AT3G14040

Exopolygalacturonase clone GBGA483-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0015088
Physical Location & Seq
Reverse (-)
4648236 .. 4650319
2084 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G14040.1

Sequence Viewer

Length: 1338 bp
ATGGTGGGTTCTCACAAAGCAAGCGGAGTGCTTCTTGTGCTACTAGTGGTTATGGCCACCACAATAGCAAACGGGACACCTGTTGTCGATACAGCAAAAAATGCAGCTACAGCAGTTGAAGATACAGCAAAAAATGCAGCTACAGCAGTTGGCGGTGCAGCTGCATCAGTTGGTGCTAAAGTAACAGGTGCCAAACCAGGCGGTGCATCACTTGATGTTAAAGCATCAGGAGCCAAAGGAGACGGCAAAACTGATGATAGTGCGGCATTTGCGGCTGCATGGAAAGAAGCTTGTGCAGCAGGGAGCACGATTACAGTGCCAAAAGGTGAGTATTTGGTAGAGAGCCTAGAGTTCAAAGGTCCATGCAAAGGTCCAGTCACTTTGGAATTGAATGGCAATTTTAAGGCTCCGGCTACGGTCAAGACCACTAAGCCTCATGCCGGATGGATTGATTTCGAAAATCTCGCTGATTTCACTTTGAATGGAAACAAAGCTATTTTTGACGGTCAAGGGTCCCTCGCTTGGAAGGCCAATGACTGCGCCAAAACCGGCAAATGCAACTCTCTCCCTATCAACATCCGATTCACTGGTCTAACAAACTCAAAGATTAACAGTATTACATCAACAAACAGCAAGCTTTTCCACATGAACATCCTTAACTGCAAGAACATAACTCTTACGGATATCGGTATTGATGCACCTCCGGAGAGTCTCAACACCGATGGTATCCACATCGGAAGGTCCAATGGAGTCAACTTAATTGGGGCAAAGATTAAAACCGGAGATGACTGCGTTTCCATTGGAGATGGTACCGAAAATCTCATTGTTGAGAACGTAGAATGTGGACCAGGACACGGAATTTCCATTGGAAGTCTTGGAAGATACCCTAATGAACAACCAGTAAAAGGAGTCACCGTGAGGAAATGCCTCATCAAGAACACTGACAATGGTGTTCGCATCAAGACATGGCCAGGATCTCCCCCCGGTATCGCCTCCAACATTCTTTTCGAAGATATCACAATGGACAATGTTAGCCTTCCCGTTCTCATCGACCAAGAGTACTGTCCTTATGGCCACTGCAAAGCTGGGGTACCATCGAAAGTGAAGTTGTCAGACGTGACTATCAAGAACATTAAGGGAACATCAGCAACAAAGGTAGCAGTGAAGCTAATGTGCAGCAAAGGCGTTCCTTGCACCAATATTGCTCTCTCTGACATCAACTTGGTCCACAACGGCAAAGAGGGACCAGCTGTCTCAGCATGTTCTAACATCAAGCCTATTCTCAGCGGAAAGTTGGTTCCAGCGGCTTGCACTGAAGTCGCTAAACCGGGTCCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005576 GO:0005618 GO:0005623 GO:0030312 GO:0044464 GO:0071944
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

445

Amino Acids

45.7

Weight (kDa)

8.63

Isoelectric Point (pI)

24.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 72 - 321 8.2e-12 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 102 - 425 5.2e-100 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: OG0015088)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07850 AT3G14040
fragaria_vesca FvH4_6g41360
malus_domestica MD17G1110900.v1.1
prunus_persica Prupe.3G203200_v2.0.a1
pyrus_communis pycom17g10330
rosa_chinensis RchiOBHm_Chr2g0156901
rosa_laevigata RLG00000020951
rosa_multiflora Rmu_ssc0000408.1_g000002
rosa_roxburghii Rroxscaffold_2G00092600
rosa_rugosa Rorug02G0456900 Rorug02G0457000
rosa_samantha Rh2AG522700 Rh2BG536000 Rh2CG507600 Rh2DG545000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 2 cut(s) 809, 1090
AccB1I GGYRCC 3 cut(s) 188, 809, 1090
AccIII TCCGGA 1 cut(s) 703
AciI CCGC 7 cut(s) 24, 153, 201, 263, 272, 1287, 1304
AclWI GGATC 1 cut(s) 982
AcoI YGGCCR 3 cut(s) 54, 968, 1072
AcsI RAATTY 1 cut(s) 858
AcuI CTGAAG 1 cut(s) 1335
AfaI GTAC 3 cut(s) 811, 1061, 1092
AfiI CCNNNNNNNGG 5 cut(s) 368, 440, 522, 854, 905
AgsI TTSAA 4 cut(s) 119, 355, 391, 481
AhdI GACNNNNNGTC 1 cut(s) 1250
AhlI ACTAGT 1 cut(s) 43
AjiI CACGTC 1 cut(s) 1117
AjnI CCWGG 3 cut(s) 196, 847, 970
AjuI GAANNNNNNNTTGG 2 cut(s) 989, 1021
AloI GAACNNNNNNTCC 2 cut(s) 1281, 1313
AluBI AGCT 9 cut(s) 107, 140, 161, 290, 494, 637, 1085, 1168, 1250
AluI AGCT 9 cut(s) 107, 140, 161, 290, 494, 637, 1085, 1168, 1250
Alw21I GWGCWC 1 cut(s) 308
Alw26I GTCTC 3 cut(s) 234, 716, 1258
AlwI GGATC 1 cut(s) 982
Aor13HI TCCGGA 1 cut(s) 703
AoxI GGCC 4 cut(s) 54, 528, 968, 1072
ApeKI GCWGC 7 cut(s) 104, 137, 158, 161, 275, 296, 1176
ApoI RAATTY 1 cut(s) 858
ArsI GACNNNNNNTTYG 2 cut(s) 360, 392
Asp718I GGTACC 2 cut(s) 809, 1090
AspLEI GCGC 1 cut(s) 542
AspS9I GGNCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
AsuC2I CCSGG 2 cut(s) 984, 1329
AsuHPI GGTGA 2 cut(s) 338, 904
AsuII TTCGAA 2 cut(s) 456, 1008
AvaII GGWCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
BalI TGGCCA 3 cut(s) 56, 970, 1074
BanI GGYRCC 3 cut(s) 188, 809, 1090
Bbv12I GWGCWC 1 cut(s) 308
BbvI GCAGC 7 cut(s) 116, 148, 149, 170, 262, 308, 1188
BccI CCATC 4 cut(s) 438, 716, 800, 1102
BceAI ACGGC 2 cut(s) 259, 1249
BcgI CGANNNNNNTGC 4 cut(s) 298, 332, 1300, 1334
BciT130I CCWGG 3 cut(s) 198, 849, 972
BciVI GTATCC 1 cut(s) 737
BcnI CCSGG 2 cut(s) 984, 1329
BcoDI GTCTC 3 cut(s) 234, 716, 1258
BcuI ACTAGT 1 cut(s) 43
BfaI CTAG 2 cut(s) 44, 347
BfmI CTRYAG 2 cut(s) 108, 141
BfuI GTATCC 1 cut(s) 737
BmcAI AGTACT 1 cut(s) 1061
Bme1390I CCNGG 5 cut(s) 198, 849, 972, 984, 1329
Bme18I GGWCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
BmeRI GACNNNNNGTC 1 cut(s) 1250
BmgBI CACGTC 1 cut(s) 1117
BmgT120I GGNCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
BmrFI CCNGG 5 cut(s) 198, 849, 972, 984, 1329
BmsI GCATC 5 cut(s) 173, 215, 233, 685, 966
Bpu14I TTCGAA 2 cut(s) 456, 1008
BpuMI CCSGG 2 cut(s) 984, 1329
BsaJI CCNNGG 1 cut(s) 982
BsaWI WCCGGW 2 cut(s) 703, 779
BsaXI ACNNNNNCTCC 2 cut(s) 900, 930
Bsc4I CCNNNNNNNGG 5 cut(s) 368, 440, 522, 854, 905
Bse118I RCCGGY 1 cut(s) 548
Bse1I ACTGG 3 cut(s) 374, 592, 899
BseAI TCCGGA 1 cut(s) 703
BseBI CCWGG 3 cut(s) 198, 849, 972
BseDI CCNNGG 1 cut(s) 982
BseGI GGATG 3 cut(s) 449, 576, 651
BseLI CCNNNNNNNGG 5 cut(s) 368, 440, 522, 854, 905
BseMII CTCAG 2 cut(s) 1269, 1297
BseNI ACTGG 3 cut(s) 374, 592, 899
BseXI GCAGC 7 cut(s) 116, 148, 149, 170, 262, 308, 1188
BseYI CCCAGC 1 cut(s) 1085
BsgI GTGCAG 3 cut(s) 177, 315, 1195
BshFI GGCC 4 cut(s) 56, 530, 970, 1074
BshNI GGYRCC 3 cut(s) 188, 809, 1090
BsiHKAI GWGCWC 1 cut(s) 308
BsiSI CCGG 7 cut(s) 410, 441, 549, 704, 780, 984, 1328
BslFI GGGAC 3 cut(s) 88, 499, 1257
BslI CCNNNNNNNGG 5 cut(s) 368, 440, 522, 854, 905
BsmAI GTCTC 3 cut(s) 234, 716, 1258
BsmBI CGTCTC 1 cut(s) 234
BsmFI GGGAC 3 cut(s) 88, 499, 1257
BsnI GGCC 4 cut(s) 56, 530, 970, 1074
Bsp119I TTCGAA 2 cut(s) 456, 1008
Bsp1286I GDGCHC 1 cut(s) 308
Bsp13I TCCGGA 1 cut(s) 703
Bsp143I GATC 1 cut(s) 974
BspACI CCGC 7 cut(s) 24, 153, 201, 263, 272, 1287, 1304
BspANI GGCC 4 cut(s) 56, 530, 970, 1074
BspCNI CTCAG 2 cut(s) 1268, 1296
BspEI TCCGGA 1 cut(s) 703
BspPI GGATC 1 cut(s) 982
BspT104I TTCGAA 2 cut(s) 456, 1008
BspT107I GGYRCC 3 cut(s) 188, 809, 1090
BsrFI RCCGGY 1 cut(s) 548
BsrI ACTGG 3 cut(s) 374, 592, 899
BssAI RCCGGY 1 cut(s) 548
BssECI CCNNGG 1 cut(s) 982
BssMI GATC 1 cut(s) 974
Bst2UI CCWGG 3 cut(s) 198, 849, 972
Bst4CI ACNGT 6 cut(s) 316, 418, 506, 614, 916, 1064
BstAPI GCANNNNNTGC 2 cut(s) 101, 134
BstBI TTCGAA 2 cut(s) 456, 1008
BstC8I GCNNGC 3 cut(s) 22, 635, 1309
BstDEI CTNAG 3 cut(s) 429, 1255, 1283
BstF5I GGATG 3 cut(s) 449, 576, 651
BstHHI GCGC 1 cut(s) 542
BstKTI GATC 1 cut(s) 977
BstMAI GTCTC 3 cut(s) 234, 716, 1258
BstMBI GATC 1 cut(s) 974
BstNI CCWGG 3 cut(s) 198, 849, 972
BstNSI RCATGY 1 cut(s) 1263
BstSCI CCNGG 5 cut(s) 196, 847, 970, 982, 1327
BstSFI CTRYAG 2 cut(s) 108, 141
BstV1I GCAGC 7 cut(s) 116, 148, 149, 170, 262, 308, 1188
BstX2I RGATCY 1 cut(s) 974
BstYI RGATCY 1 cut(s) 974
BsuI GTATCC 1 cut(s) 737
BsuRI GGCC 4 cut(s) 56, 530, 970, 1074
BtrI CACGTC 1 cut(s) 1117
BtsCI GGATG 3 cut(s) 449, 576, 651
BtsI GCAGTG 2 cut(s) 1075, 1167
BtsIMutI CAGTG 6 cut(s) 321, 585, 939, 1075, 1167, 1311
Cac8I GCNNGC 3 cut(s) 22, 635, 1309
CfoI GCGC 1 cut(s) 542
Cfr10I RCCGGY 1 cut(s) 548
Cfr13I GGNCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
Csp6I GTAC 3 cut(s) 810, 1060, 1091
CviAII CATG 6 cut(s) 279, 363, 437, 646, 966, 1260
CviQI GTAC 3 cut(s) 810, 1060, 1091
DdeI CTNAG 3 cut(s) 429, 1255, 1283
DpnI GATC 1 cut(s) 976
DpnII GATC 1 cut(s) 974
DriI GACNNNNNGTC 1 cut(s) 1250
EaeI YGGCCR 3 cut(s) 54, 968, 1072
Eam1105I GACNNNNNGTC 1 cut(s) 1250
Eco32I GATATC 2 cut(s) 685, 1015
Eco47I GGWCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
Eco57I CTGAAG 1 cut(s) 1335
EcoO109I RGGNCCY 2 cut(s) 513, 1331
EcoRII CCWGG 3 cut(s) 196, 847, 970
EcoRV GATATC 2 cut(s) 685, 1015
Esp3I CGTCTC 1 cut(s) 234
FaeI CATG 6 cut(s) 282, 366, 440, 649, 969, 1263
FaiI YATR 9 cut(s) 53, 280, 364, 438, 647, 671, 967, 1071, 1261
FaqI GGGAC 3 cut(s) 88, 499, 1257
FatI CATG 6 cut(s) 278, 362, 436, 645, 965, 1259
FokI GGATG 3 cut(s) 456, 563, 638
FspBI CTAG 2 cut(s) 44, 347
GlaI GCGC 1 cut(s) 541
GsaI CCCAGC 1 cut(s) 1089
HaeIII GGCC 4 cut(s) 56, 530, 970, 1074
HapII CCGG 7 cut(s) 410, 441, 549, 704, 780, 984, 1328
HhaI GCGC 1 cut(s) 542
Hin1II CATG 6 cut(s) 282, 366, 440, 649, 969, 1263
Hin6I GCGC 1 cut(s) 540
HinP1I GCGC 1 cut(s) 540
HincII GTYRAC 1 cut(s) 754
HindII GTYRAC 1 cut(s) 754
HindIII AAGCTT 2 cut(s) 288, 635
HinfI GANTC 4 cut(s) 582, 709, 750, 909
HpaII CCGG 7 cut(s) 410, 441, 549, 704, 780, 984, 1328
HphI GGTGA 2 cut(s) 338, 904
Hpy166II GTNNAC 3 cut(s) 754, 845, 1228
Hpy188I TCNGA 4 cut(s) 581, 737, 1114, 1213
Hpy188III TCNNGA 6 cut(s) 228, 421, 704, 934, 961, 1126
Hpy8I GTNNAC 3 cut(s) 754, 845, 1228
HpyAV CCTTC 3 cut(s) 520, 732, 1046
HpyCH4III ACNGT 6 cut(s) 316, 418, 506, 614, 916, 1064
HpyCH4IV ACGT 2 cut(s) 834, 1116
HpyF3I CTNAG 3 cut(s) 429, 1255, 1283
HpySE526I ACGT 2 cut(s) 834, 1116
Hsp92II CATG 6 cut(s) 282, 366, 440, 649, 969, 1263
HspAI GCGC 1 cut(s) 540
KflI GGGWCCC 1 cut(s) 513
Kpn2I TCCGGA 1 cut(s) 703
KpnI GGTACC 2 cut(s) 813, 1094
Kzo9I GATC 1 cut(s) 974
LmnI GCTCC 3 cut(s) 230, 303, 412
Lsp1109I GCAGC 7 cut(s) 116, 148, 149, 170, 262, 308, 1188
LweI GCATC 5 cut(s) 173, 215, 233, 685, 966
MaeI CTAG 2 cut(s) 44, 347
MaeII ACGT 2 cut(s) 834, 1116
MaeIII GTNAC 4 cut(s) 181, 376, 910, 1117
MalI GATC 1 cut(s) 976
MboI GATC 1 cut(s) 974
MboII GAAGA 3 cut(s) 131, 891, 1022
MflI RGATCY 1 cut(s) 974
MhlI GDGCHC 1 cut(s) 308
MlsI TGGCCA 3 cut(s) 56, 970, 1074
MluCI AATT 4 cut(s) 386, 397, 759, 858
MluNI TGGCCA 3 cut(s) 56, 970, 1074
MlyI GAGTC 3 cut(s) 718, 759, 918
MmeI TCCRAC 1 cut(s) 1020
MnlI CCTC 7 cut(s) 444, 527, 711, 912, 938, 1003, 1234
Mox20I TGGCCA 3 cut(s) 56, 970, 1074
MroI TCCGGA 1 cut(s) 703
MscI TGGCCA 3 cut(s) 56, 970, 1074
MseI TTAA 8 cut(s) 219, 402, 609, 657, 758, 774, 1134, 1336
Msp20I TGGCCA 3 cut(s) 56, 970, 1074
MspA1I CMGCKG 4 cut(s) 161, 1250, 1287, 1304
MspI CCGG 7 cut(s) 410, 441, 549, 704, 780, 984, 1328
MspR9I CCNGG 5 cut(s) 198, 849, 972, 984, 1329
MvaI CCWGG 3 cut(s) 198, 849, 972
NciI CCSGG 2 cut(s) 984, 1329
NdeII GATC 1 cut(s) 974
NlaIII CATG 6 cut(s) 282, 366, 440, 649, 969, 1263
NmuCI GTSAC 3 cut(s) 376, 910, 1117
NspI RCATGY 1 cut(s) 1263
NspV TTCGAA 2 cut(s) 456, 1008
PfeI GAWTC 1 cut(s) 582
PleI GAGTC 3 cut(s) 717, 758, 917
PpsI GAGTC 3 cut(s) 717, 758, 917
PpuMI RGGWCCY 2 cut(s) 513, 1331
Psp5II RGGWCCY 2 cut(s) 513, 1331
Psp6I CCWGG 3 cut(s) 196, 847, 970
PspFI CCCAGC 1 cut(s) 1085
PspGI CCWGG 3 cut(s) 196, 847, 970
PspPI GGNCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
PspPPI RGGWCCY 2 cut(s) 513, 1331
PsuI RGATCY 1 cut(s) 974
PvuII CAGCTG 2 cut(s) 161, 1250
RsaI GTAC 3 cut(s) 811, 1061, 1092
RsaNI GTAC 3 cut(s) 810, 1060, 1091
SaqAI TTAA 8 cut(s) 219, 402, 609, 657, 758, 774, 1134, 1336
Sau3AI GATC 1 cut(s) 974
Sau96I GGNCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
ScaI AGTACT 1 cut(s) 1061
SchI GAGTC 3 cut(s) 718, 759, 918
ScrFI CCNGG 5 cut(s) 198, 849, 972, 984, 1329
SduI GDGCHC 1 cut(s) 308
SfaNI GCATC 5 cut(s) 173, 215, 233, 685, 966
SfcI CTRYAG 2 cut(s) 108, 141
SfuI TTCGAA 2 cut(s) 456, 1008
SinI GGWCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
SpeI ACTAGT 1 cut(s) 43
Sse9I AATT 4 cut(s) 386, 397, 759, 858
SsiI CCGC 7 cut(s) 24, 153, 201, 263, 272, 1287, 1304
SspI AATATT 1 cut(s) 1201
SspMI CTAG 2 cut(s) 44, 347
StyD4I CCNGG 5 cut(s) 196, 847, 970, 982, 1327
TaaI ACNGT 6 cut(s) 316, 418, 506, 614, 916, 1064
TaiI ACGT 2 cut(s) 837, 1119
TaqI TCGA 5 cut(s) 87, 456, 1008, 1050, 1097
TasI AATT 4 cut(s) 386, 397, 759, 858
TatI WGTACW 1 cut(s) 1059
TauI GCSGC 3 cut(s) 266, 275, 1307
TfiI GAWTC 1 cut(s) 582
Tru1I TTAA 8 cut(s) 219, 402, 609, 657, 758, 774, 1134, 1336
Tru9I TTAA 8 cut(s) 219, 402, 609, 657, 758, 774, 1134, 1336
TscAI CASTG 6 cut(s) 321, 592, 946, 1082, 1167, 1318
TseFI GTSAC 3 cut(s) 376, 910, 1117
TseI GCWGC 7 cut(s) 104, 137, 158, 161, 275, 296, 1176
Tsp45I GTSAC 3 cut(s) 376, 910, 1117
TspDTI ATGAA 2 cut(s) 662, 906
TspGWI ACGGA 2 cut(s) 695, 870
TspRI CASTG 6 cut(s) 321, 592, 946, 1082, 1167, 1318
VpaK11BI GGWCC 8 cut(s) 359, 371, 513, 741, 845, 1225, 1244, 1331
XapI RAATTY 1 cut(s) 858
XceI RCATGY 1 cut(s) 1263
XcmI CCANNNNNNNNNTGG 1 cut(s) 1082
XspI CTAG 2 cut(s) 44, 347
ZrmI AGTACT 1 cut(s) 1061
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.