AT4G33440

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0016048
Physical Location & Seq
Forward (+)
16091535 .. 16094965
3431 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G33440.1

Sequence Viewer

Length: 1428 bp
ATGGAACCGGAGAAGAATCCGACCACAGTATTGAGTGCCATTACAAGACCTTCGTGGGCGTTTCTTCTCCTTGTTTTCACCGTCTTAGCGATTCTCTCTCTCCAAATCTCTTCCAATTCTTTTCTCCCTCTCTGGATCCCGACTTCTCAATATGACGACCCTGTTACCTGCTCCGGGTTTTTCAATCACGACCCGTTCCCTAACCGGATCGTTATGTCGATTACCGATTTCGGCGGTGTTGGAGACGGAAAGACGTCGAACACGGCCGCTTTCCGCCGCGCCGTAAGGCACCTTGAAGGTTTTGCGGCGGAGGGTGGGGCCCAGCTCAATGTCCCGGAGGGCACGTGGCTTTCTGGAAGCTTCAACCTCACCAGCAATTTCACGCTCTTTCTCGAACGCGGCGCTCTCATTTTGGGATCCAAGGACCTAGACGAATGGCCGATAATAGAGCCATTGCCTTCTTATGGAAGAGGGAGAGAGAGACCTGGTGGTAGACACATCAGCCTCATTCATGGAGACAATCTCACTAATGTTGTCATTACAGGAGAAAATGGGACAATTGATGGACAGGGGAAAATGTGGTGGGAGTTATGGTGGAACAGAACATTGGTGCATACGAGAGGCCATCTTATTGAACTCAAGAACTCTCATAATATCCTCATCTCTAACCTCACTTTGCTCAATTCTCCTTTCTGGACAATCCATCCTGTTTATTGCAGTAATGTTGTTATTAGAAATATGACCATCCTTGCTCCGATGAATGCTCCTAACACCGACGGTATAGATCCAGACTCAAGCACCAATGTCTGCATTGAGGATTGTTACATCGAAAGTGGTGATGATCTTGTAGCTGTAAAGAGCGGGTGGGATCAATATGGAATGGCTGTGGCACGTCCGAGTTCAAACATCGTAATCCGAAGAATCTCTGGTACTACTCGCACTTGTTCAGGAGTTGGGATAGGCAGTGAGATGTCTGGTGGGATTTTCAACATAACCGTTGAAGATATTCACGTCTGGGATTCTGCGGCTGGGCTCCGCATAAAAACAGATAAAGGGAGAGGTGGGTACATTTCGAATATCACCTTTAATAATGTGTTATTGGAGAAAGTGAAAGTTCCGATTAGATTCAGCAGTGGCTCAAATGATCACTCAGACGATAAATGGGATCCGAAAGCTCTTCCGAGAGTAAAAGGGATTTACATTAGCAATGTTGTGAGTCTGAATTCGAGAAAGGCCCCTATGTTGCTCGGTGTTGAAGGCACATCGTTTCAAGACGTATGCTTGAGGAATGTTACGCTTCTTGGGTTACCGAAGACCGAGAAATGGAAATGCAAGGATGTTTCTGGTTACGCGAGTGACGTTTTTCCTCTGTCATGTCCACAGTTGTTGCAGAAGAAAGGTTCAATAGCTCAGTGTTCATATAGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

475

Amino Acids

52.2

Weight (kDa)

6.8

Isoelectric Point (pI)

40.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 168 - 448 5.3e-46 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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Orthologous Genes (Group: OG0016048)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G33440
fragaria_vesca FvH4_1g24350
malus_domestica MD15G1441700.v1.1
prunus_persica Prupe.4G271300_v2.0.a1
pyrus_communis pycom15g38970
rosa_chinensis RchiOBHm_Chr2g0120901
rosa_laevigata RLG00000018600
rosa_multiflora Rmu_sc0000621.1_g000016
rosa_roxburghii Rroxscaffold_2G00122750
rosa_rugosa Rorug02G0232600
rosa_samantha Rh2AG289000 Rh2BG300000 Rh2CG278000 Rh2DG314000
rosa_wichuraiana Rw2G023150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 257
Acc36I ACCTGC 1 cut(s) 176
AccB1I GGYRCC 1 cut(s) 288
AccBSI CCGCTC 1 cut(s) 861
AccI GTMKAC 1 cut(s) 493
AccII CGCG 3 cut(s) 279, 399, 1352
AclWI GGATC 9 cut(s) 130, 143, 215, 411, 424, 779, 876, 1160, 1173
AcoI YGGCCR 2 cut(s) 264, 437
AcsI RAATTY 1 cut(s) 1222
AcvI CACGTG 1 cut(s) 345
AcyI GRCGYC 1 cut(s) 254
AfaI GTAC 2 cut(s) 931, 1067
AfiI CCNNNNNNNGG 3 cut(s) 174, 464, 1323
AjiI CACGTC 2 cut(s) 893, 1012
AjnI CCWGG 1 cut(s) 484
AjuI GAANNNNNNNTTGG 2 cut(s) 590, 622
AluBI AGCT 5 cut(s) 325, 360, 851, 1175, 1409
AluI AGCT 5 cut(s) 325, 360, 851, 1175, 1409
Alw26I GTCTC 3 cut(s) 237, 475, 510
AlwI GGATC 9 cut(s) 130, 143, 215, 411, 424, 779, 876, 1160, 1173
AoxI GGCC 5 cut(s) 264, 318, 437, 622, 1233
ApaI GGGCCC 1 cut(s) 322
ApoI RAATTY 1 cut(s) 1222
Asp700I GAANNNNTTC 1 cut(s) 1005
AspLEI GCGC 2 cut(s) 281, 404
AspS9I GGNCC 4 cut(s) 318, 319, 424, 1234
AsuC2I CCSGG 2 cut(s) 175, 335
AsuHPI GGTGA 4 cut(s) 70, 361, 848, 1072
AsuII TTCGAA 1 cut(s) 1073
AvaII GGWCC 1 cut(s) 424
BaeGI GKGCMC 2 cut(s) 322, 344
BamHI GGATCC 3 cut(s) 135, 416, 1165
BanI GGYRCC 1 cut(s) 288
BanII GRGCYC 2 cut(s) 322, 1035
BbrPI CACGTG 1 cut(s) 345
BbsI GAAGAC 1 cut(s) 1319
BccI CCATC 4 cut(s) 557, 633, 711, 752
BceAI ACGGC 2 cut(s) 266, 279
BciT130I CCWGG 1 cut(s) 486
BclI TGATCA 1 cut(s) 1144
BcnI CCSGG 2 cut(s) 175, 335
BcoDI GTCTC 3 cut(s) 237, 475, 510
BfaI CTAG 1 cut(s) 428
BfoI RGCGCY 1 cut(s) 405
BfuAI ACCTGC 1 cut(s) 176
BisI GCNGC 5 cut(s) 267, 277, 306, 400, 1026
BlsI GCNGC 5 cut(s) 268, 278, 307, 401, 1027
Bme1390I CCNGG 3 cut(s) 175, 335, 486
Bme18I GGWCC 1 cut(s) 424
BmgBI CACGTC 2 cut(s) 893, 1012
BmgT120I GGNCC 4 cut(s) 318, 319, 424, 1234
BmiI GGNNCC 9 cut(s) 6, 137, 290, 319, 320, 418, 1034, 1167, 1236
BmrFI CCNGG 3 cut(s) 175, 335, 486
BpiI GAAGAC 1 cut(s) 1319
BplI GAGNNNNNCTC 2 cut(s) 507, 539
Bpu14I TTCGAA 1 cut(s) 1073
BpuEI CTTGAG 3 cut(s) 623, 778, 1303
BpuMI CCSGG 2 cut(s) 175, 335
BsaAI YACGTR 1 cut(s) 345
BsaHI GRCGYC 1 cut(s) 254
BsaI GGTCTC 1 cut(s) 475
BsaJI CCNNGG 1 cut(s) 420
BsaWI WCCGGW 2 cut(s) 7, 204
BsaXI ACNNNNNCTCC 4 cut(s) 329, 359, 578, 608
Bsc4I CCNNNNNNNGG 3 cut(s) 174, 464, 1323
Bse3DI GCAATG 2 cut(s) 452, 1213
BseBI CCWGG 1 cut(s) 486
BseDI CCNNGG 1 cut(s) 420
BseGI GGATG 3 cut(s) 703, 744, 1342
BseLI CCNNNNNNNGG 3 cut(s) 174, 464, 1323
BseMI GCAATG 2 cut(s) 452, 1213
BseMII CTCAG 2 cut(s) 1164, 1424
BseSI GKGCMC 2 cut(s) 322, 344
BseX3I CGGCCG 1 cut(s) 264
BseYI CCCAGC 2 cut(s) 321, 1028
Bsh1236I CGCG 3 cut(s) 279, 399, 1352
Bsh1285I CGRYCG 1 cut(s) 267
BshFI GGCC 5 cut(s) 266, 320, 439, 624, 1235
BshNI GGYRCC 1 cut(s) 288
BsiEI CGRYCG 1 cut(s) 267
BsiSI CCGG 4 cut(s) 8, 174, 205, 335
BslFI GGGAC 2 cut(s) 317, 568
BslI CCNNNNNNNGG 3 cut(s) 174, 464, 1323
BsmAI GTCTC 3 cut(s) 237, 475, 510
BsmBI CGTCTC 1 cut(s) 237
BsmFI GGGAC 2 cut(s) 317, 568
BsmI GAATGC 1 cut(s) 766
BsnI GGCC 5 cut(s) 266, 320, 439, 624, 1235
Bso31I GGTCTC 1 cut(s) 475
Bsp119I TTCGAA 1 cut(s) 1073
Bsp120I GGGCCC 1 cut(s) 318
Bsp1286I GDGCHC 3 cut(s) 322, 344, 1035
Bsp143I GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
BspANI GGCC 5 cut(s) 266, 320, 439, 624, 1235
BspCNI CTCAG 2 cut(s) 1163, 1423
BspFNI CGCG 3 cut(s) 279, 399, 1352
BspLI GGNNCC 9 cut(s) 6, 137, 290, 319, 320, 418, 1034, 1167, 1236
BspMI ACCTGC 1 cut(s) 176
BspPI GGATC 9 cut(s) 130, 143, 215, 411, 424, 779, 876, 1160, 1173
BspQI GCTCTTC 1 cut(s) 1182
BspT104I TTCGAA 1 cut(s) 1073
BspT107I GGYRCC 1 cut(s) 288
BspTNI GGTCTC 1 cut(s) 475
BsrBI CCGCTC 1 cut(s) 861
BsrDI GCAATG 2 cut(s) 452, 1213
BssECI CCNNGG 1 cut(s) 420
BssMI GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
BssNI GRCGYC 1 cut(s) 254
BssT1I CCWWGG 1 cut(s) 420
Bst2UI CCWGG 1 cut(s) 486
Bst4CI ACNGT 5 cut(s) 28, 82, 779, 997, 1383
Bst6I CTCTTC 3 cut(s) 115, 463, 1182
BstACI GRCGYC 1 cut(s) 254
BstBAI YACGTR 1 cut(s) 345
BstBI TTCGAA 1 cut(s) 1073
BstDEI CTNAG 3 cut(s) 85, 1150, 1410
BstEII GGTNACC 1 cut(s) 1305
BstF5I GGATG 3 cut(s) 703, 744, 1342
BstFNI CGCG 3 cut(s) 279, 399, 1352
BstH2I RGCGCY 1 cut(s) 405
BstHHI GCGC 2 cut(s) 281, 404
BstKTI GATC 8 cut(s) 138, 210, 419, 787, 844, 871, 1147, 1168
BstMAI GTCTC 3 cut(s) 237, 475, 510
BstMBI GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
BstMCI CGRYCG 1 cut(s) 267
BstNI CCWGG 1 cut(s) 486
BstPI GGTNACC 1 cut(s) 1305
BstSCI CCNGG 3 cut(s) 173, 333, 484
BstSLI GKGCMC 2 cut(s) 322, 344
BstUI CGCG 3 cut(s) 279, 399, 1352
BstV2I GAAGAC 1 cut(s) 1319
BstX2I RGATCY 4 cut(s) 135, 416, 784, 1165
BstYI RGATCY 4 cut(s) 135, 416, 784, 1165
BstZI CGGCCG 1 cut(s) 264
BsuRI GGCC 5 cut(s) 266, 320, 439, 624, 1235
BtrI CACGTC 2 cut(s) 893, 1012
BtsCI GGATG 3 cut(s) 703, 744, 1342
BtsI GCAGTG 2 cut(s) 970, 1138
BtsIMutI CAGTG 3 cut(s) 970, 1138, 1418
BveI ACCTGC 1 cut(s) 176
CfoI GCGC 2 cut(s) 281, 404
Cfr13I GGNCC 4 cut(s) 318, 319, 424, 1234
CsiI ACCWGGT 1 cut(s) 484
Csp6I GTAC 2 cut(s) 930, 1066
CspCI CAANNNNNGTGG 2 cut(s) 1368, 1403
CviAII CATG 2 cut(s) 512, 1374
CviQI GTAC 2 cut(s) 930, 1066
DdeI CTNAG 3 cut(s) 85, 1150, 1410
DpnI GATC 8 cut(s) 137, 209, 418, 786, 843, 870, 1146, 1167
DpnII GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
EaeI YGGCCR 2 cut(s) 264, 437
EagI CGGCCG 1 cut(s) 264
Eam1104I CTCTTC 3 cut(s) 115, 463, 1182
EarI CTCTTC 3 cut(s) 115, 463, 1182
EciI GGCGGA 2 cut(s) 263, 323
EclXI CGGCCG 1 cut(s) 264
Eco130I CCWWGG 1 cut(s) 420
Eco24I GRGCYC 2 cut(s) 322, 1035
Eco31I GGTCTC 1 cut(s) 475
Eco47I GGWCC 1 cut(s) 424
Eco52I CGGCCG 1 cut(s) 264
Eco72I CACGTG 1 cut(s) 345
Eco91I GGTNACC 1 cut(s) 1305
EcoO109I RGGNCCY 3 cut(s) 318, 424, 1234
EcoO65I GGTNACC 1 cut(s) 1305
EcoRI GAATTC 1 cut(s) 1222
EcoRII CCWGG 1 cut(s) 484
EcoT14I CCWWGG 1 cut(s) 420
EcoT38I GRGCYC 2 cut(s) 322, 1035
ErhI CCWWGG 1 cut(s) 420
Esp3I CGTCTC 1 cut(s) 237
FaeI CATG 2 cut(s) 515, 1377
FaqI GGGAC 2 cut(s) 317, 568
FatI CATG 2 cut(s) 511, 1373
FauI CCCGC 1 cut(s) 854
FbaI TGATCA 1 cut(s) 1144
FblI GTMKAC 1 cut(s) 493
Fnu4HI GCNGC 5 cut(s) 267, 277, 306, 400, 1026
FokI GGATG 3 cut(s) 690, 731, 1349
FriOI GRGCYC 2 cut(s) 322, 1035
Fsp4HI GCNGC 5 cut(s) 267, 277, 306, 400, 1026
FspBI CTAG 1 cut(s) 428
GlaI GCGC 2 cut(s) 280, 403
GluI GCNGC 5 cut(s) 267, 277, 306, 400, 1026
GsaI CCCAGC 2 cut(s) 325, 1032
HaeII RGCGCY 1 cut(s) 405
HaeIII GGCC 5 cut(s) 266, 320, 439, 624, 1235
HapII CCGG 4 cut(s) 8, 174, 205, 335
HhaI GCGC 2 cut(s) 281, 404
Hin1I GRCGYC 1 cut(s) 254
Hin1II CATG 2 cut(s) 515, 1377
Hin6I GCGC 2 cut(s) 279, 402
HinP1I GCGC 2 cut(s) 279, 402
HindIII AAGCTT 1 cut(s) 358
HinfI GANTC 7 cut(s) 16, 91, 791, 921, 1019, 1125, 1216
HpaII CCGG 4 cut(s) 8, 174, 205, 335
HphI GGTGA 4 cut(s) 70, 361, 848, 1072
Hpy166II GTNNAC 2 cut(s) 494, 1379
Hpy188I TCNGA 9 cut(s) 21, 756, 897, 917, 1119, 1153, 1170, 1182, 1221
Hpy8I GTNNAC 2 cut(s) 494, 1379
Hpy99I CGWCG 2 cut(s) 259, 779
HpyAV CCTTC 4 cut(s) 60, 290, 468, 1250
HpyCH4III ACNGT 5 cut(s) 28, 82, 779, 997, 1383
HpyCH4IV ACGT 6 cut(s) 254, 344, 892, 1011, 1275, 1359
HpyCH4V TGCA 5 cut(s) 613, 717, 810, 1332, 1390
HpyF3I CTNAG 3 cut(s) 85, 1150, 1410
HpySE526I ACGT 6 cut(s) 254, 344, 892, 1011, 1275, 1359
Hsp92I GRCGYC 1 cut(s) 254
Hsp92II CATG 2 cut(s) 515, 1377
HspAI GCGC 2 cut(s) 279, 402
Ksp22I TGATCA 1 cut(s) 1144
Kzo9I GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
LguI GCTCTTC 1 cut(s) 1182
LmnI GCTCC 4 cut(s) 176, 757, 769, 1038
MabI ACCWGGT 1 cut(s) 484
MaeI CTAG 1 cut(s) 428
MaeII ACGT 6 cut(s) 254, 344, 892, 1011, 1275, 1359
MaeIII GTNAC 6 cut(s) 163, 821, 1291, 1305, 1346, 1355
MalI GATC 8 cut(s) 137, 209, 418, 786, 843, 870, 1146, 1167
MbiI CCGCTC 1 cut(s) 861
MboI GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
MboII GAAGA 9 cut(s) 25, 56, 102, 480, 930, 1013, 1169, 1324, 1405
MfeI CAATTG 1 cut(s) 558
MflI RGATCY 4 cut(s) 135, 416, 784, 1165
MhlI GDGCHC 3 cut(s) 322, 344, 1035
MluCI AATT 5 cut(s) 115, 376, 558, 682, 1222
MlyI GAGTC 2 cut(s) 785, 1225
MmeI TCCRAC 2 cut(s) 44, 220
MroXI GAANNNNTTC 1 cut(s) 1005
MseI TTAA 1 cut(s) 1086
MslI CAYNNNNRTG 1 cut(s) 1423
MspI CCGG 4 cut(s) 8, 174, 205, 335
MspR9I CCNGG 3 cut(s) 175, 335, 486
MunI CAATTG 1 cut(s) 558
Mva1269I GAATGC 1 cut(s) 766
MvaI CCWGG 1 cut(s) 486
MvnI CGCG 3 cut(s) 279, 399, 1352
NciI CCSGG 2 cut(s) 175, 335
NdeII GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
NlaIII CATG 2 cut(s) 515, 1377
NlaIV GGNNCC 9 cut(s) 6, 137, 290, 319, 320, 418, 1034, 1167, 1236
NmuCI GTSAC 1 cut(s) 1355
NspV TTCGAA 1 cut(s) 1073
PciSI GCTCTTC 1 cut(s) 1182
PcsI WCGNNNNNNNCGW 1 cut(s) 1356
PctI GAATGC 1 cut(s) 766
PdmI GAANNNNTTC 1 cut(s) 1005
PfeI GAWTC 5 cut(s) 16, 91, 921, 1019, 1125
PfoI TCCNGGA 1 cut(s) 333
PkrI GCNGC 5 cut(s) 268, 278, 307, 401, 1027
PleI GAGTC 2 cut(s) 785, 1224
PmaCI CACGTG 1 cut(s) 345
PmlI CACGTG 1 cut(s) 345
PpsI GAGTC 2 cut(s) 785, 1224
Ppu21I YACGTR 1 cut(s) 345
PpuMI RGGWCCY 1 cut(s) 424
Psp5II RGGWCCY 1 cut(s) 424
Psp6I CCWGG 1 cut(s) 484
PspCI CACGTG 1 cut(s) 345
PspEI GGTNACC 1 cut(s) 1305
PspFI CCCAGC 2 cut(s) 321, 1028
PspGI CCWGG 1 cut(s) 484
PspN4I GGNNCC 9 cut(s) 6, 137, 290, 319, 320, 418, 1034, 1167, 1236
PspOMI GGGCCC 1 cut(s) 318
PspPI GGNCC 4 cut(s) 318, 319, 424, 1234
PspPPI RGGWCCY 1 cut(s) 424
PsuI RGATCY 4 cut(s) 135, 416, 784, 1165
RsaI GTAC 2 cut(s) 931, 1067
RsaNI GTAC 2 cut(s) 930, 1066
RseI CAYNNNNRTG 1 cut(s) 1423
SapI GCTCTTC 1 cut(s) 1182
SaqAI TTAA 1 cut(s) 1086
SatI GCNGC 5 cut(s) 267, 277, 306, 400, 1026
Sau3AI GATC 8 cut(s) 135, 207, 416, 784, 841, 868, 1144, 1165
Sau96I GGNCC 4 cut(s) 318, 319, 424, 1234
SchI GAGTC 2 cut(s) 785, 1225
ScrFI CCNGG 3 cut(s) 175, 335, 486
SduI GDGCHC 3 cut(s) 322, 344, 1035
SexAI ACCWGGT 1 cut(s) 484
SfuI TTCGAA 1 cut(s) 1073
SinI GGWCC 1 cut(s) 424
SmiMI CAYNNNNRTG 1 cut(s) 1423
SmlI CTYRAG 3 cut(s) 638, 793, 1282
SmoI CTYRAG 3 cut(s) 638, 793, 1282
Sse9I AATT 5 cut(s) 115, 376, 558, 682, 1222
SspMI CTAG 1 cut(s) 428
StyD4I CCNGG 3 cut(s) 173, 333, 484
StyI CCWWGG 1 cut(s) 420
TaaI ACNGT 5 cut(s) 28, 82, 779, 997, 1383
TaiI ACGT 6 cut(s) 257, 347, 895, 1014, 1278, 1362
TaqI TCGA 6 cut(s) 218, 257, 393, 828, 1073, 1226
TaqII GACCGA 1 cut(s) 1331
TasI AATT 5 cut(s) 115, 376, 558, 682, 1222
TauI GCSGC 5 cut(s) 269, 279, 308, 402, 1028
TfiI GAWTC 5 cut(s) 16, 91, 921, 1019, 1125
Tru1I TTAA 1 cut(s) 1086
Tru9I TTAA 1 cut(s) 1086
TscAI CASTG 3 cut(s) 970, 1138, 1418
TseFI GTSAC 1 cut(s) 1355
Tsp45I GTSAC 1 cut(s) 1355
TspDTI ATGAA 3 cut(s) 500, 773, 1407
TspGWI ACGGA 1 cut(s) 261
TspRI CASTG 3 cut(s) 970, 1138, 1418
VpaK11BI GGWCC 1 cut(s) 424
XapI RAATTY 1 cut(s) 1222
XmiI GTMKAC 1 cut(s) 493
XmnI GAANNNNTTC 1 cut(s) 1005
XspI CTAG 1 cut(s) 428
ZraI GACGTC 1 cut(s) 255
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.