AT5G17200

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0002703
Physical Location & Seq
Reverse (-)
5653524 .. 5655336
1813 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G17200.1

Sequence Viewer

Length: 1266 bp
ATGAAATCTTCGTTGTTCTTTGTCTTGTTATGTTTGTTTCAAATAAACAAATTATGTTTCTGCTTAGAAGAAGAATCTCTAAAGGTTAAAAACGGATTTGGAAGCAATGGATTCATAAGTGTCACTAGTTTCGGAGCTATTGGCGATGGAAAGACTGATGATACTAAGGCTTTTCTTAAAGCATGGGAAGCTGTATGCAAAGGAGGACACAATAGAAAGATTCTTGTGCCTCAAGGGAAAACCTTCATGCTTAAGCCTCTTACATTCATCGGTCCATGCAAGTCTTCGACCATCTCCTTATCGATAAGAGGTAATCTTGTGGCACCGGGTTACACTTGGTATGCGGGAAGATACACAACATGGATTAGTTTTGACAGTATCAATGGTCTTGTTGTCACCGGAGGTGGTACCATCGACGGTCGTGGTTCTTTGTGGTGGGGCAACGTTAATAATCGCCCCTGCGCAATGCACTTCAACAACTGTAATGGTCTTAGGATATCTAATCTCCGACATTTGAACAGCCCTCGGAACCATGTAGGTCTAAGTTGTTCACAGAACATCGAGGTCAGGGGTTTAAGGATGACAGCACCCGGTGATAGTCCAAACACGGATGGTATTGACATATCGAACTGTATAGGAGTCCACATACATGACTCAGTGATTGCCACTGGAGATGACTGCATCGCCATTAATAGCGGTTCCTCTCATATCAACATAACCGGCATTTTTTGTGGCCCCGGTCACGGTATCAGCGTAGGAAGTCTTGGAGTAACTGGAGATTTCGAAACTGTTGAAGAAGTGAGGGTAAAGAACTGCACTTTTACAAAAACACAGAACGGTGTCCGAATCAAGACATACCAGAACGGATCGGGATATGCTCGGAAAATCTCATTCGAGGATATCAACATGGTTGCCTCAGAGAACCCTATTATCATAGACCAGACTTACCACAATGGAGGTACGAACGGAGGAATAAGCAAGTCATCTAGTAGCTATCAGAACTGTCATTTAACAGCAAAACAACGGACTCCGTCTGGTAATGGGAAAGGCGTGAAAGTGACTGACGTGCGTTACGCTAGAATCCGTGGGTCATCTGCAAGCGATCAAGACATTACATTGAACTGCGATGCAGACTTGGGATGCTCAGATATAGTGATGGACAATGTGAATATGGTTTCAGCGACATTTGGTCACAAGTTGTTTTCTTCCTGCAAAAATGCTCATGGGTCTTTATTTGCTTCAAAAGTGGATTGTCTGAAACATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

421

Amino Acids

45.23

Weight (kDa)

8.77

Isoelectric Point (pI)

29.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 66 - 408 8.6e-79 Glycosyl hydrolases family 28
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)
Acc16I TGCGCA 1 cut(s) 463
Acc65I GGTACC 1 cut(s) 407
AccB1I GGYRCC 2 cut(s) 322, 407
AciI CCGC 2 cut(s) 344, 696
AclI AACGTT 1 cut(s) 444
AclWI GGATC 1 cut(s) 874
AdeI CACNNNGTG 1 cut(s) 593
AfaI GTAC 2 cut(s) 409, 961
AfiI CCNNNNNNNGG 1 cut(s) 743
AflII CTTAAG 1 cut(s) 251
AgsI TTSAA 6 cut(s) 41, 475, 517, 794, 1120, 1242
AhdI GACNNNNNGTC 1 cut(s) 1188
AhlI ACTAGT 1 cut(s) 125
AjiI CACGTC 1 cut(s) 1066
AluBI AGCT 3 cut(s) 137, 191, 993
AluI AGCT 3 cut(s) 137, 191, 993
AlwI GGATC 1 cut(s) 874
AoxI GGCC 1 cut(s) 733
AseI ATTAAT 1 cut(s) 690
Asp700I GAANNNNTTC 1 cut(s) 242
Asp718I GGTACC 1 cut(s) 407
AspLEI GCGC 1 cut(s) 464
AspS9I GGNCC 2 cut(s) 272, 734
AsuC2I CCSGG 3 cut(s) 327, 591, 738
AsuHPI GGTGA 2 cut(s) 388, 605
AsuII TTCGAA 1 cut(s) 783
AvaII GGWCC 1 cut(s) 272
BanI GGYRCC 2 cut(s) 322, 407
BbsI GAAGAC 1 cut(s) 276
BccI CCATC 5 cut(s) 140, 299, 419, 605, 1150
BcnI CCSGG 3 cut(s) 327, 591, 738
BcuI ACTAGT 1 cut(s) 125
BfaI CTAG 3 cut(s) 126, 987, 1077
BfrI CTTAAG 1 cut(s) 251
Bme1390I CCNGG 3 cut(s) 327, 591, 738
Bme18I GGWCC 1 cut(s) 272
BmeRI GACNNNNNGTC 1 cut(s) 1188
BmgBI CACGTC 1 cut(s) 1066
BmgT120I GGNCC 2 cut(s) 272, 734
BmiI GGNNCC 5 cut(s) 324, 409, 530, 700, 736
BmrFI CCNGG 3 cut(s) 327, 591, 738
BmsI GCATC 3 cut(s) 690, 1117, 1130
BpiI GAAGAC 1 cut(s) 276
BpmI CTGGAG 2 cut(s) 690, 795
Bpu14I TTCGAA 1 cut(s) 783
BpuEI CTTGAG 1 cut(s) 216
BpuMI CCSGG 3 cut(s) 327, 591, 738
Bsa29I ATCGAT 1 cut(s) 302
BsaJI CCNNGG 3 cut(s) 524, 736, 1084
BsaWI WCCGGW 1 cut(s) 398
Bsc4I CCNNNNNNNGG 1 cut(s) 743
Bse118I RCCGGY 1 cut(s) 719
Bse1I ACTGG 2 cut(s) 673, 778
Bse3DI GCAATG 2 cut(s) 112, 471
BseCI ATCGAT 1 cut(s) 302
BseDI CCNNGG 3 cut(s) 524, 736, 1084
BseGI GGATG 3 cut(s) 585, 616, 1145
BseLI CCNNNNNNNGG 1 cut(s) 743
BseMI GCAATG 2 cut(s) 112, 471
BseMII CTCAG 3 cut(s) 669, 930, 1158
BseNI ACTGG 2 cut(s) 673, 778
BsgI GTGCAG 1 cut(s) 799
Bsh1285I CGRYCG 1 cut(s) 421
BshFI GGCC 1 cut(s) 735
BshNI GGYRCC 2 cut(s) 322, 407
BshVI ATCGAT 1 cut(s) 302
BsiEI CGRYCG 1 cut(s) 421
BsiSI CCGG 5 cut(s) 326, 399, 591, 720, 738
BslI CCNNNNNNNGG 1 cut(s) 743
BsnI GGCC 1 cut(s) 735
Bsp119I TTCGAA 1 cut(s) 783
Bsp143I GATC 2 cut(s) 866, 1102
BspACI CCGC 2 cut(s) 344, 696
BspANI GGCC 1 cut(s) 735
BspCNI CTCAG 3 cut(s) 668, 929, 1157
BspDI ATCGAT 1 cut(s) 302
BspLI GGNNCC 5 cut(s) 324, 409, 530, 700, 736
BspPI GGATC 1 cut(s) 874
BspT104I TTCGAA 1 cut(s) 783
BspT107I GGYRCC 2 cut(s) 322, 407
BspTI CTTAAG 1 cut(s) 251
BsrDI GCAATG 2 cut(s) 112, 471
BsrFI RCCGGY 1 cut(s) 719
BsrI ACTGG 2 cut(s) 673, 778
BssAI RCCGGY 1 cut(s) 719
BssECI CCNNGG 3 cut(s) 524, 736, 1084
BssMI GATC 2 cut(s) 866, 1102
Bst4CI ACNGT 8 cut(s) 377, 419, 482, 632, 746, 790, 839, 1004
BstAFI CTTAAG 1 cut(s) 251
BstBI TTCGAA 1 cut(s) 783
BstC8I GCNNGC 1 cut(s) 1099
BstDEI CTNAG 7 cut(s) 64, 165, 491, 542, 655, 916, 1144
BstDSI CCRYGG 1 cut(s) 1084
BstF5I GGATG 3 cut(s) 585, 616, 1145
BstHHI GCGC 1 cut(s) 464
BstKTI GATC 2 cut(s) 869, 1105
BstMBI GATC 2 cut(s) 866, 1102
BstMCI CGRYCG 1 cut(s) 421
BstMWI GCNNNNNNNGC 1 cut(s) 188
BstSCI CCNGG 3 cut(s) 325, 589, 736
BstV2I GAAGAC 1 cut(s) 276
Bsu15I ATCGAT 1 cut(s) 302
BsuRI GGCC 1 cut(s) 735
BsuTUI ATCGAT 1 cut(s) 302
BtgI CCRYGG 1 cut(s) 1084
BtgZI GCGATG 3 cut(s) 159, 667, 1140
BtrI CACGTC 1 cut(s) 1066
BtsCI GGATG 3 cut(s) 585, 616, 1145
BtsIMutI CAGTG 2 cut(s) 663, 666
Cac8I GCNNGC 1 cut(s) 1099
CfoI GCGC 1 cut(s) 464
Cfr10I RCCGGY 1 cut(s) 719
Cfr13I GGNCC 2 cut(s) 272, 734
ClaI ATCGAT 1 cut(s) 302
Csp6I GTAC 2 cut(s) 408, 960
CviAII CATG 8 cut(s) 183, 247, 276, 360, 533, 650, 907, 1223
CviJI RGCY 7 cut(s) 137, 170, 191, 256, 522, 735, 993
CviKI_1 RGCY 7 cut(s) 137, 170, 191, 256, 522, 735, 993
CviQI GTAC 2 cut(s) 408, 960
DdeI CTNAG 7 cut(s) 64, 165, 491, 542, 655, 916, 1144
DpnI GATC 2 cut(s) 868, 1104
DpnII GATC 2 cut(s) 866, 1102
DraIII CACNNNGTG 1 cut(s) 593
DriI GACNNNNNGTC 1 cut(s) 1188
Eam1105I GACNNNNNGTC 1 cut(s) 1188
Eco32I GATATC 2 cut(s) 498, 901
Eco47I GGWCC 1 cut(s) 272
EcoRV GATATC 2 cut(s) 498, 901
FaeI CATG 8 cut(s) 186, 250, 279, 363, 536, 653, 910, 1226
FatI CATG 8 cut(s) 182, 246, 275, 359, 532, 649, 906, 1222
FauI CCCGC 1 cut(s) 337
FokI GGATG 3 cut(s) 592, 623, 1152
FspBI CTAG 3 cut(s) 126, 987, 1077
FspI TGCGCA 1 cut(s) 463
GlaI GCGC 1 cut(s) 463
GsuI CTGGAG 2 cut(s) 690, 795
HaeIII GGCC 1 cut(s) 735
HapII CCGG 5 cut(s) 326, 399, 591, 720, 738
HhaI GCGC 1 cut(s) 464
Hin1II CATG 8 cut(s) 186, 250, 279, 363, 536, 653, 910, 1226
Hin6I GCGC 1 cut(s) 462
HinP1I GCGC 1 cut(s) 462
HinfI GANTC 8 cut(s) 74, 111, 220, 639, 653, 846, 1027, 1080
HpaII CCGG 5 cut(s) 326, 399, 591, 720, 738
HphI GGTGA 2 cut(s) 388, 605
Hpy166II GTNNAC 2 cut(s) 551, 643
Hpy188I TCNGA 9 cut(s) 134, 509, 528, 845, 882, 919, 999, 1147, 1257
Hpy188III TCNNGA 3 cut(s) 850, 870, 1106
Hpy8I GTNNAC 2 cut(s) 551, 643
Hpy99I CGWCG 1 cut(s) 419
HpyAV CCTTC 1 cut(s) 253
HpyCH4III ACNGT 8 cut(s) 377, 419, 482, 632, 746, 790, 839, 1004
HpyCH4IV ACGT 2 cut(s) 444, 1065
HpyCH4V TGCA 8 cut(s) 198, 279, 469, 681, 816, 1097, 1130, 1212
HpyF10VI GCNNNNNNNGC 1 cut(s) 188
HpyF3I CTNAG 7 cut(s) 64, 165, 491, 542, 655, 916, 1144
HpySE526I ACGT 2 cut(s) 444, 1065
Hsp92II CATG 8 cut(s) 186, 250, 279, 363, 536, 653, 910, 1226
HspAI GCGC 1 cut(s) 462
KpnI GGTACC 1 cut(s) 411
Kzo9I GATC 2 cut(s) 866, 1102
LmnI GCTCC 1 cut(s) 134
LweI GCATC 3 cut(s) 690, 1117, 1130
MaeI CTAG 3 cut(s) 126, 987, 1077
MaeII ACGT 2 cut(s) 444, 1065
MaeIII GTNAC 8 cut(s) 121, 329, 394, 740, 769, 1057, 1070, 1190
MalI GATC 2 cut(s) 868, 1104
MboI GATC 2 cut(s) 866, 1102
MboII GAAGA 6 cut(s) 80, 83, 276, 360, 806, 1197
MluCI AATT 1 cut(s) 50
MlyI GAGTC 3 cut(s) 647, 648, 1021
MmeI TCCRAC 1 cut(s) 532
MroXI GAANNNNTTC 1 cut(s) 242
MseI TTAA 8 cut(s) 87, 177, 252, 447, 575, 690, 1010, 1264
MslI CAYNNNNRTG 1 cut(s) 648
MspCI CTTAAG 1 cut(s) 251
MspI CCGG 5 cut(s) 326, 399, 591, 720, 738
MspR9I CCNGG 3 cut(s) 327, 591, 738
MwoI GCNNNNNNNGC 1 cut(s) 188
NciI CCSGG 3 cut(s) 327, 591, 738
NdeII GATC 2 cut(s) 866, 1102
NlaIII CATG 8 cut(s) 186, 250, 279, 363, 536, 653, 910, 1226
NlaIV GGNNCC 5 cut(s) 324, 409, 530, 700, 736
NmuCI GTSAC 5 cut(s) 121, 394, 740, 1057, 1190
NsbI TGCGCA 1 cut(s) 463
NspV TTCGAA 1 cut(s) 783
PcsI WCGNNNNNNNCGW 1 cut(s) 750
PdmI GAANNNNTTC 1 cut(s) 242
PfeI GAWTC 5 cut(s) 74, 111, 220, 846, 1080
PflFI GACNNNGTC 1 cut(s) 1030
PleI GAGTC 3 cut(s) 647, 647, 1021
PpsI GAGTC 3 cut(s) 647, 647, 1021
PshBI ATTAAT 1 cut(s) 690
Psp1406I AACGTT 1 cut(s) 444
PspN4I GGNNCC 5 cut(s) 324, 409, 530, 700, 736
PspPI GGNCC 2 cut(s) 272, 734
PsyI GACNNNGTC 1 cut(s) 1030
RsaI GTAC 2 cut(s) 409, 961
RsaNI GTAC 2 cut(s) 408, 960
RseI CAYNNNNRTG 1 cut(s) 648
SaqAI TTAA 8 cut(s) 87, 177, 252, 447, 575, 690, 1010, 1264
Sau3AI GATC 2 cut(s) 866, 1102
Sau96I GGNCC 2 cut(s) 272, 734
SchI GAGTC 3 cut(s) 647, 648, 1021
ScrFI CCNGG 3 cut(s) 327, 591, 738
SfaNI GCATC 3 cut(s) 690, 1117, 1130
SfuI TTCGAA 1 cut(s) 783
SinI GGWCC 1 cut(s) 272
SmiMI CAYNNNNRTG 1 cut(s) 648
SmlI CTYRAG 2 cut(s) 231, 251
SmoI CTYRAG 2 cut(s) 231, 251
SpeI ACTAGT 1 cut(s) 125
Sse9I AATT 1 cut(s) 50
SsiI CCGC 2 cut(s) 344, 696
SspMI CTAG 3 cut(s) 126, 987, 1077
StyD4I CCNGG 3 cut(s) 325, 589, 736
TaaI ACNGT 8 cut(s) 377, 419, 482, 632, 746, 790, 839, 1004
TaiI ACGT 2 cut(s) 447, 1068
TaqI TCGA 7 cut(s) 287, 302, 414, 561, 626, 783, 894
TaqII GACCGA 1 cut(s) 260
TasI AATT 1 cut(s) 50
TfiI GAWTC 5 cut(s) 74, 111, 220, 846, 1080
Tru1I TTAA 8 cut(s) 87, 177, 252, 447, 575, 690, 1010, 1264
Tru9I TTAA 8 cut(s) 87, 177, 252, 447, 575, 690, 1010, 1264
TscAI CASTG 2 cut(s) 663, 673
TseFI GTSAC 5 cut(s) 121, 394, 740, 1057, 1190
Tsp45I GTSAC 5 cut(s) 121, 394, 740, 1057, 1190
TspDTI ATGAA 4 cut(s) 17, 103, 235, 256
TspGWI ACGGA 7 cut(s) 108, 623, 879, 981, 1020, 1039, 1073
TspRI CASTG 2 cut(s) 663, 673
Tth111I GACNNNGTC 1 cut(s) 1030
Vha464I CTTAAG 1 cut(s) 251
VpaK11BI GGWCC 1 cut(s) 272
VspI ATTAAT 1 cut(s) 690
XmnI GAANNNNTTC 1 cut(s) 242
XspI CTAG 3 cut(s) 126, 987, 1077
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.