
BshNI GGYRCC 2 cut(s) 451, 1135
BsiHKAI GWGCWC 1 cut(s) 565
BsiHKCI CYCGRG 1 cut(s) 1253
BsiSI CCGG 2 cut(s) 272, 1254
BslFI GGGAC 1 cut(s) 163
BslI CCNNNNNNNGG 2 cut(s) 586, 616
BsmAI GTCTC 4 cut(s) 277, 433, 767, 1188
BsmFI GGGAC 1 cut(s) 163
BsnI GGCC 2 cut(s) 467, 826
BsoBI CYCGRG 1 cut(s) 1253
Bsp1286I GDGCHC 1 cut(s) 565
Bsp143I GATC 5 cut(s) 589, 606, 664, 764, 1126
Bsp19I CCATGG 1 cut(s) 660
BspANI GGCC 2 cut(s) 467, 826
BspCNI CTCAG 2 cut(s) 808, 1163
BspLI GGNNCC 3 cut(s) 453, 591, 1137
BspMAI CTGCAG 1 cut(s) 331
BspMI ACCTGC 1 cut(s) 1072
BspOI GCTAGC 1 cut(s) 108
BspPI GGATC 6 cut(s) 584, 597, 601, 672, 772, 1134
BspQI GCTCTTC 2 cut(s) 639, 873
BspT107I GGYRCC 2 cut(s) 451, 1135
BsrDI GCAATG 1 cut(s) 494
BsrI ACTGG 5 cut(s) 151, 297, 343, 1043, 1128
BssECI CCNNGG 6 cut(s) 270, 474, 660, 718, 972, 1253
BssMI GATC 5 cut(s) 589, 606, 664, 764, 1126
BssT1I CCWWGG 2 cut(s) 660, 972
Bst4CI ACNGT 1 cut(s) 394
Bst6I CTCTTC 3 cut(s) 639, 873, 909
BstC8I GCNNGC 5 cut(s) 106, 758, 1022, 1147, 1196
BstDEI CTNAG 5 cut(s) 567, 633, 816, 1068, 1150
BstDSI CCRYGG 1 cut(s) 660
BstEII GGTNACC 1 cut(s) 967
BstF5I GGATG 5 cut(s) 207, 701, 714, 1055, 1210
BstHHI GCGC 2 cut(s) 43, 487
BstKTI GATC 5 cut(s) 592, 609, 667, 767, 1129
BstMAI GTCTC 4 cut(s) 277, 433, 767, 1188
BstMBI GATC 5 cut(s) 589, 606, 664, 764, 1126
BstMWI GCNNNNNNNGC 5 cut(s) 38, 101, 350, 491, 1021
BstNSI RCATGY 1 cut(s) 1198
BstPI GGTNACC 1 cut(s) 967
BstSCI CCNGG 3 cut(s) 270, 1252, 1253
BstSFI CTRYAG 1 cut(s) 327
BstV1I GCAGC 3 cut(s) 481, 895, 1328
BstV2I GAAGAC 2 cut(s) 215, 372
BstX2I RGATCY 3 cut(s) 589, 606, 764
BstXI CCANNNNNNTGG 1 cut(s) 1123
BstYI RGATCY 3 cut(s) 589, 606, 764
Bsu36I CCTNAGG 1 cut(s) 816
BsuRI GGCC 2 cut(s) 467, 826
BtgI CCRYGG 1 cut(s) 660
BtgZI GCGATG 1 cut(s) 996
BtsCI GGATG 5 cut(s) 207, 701, 714, 1055, 1210
BveI ACCTGC 1 cut(s) 1072
Cac8I GCNNGC 5 cut(s) 106, 758, 1022, 1147, 1196
CaiI CAGNNNCTG 1 cut(s) 292
CfoI GCGC 2 cut(s) 43, 487
Cfr13I GGNCC 1 cut(s) 900
Cfr9I CCCGGG 1 cut(s) 1253
Csp6I GTAC 5 cut(s) 379, 1061, 1136, 1209, 1302
CviAII CATG 7 cut(s) 109, 445, 616, 661, 761, 1195, 1278
CviQI GTAC 5 cut(s) 379, 1061, 1136, 1209, 1302
DdeI CTNAG 5 cut(s) 567, 633, 816, 1068, 1150
DpnI GATC 5 cut(s) 591, 608, 666, 766, 1128
DpnII GATC 5 cut(s) 589, 606, 664, 764, 1126
EaeI YGGCCR 1 cut(s) 824
Eam1104I CTCTTC 3 cut(s) 639, 873, 909
EarI CTCTTC 3 cut(s) 639, 873, 909
Ecl136II GAGCTC 1 cut(s) 563
Eco130I CCWWGG 2 cut(s) 660, 972
Eco24I GRGCYC 1 cut(s) 565
Eco47I GGWCC 1 cut(s) 900
Eco53kI GAGCTC 1 cut(s) 563
Eco57I CTGAAG 2 cut(s) 501, 555
Eco81I CCTNAGG 1 cut(s) 816
Eco88I CYCGRG 1 cut(s) 1253
Eco91I GGTNACC 1 cut(s) 967
EcoICRI GAGCTC 1 cut(s) 563
EcoO65I GGTNACC 1 cut(s) 967
EcoT14I CCWWGG 2 cut(s) 660, 972
EcoT38I GRGCYC 1 cut(s) 565
ErhI CCWWGG 2 cut(s) 660, 972
FaeI CATG 7 cut(s) 112, 448, 619, 664, 764, 1198, 1281
FalI AAGNNNNNCTT 2 cut(s) 870, 902
FaqI GGGAC 1 cut(s) 163
FatI CATG 7 cut(s) 108, 444, 615, 660, 760, 1194, 1277
Fnu4HI GCNGC 3 cut(s) 495, 884, 1317
FokI GGATG 5 cut(s) 214, 701, 708, 1042, 1217
FriOI GRGCYC 1 cut(s) 565
Fsp4HI GCNGC 3 cut(s) 495, 884, 1317
FspBI CTAG 5 cut(s) 45, 105, 186, 594, 1094
GlaI GCGC 2 cut(s) 42, 486
GluI GCNGC 3 cut(s) 495, 884, 1317
GsuI CTGGAG 4 cut(s) 583, 891, 1046, 1304
HaeIII GGCC 2 cut(s) 467, 826
HapII CCGG 2 cut(s) 272, 1254
HhaI GCGC 2 cut(s) 43, 487
Hin1II CATG 7 cut(s) 112, 448, 619, 664, 764, 1198, 1281
Hin6I GCGC 2 cut(s) 41, 485
HinP1I GCGC 2 cut(s) 41, 485
HindIII AAGCTT 1 cut(s) 23
HinfI GANTC 7 cut(s) 217, 432, 441, 545, 951, 1028, 1111
HpaII CCGG 2 cut(s) 272, 1254
HphI GGTGA 3 cut(s) 188, 412, 949
Hpy166II GTNNAC 2 cut(s) 900, 1275
Hpy188I TCNGA 7 cut(s) 87, 475, 535, 719, 728, 1105, 1218
Hpy188III TCNNGA 7 cut(s) 70, 227, 436, 510, 600, 693, 908
Hpy8I GTNNAC 2 cut(s) 900, 1275
HpyAV CCTTC 2 cut(s) 391, 1341
HpyCH4III ACNGT 1 cut(s) 394
HpyCH4IV ACGT 2 cut(s) 301, 864
HpyCH4V TGCA 7 cut(s) 323, 329, 344, 426, 497, 504, 1194
HpyF10VI GCNNNNNNNGC 5 cut(s) 38, 101, 350, 491, 1021
HpyF3I CTNAG 5 cut(s) 567, 633, 816, 1068, 1150
HpySE526I ACGT 2 cut(s) 301, 864
Hsp92II CATG 7 cut(s) 112, 448, 619, 664, 764, 1198, 1281
HspAI GCGC 2 cut(s) 41, 485
KpnI GGTACC 1 cut(s) 1139
Kzo9I GATC 5 cut(s) 589, 606, 664, 764, 1126
LguI GCTCTTC 2 cut(s) 639, 873
LmnI GCTCC 5 cut(s) 560, 568, 602, 1313, 1337
Lsp1109I GCAGC 3 cut(s) 481, 895, 1328
LweI GCATC 3 cut(s) 91, 310, 723
MaeI CTAG 5 cut(s) 45, 105, 186, 594, 1094
MaeII ACGT 2 cut(s) 301, 864
MaeIII GTNAC 6 cut(s) 181, 302, 400, 698, 707, 967
MalI GATC 5 cut(s) 591, 608, 666, 766, 1128
MboI GATC 5 cut(s) 589, 606, 664, 764, 1126
MboII GAAGA 9 cut(s) 153, 215, 377, 548, 566, 656, 890, 926, 1012
MfeI CAATTG 1 cut(s) 345
MflI RGATCY 3 cut(s) 589, 606, 764
MhlI GDGCHC 1 cut(s) 565
MlsI TGGCCA 1 cut(s) 826
MluCI AATT 6 cut(s) 65, 122, 237, 345, 620, 987
MluNI TGGCCA 1 cut(s) 826
MlyI GAGTC 3 cut(s) 426, 435, 1037
MmeI TCCRAC 3 cut(s) 65, 118, 1286
Mox20I TGGCCA 1 cut(s) 826
MroXI GAANNNNTTC 2 cut(s) 648, 1110
MscI TGGCCA 1 cut(s) 826
MseI TTAA 7 cut(s) 9, 17, 207, 240, 278, 894, 990
MslI CAYNNNNRTG 2 cut(s) 417, 449
Msp20I TGGCCA 1 cut(s) 826
MspI CCGG 2 cut(s) 272, 1254
MspR9I CCNGG 3 cut(s) 272, 1254, 1255
MunI CAATTG 1 cut(s) 345
MwoI GCNNNNNNNGC 5 cut(s) 38, 101, 350, 491, 1021
NciI CCSGG 3 cut(s) 272, 1254, 1255
NcoI CCATGG 1 cut(s) 660
NdeII GATC 5 cut(s) 589, 606, 664, 764, 1126
NheI GCTAGC 1 cut(s) 104
NlaIII CATG 7 cut(s) 112, 448, 619, 664, 764, 1198, 1281
NlaIV GGNNCC 3 cut(s) 453, 591, 1137
NmuCI GTSAC 4 cut(s) 181, 400, 698, 707
NspI RCATGY 1 cut(s) 1198
PaeI GCATGC 1 cut(s) 1198
PciSI GCTCTTC 2 cut(s) 639, 873
PcsI WCGNNNNNNNCGW 1 cut(s) 217
PdmI GAANNNNTTC 2 cut(s) 648, 1110
PfeI GAWTC 4 cut(s) 217, 545, 951, 1111
PflMI CCANNNNNTGG 1 cut(s) 586
PkrI GCNGC 3 cut(s) 496, 885, 1318
PleI GAGTC 3 cut(s) 426, 435, 1036
PpsI GAGTC 3 cut(s) 426, 435, 1036
Psp124BI GAGCTC 1 cut(s) 565
Psp1406I AACGTT 1 cut(s) 301
PspEI GGTNACC 1 cut(s) 967
PspN4I GGNNCC 3 cut(s) 453, 591, 1137
PspPI GGNCC 1 cut(s) 900
PstI CTGCAG 1 cut(s) 331
PstNI CAGNNNCTG 1 cut(s) 292
PsuI RGATCY 3 cut(s) 589, 606, 764
RsaI GTAC 5 cut(s) 380, 1062, 1137, 1210, 1303
RsaNI GTAC 5 cut(s) 379, 1061, 1136, 1209, 1302
RseI CAYNNNNRTG 2 cut(s) 417, 449
SacI GAGCTC 1 cut(s) 565
SapI GCTCTTC 2 cut(s) 639, 873
SaqAI TTAA 7 cut(s) 9, 17, 207, 240, 278, 894, 990
SatI GCNGC 3 cut(s) 495, 884, 1317
Sau3AI GATC 5 cut(s) 589, 606, 664, 764, 1126
Sau96I GGNCC 1 cut(s) 900
SchI GAGTC 3 cut(s) 426, 435, 1037
ScrFI CCNGG 3 cut(s) 272, 1254, 1255
SduI GDGCHC 1 cut(s) 565
SfaNI GCATC 3 cut(s) 91, 310, 723
SfcI CTRYAG 1 cut(s) 327
SinI GGWCC 1 cut(s) 900
SmaI CCCGGG 1 cut(s) 1255
SmiMI CAYNNNNRTG 2 cut(s) 417, 449
SmlI CTYRAG 1 cut(s) 436
SmoI CTYRAG 1 cut(s) 436
SpeI ACTAGT 1 cut(s) 185
SphI GCATGC 1 cut(s) 1198
Sse9I AATT 6 cut(s) 65, 122, 237, 345, 620, 987
SspMI CTAG 5 cut(s) 45, 105, 186, 594, 1094
SstI GAGCTC 1 cut(s) 565
StyD4I CCNGG 3 cut(s) 270, 1252, 1253
StyI CCWWGG 2 cut(s) 660, 972
TaaI ACNGT 1 cut(s) 394
TaiI ACGT 2 cut(s) 304, 867
TaqI TCGA 6 cut(s) 69, 211, 258, 675, 783, 841
TasI AATT 6 cut(s) 65, 122, 237, 345, 620, 987
TatI WGTACW 1 cut(s) 378
TfiI GAWTC 4 cut(s) 217, 545, 951, 1111
Tru1I TTAA 7 cut(s) 9, 17, 207, 240, 278, 894, 990
Tru9I TTAA 7 cut(s) 9, 17, 207, 240, 278, 894, 990
TseFI GTSAC 4 cut(s) 181, 400, 698, 707
TseI GCWGC 3 cut(s) 494, 883, 1316
Tsp45I GTSAC 4 cut(s) 181, 400, 698, 707
TspDTI ATGAA 6 cut(s) 68, 183, 661, 849, 927, 957
TspGWI ACGGA 1 cut(s) 1048
TspMI CCCGGG 1 cut(s) 1253
Van91I CCANNNNNTGG 1 cut(s) 586
VpaK11BI GGWCC 1 cut(s) 900
XapI RAATTY 2 cut(s) 65, 620
XceI RCATGY 1 cut(s) 1198
XmaI CCCGGG 1 cut(s) 1253
XmnI GAANNNNTTC 2 cut(s) 648, 1110
XspI CTAG 5 cut(s) 45, 105, 186, 594, 1094
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.