AT3G07850

Exopolygalacturonase clone GBGA483-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0015088
Physical Location & Seq
Reverse (-)
2505546 .. 2507558
2013 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G07850.1

Sequence Viewer

Length: 1335 bp
ATGGTGGGTTCTCACAAAGCAAGCGGAGTGCTTCTTGTGCTACTAGTGGTTATGGCCACCACAATAGCAAACGGGACACCGGTTGTCGATAAAGCAAAAAATGCAGCTACAGCAGTTGAAGATACAGCAAAAAATGCAGCTACAGCAGTTGGCGGTGCAGCTGCATCAGTTGGTGCTAAAGTATCAGGTGCCAAACCAGGCGCAGCAGTTGATGTTAAAGCATCAGGAGCCAAAGGAGACAGCAAAACTGATGATAGTGCGGCATTTGCGGCTGCATGGAAAGAAGCTTGTGCAGCAGGGAGCACAATTACAGTGCCAAAAGGTGAGTATATGGTAGAGAGCCTAGAGTTCAAAGGTCCATGCAAAGGTCCAGTCACTTTGGAATTGAATGGCAATTTCAAGGCTCCGGCTACGGTCAAGACCACTAAGCCACATGCCGGATGGATTGATTTCGAAAATATAGCTGATTTCACTTTGAATGGAAACAAAGCTATTTTTGACGGTCAAGGGTCCCTCGCTTGGAAGGCCAATGATTGTGCCAAAACTGGCAAATGCAACTCTCTCCCTATCAACATCCGATTCACTGGTCTAACAAACTCAAAGATTAATAGTATTACATCAACAAACAGCAAACTTTTCCACATGAACATCCTTAACTGCAAGAACATTACTCTTTCGGATATTGGTATTGATGCACCTCCGGAGAGTCTCAACACCGATGGTATCCACATCGGAAGGTCCAATGGAGTCAACTTAATTGGGGCAAAGATCAAAACCGGAGATGACTGCGTTTCCATTGGAGATGGTACCGAAAATCTCATTGTTGAGAACGTAGAATGTGGACCAGGACACGGAATTTCCATTGGAAGTCTTGGAAGATACCCTAATGAGCAACCAGTAAAAGGAGTCACCGTGAGGAAATGCCTCATCAAGAACACTGACAATGGTGTTCGCATCAAGACATGGCCAGGATCTCCCCCCGGCATCGCCTCCAACATTCTTTTCGAAGATATCACAATGGACAATGTTAGCCTTCCCGTTCTCATCGACCAAGAGTACTGTCCTTATGGCCACTGCAAAGCTGGGGTACCATCGCAAGTGAAGTTGTCAGACGTGACTATCAAGGGCATTAAGGGTACATCAGCAACAAAGGTGGCTGTGAAGCTAATGTGCAGCAAAGGAGTGCCTTGCACCAATATTGCTCTCTCTGACATCAACTTGGTCCACAACGGCAAAGAGGGACCAGCTGTCTCGGCATGTTCTAACATCAAGCCTATTCTCAGCGGAAAGTTGGTTCCAGCGGCTTGCACTGAAGTTGCTAAACCGGGTCCATAA
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

444

Amino Acids

45.6

Weight (kDa)

8.63

Isoelectric Point (pI)

26.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 70 - 320 9.1e-11 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 101 - 424 1.3e-99 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) 806, 1087
AccB1I GGYRCC 3 cut(s) 188, 806, 1087
AccIII TCCGGA 1 cut(s) 700
AciI CCGC 6 cut(s) 24, 153, 260, 269, 1284, 1301
AclWI GGATC 1 cut(s) 979
AcoI YGGCCR 3 cut(s) 54, 965, 1069
AcsI RAATTY 1 cut(s) 855
AcuI CTGAAG 1 cut(s) 1332
AfaI GTAC 4 cut(s) 808, 1058, 1089, 1138
AfiI CCNNNNNNNGG 5 cut(s) 365, 437, 519, 851, 902
AgeI ACCGGT 1 cut(s) 79
AgsI TTSAA 5 cut(s) 119, 352, 388, 400, 478
AhdI GACNNNNNGTC 1 cut(s) 1247
AhlI ACTAGT 1 cut(s) 43
AjiI CACGTC 1 cut(s) 1114
AjnI CCWGG 3 cut(s) 196, 844, 967
AjuI GAANNNNNNNTTGG 2 cut(s) 986, 1018
AloI GAACNNNNNNTCC 2 cut(s) 1278, 1310
AluBI AGCT 9 cut(s) 107, 140, 161, 287, 464, 491, 1082, 1165, 1247
AluI AGCT 9 cut(s) 107, 140, 161, 287, 464, 491, 1082, 1165, 1247
Alw21I GWGCWC 1 cut(s) 305
Alw26I GTCTC 3 cut(s) 231, 713, 1255
AlwI GGATC 1 cut(s) 979
Aor13HI TCCGGA 1 cut(s) 700
AoxI GGCC 4 cut(s) 54, 525, 965, 1069
ApeKI GCWGC 8 cut(s) 104, 137, 158, 161, 203, 272, 293, 1173
ApoI RAATTY 1 cut(s) 855
ArsI GACNNNNNNTTYG 2 cut(s) 357, 389
AseI ATTAAT 1 cut(s) 606
AsiGI ACCGGT 1 cut(s) 79
Asp718I GGTACC 2 cut(s) 806, 1087
AspLEI GCGC 1 cut(s) 203
AspS9I GGNCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
AsuC2I CCSGG 2 cut(s) 981, 1326
AsuHPI GGTGA 2 cut(s) 335, 901
AsuII TTCGAA 2 cut(s) 453, 1005
AvaII GGWCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
BalI TGGCCA 3 cut(s) 56, 967, 1071
BanI GGYRCC 3 cut(s) 188, 806, 1087
Bbv12I GWGCWC 1 cut(s) 305
BbvI GCAGC 8 cut(s) 116, 148, 149, 170, 215, 259, 305, 1185
BccI CCATC 4 cut(s) 435, 713, 797, 1099
BceAI ACGGC 1 cut(s) 1246
BciT130I CCWGG 3 cut(s) 198, 846, 969
BciVI GTATCC 1 cut(s) 734
BcnI CCSGG 2 cut(s) 981, 1326
BcoDI GTCTC 3 cut(s) 231, 713, 1255
BcuI ACTAGT 1 cut(s) 43
BfaI CTAG 2 cut(s) 44, 344
BfmI CTRYAG 2 cut(s) 108, 141
BfuI GTATCC 1 cut(s) 734
BmcAI AGTACT 1 cut(s) 1058
Bme1390I CCNGG 5 cut(s) 198, 846, 969, 981, 1326
Bme18I GGWCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
BmeRI GACNNNNNGTC 1 cut(s) 1247
BmgBI CACGTC 1 cut(s) 1114
BmgT120I GGNCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
BmrFI CCNGG 5 cut(s) 198, 846, 969, 981, 1326
BmsI GCATC 5 cut(s) 173, 230, 682, 963, 993
Bpu14I TTCGAA 2 cut(s) 453, 1005
BpuMI CCSGG 2 cut(s) 981, 1326
BsaJI CCNNGG 1 cut(s) 979
BsaWI WCCGGW 3 cut(s) 79, 700, 776
BsaXI ACNNNNNCTCC 2 cut(s) 897, 927
Bsc4I CCNNNNNNNGG 5 cut(s) 365, 437, 519, 851, 902
Bse118I RCCGGY 1 cut(s) 79
Bse1I ACTGG 4 cut(s) 371, 550, 589, 896
BseAI TCCGGA 1 cut(s) 700
BseBI CCWGG 3 cut(s) 198, 846, 969
BseDI CCNNGG 1 cut(s) 979
BseGI GGATG 3 cut(s) 446, 573, 648
BseLI CCNNNNNNNGG 5 cut(s) 365, 437, 519, 851, 902
BseMII CTCAG 1 cut(s) 1294
BseNI ACTGG 4 cut(s) 371, 550, 589, 896
BseXI GCAGC 8 cut(s) 116, 148, 149, 170, 215, 259, 305, 1185
BseYI CCCAGC 1 cut(s) 1082
BsgI GTGCAG 3 cut(s) 177, 312, 1192
BshFI GGCC 4 cut(s) 56, 527, 967, 1071
BshNI GGYRCC 3 cut(s) 188, 806, 1087
BshTI ACCGGT 1 cut(s) 79
BsiHKAI GWGCWC 1 cut(s) 305
BsiSI CCGG 7 cut(s) 80, 407, 438, 701, 777, 981, 1325
BslFI GGGAC 3 cut(s) 88, 496, 1254
BslI CCNNNNNNNGG 5 cut(s) 365, 437, 519, 851, 902
BsmAI GTCTC 3 cut(s) 231, 713, 1255
BsmFI GGGAC 3 cut(s) 88, 496, 1254
BsnI GGCC 4 cut(s) 56, 527, 967, 1071
Bsp119I TTCGAA 2 cut(s) 453, 1005
Bsp1286I GDGCHC 1 cut(s) 305
Bsp13I TCCGGA 1 cut(s) 700
Bsp143I GATC 2 cut(s) 768, 971
BspACI CCGC 6 cut(s) 24, 153, 260, 269, 1284, 1301
BspANI GGCC 4 cut(s) 56, 527, 967, 1071
BspCNI CTCAG 1 cut(s) 1293
BspEI TCCGGA 1 cut(s) 700
BspPI GGATC 1 cut(s) 979
BspT104I TTCGAA 2 cut(s) 453, 1005
BspT107I GGYRCC 3 cut(s) 188, 806, 1087
BsrFI RCCGGY 1 cut(s) 79
BsrI ACTGG 4 cut(s) 371, 550, 589, 896
BssAI RCCGGY 1 cut(s) 79
BssECI CCNNGG 1 cut(s) 979
BssMI GATC 2 cut(s) 768, 971
Bst2UI CCWGG 3 cut(s) 198, 846, 969
Bst4CI ACNGT 5 cut(s) 313, 415, 503, 913, 1061
BstAPI GCANNNNNTGC 2 cut(s) 101, 134
BstBI TTCGAA 2 cut(s) 453, 1005
BstC8I GCNNGC 2 cut(s) 22, 1306
BstDEI CTNAG 2 cut(s) 426, 1280
BstF5I GGATG 3 cut(s) 446, 573, 648
BstHHI GCGC 1 cut(s) 203
BstKTI GATC 2 cut(s) 771, 974
BstMAI GTCTC 3 cut(s) 231, 713, 1255
BstMBI GATC 2 cut(s) 768, 971
BstNI CCWGG 3 cut(s) 198, 846, 969
BstNSI RCATGY 2 cut(s) 437, 1260
BstSCI CCNGG 5 cut(s) 196, 844, 967, 979, 1324
BstSFI CTRYAG 2 cut(s) 108, 141
BstV1I GCAGC 8 cut(s) 116, 148, 149, 170, 215, 259, 305, 1185
BstX2I RGATCY 1 cut(s) 971
BstYI RGATCY 1 cut(s) 971
BsuI GTATCC 1 cut(s) 734
BsuRI GGCC 4 cut(s) 56, 527, 967, 1071
BtgZI GCGATG 2 cut(s) 970, 1077
BtrI CACGTC 1 cut(s) 1114
BtsCI GGATG 3 cut(s) 446, 573, 648
BtsI GCAGTG 1 cut(s) 1072
BtsIMutI CAGTG 5 cut(s) 318, 582, 936, 1072, 1308
Cac8I GCNNGC 2 cut(s) 22, 1306
CfoI GCGC 1 cut(s) 203
Cfr10I RCCGGY 1 cut(s) 79
Cfr13I GGNCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
Csp6I GTAC 4 cut(s) 807, 1057, 1088, 1137
CspAI ACCGGT 1 cut(s) 79
CspCI CAANNNNNGTGG 2 cut(s) 1134, 1169
CviAII CATG 6 cut(s) 276, 360, 434, 643, 963, 1257
CviQI GTAC 4 cut(s) 807, 1057, 1088, 1137
DdeI CTNAG 2 cut(s) 426, 1280
DpnI GATC 2 cut(s) 770, 973
DpnII GATC 2 cut(s) 768, 971
DriI GACNNNNNGTC 1 cut(s) 1247
EaeI YGGCCR 3 cut(s) 54, 965, 1069
Eam1105I GACNNNNNGTC 1 cut(s) 1247
Eco32I GATATC 1 cut(s) 1012
Eco47I GGWCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
Eco57I CTGAAG 1 cut(s) 1332
EcoO109I RGGNCCY 1 cut(s) 510
EcoRII CCWGG 3 cut(s) 196, 844, 967
EcoRV GATATC 1 cut(s) 1012
FaeI CATG 6 cut(s) 279, 363, 437, 646, 966, 1260
FaqI GGGAC 3 cut(s) 88, 496, 1254
FatI CATG 6 cut(s) 275, 359, 433, 642, 962, 1256
FokI GGATG 3 cut(s) 453, 560, 635
FspBI CTAG 2 cut(s) 44, 344
GlaI GCGC 1 cut(s) 202
GsaI CCCAGC 1 cut(s) 1086
HaeIII GGCC 4 cut(s) 56, 527, 967, 1071
HapII CCGG 7 cut(s) 80, 407, 438, 701, 777, 981, 1325
HhaI GCGC 1 cut(s) 203
Hin1II CATG 6 cut(s) 279, 363, 437, 646, 966, 1260
Hin6I GCGC 1 cut(s) 201
HinP1I GCGC 1 cut(s) 201
HincII GTYRAC 1 cut(s) 751
HindII GTYRAC 1 cut(s) 751
HindIII AAGCTT 1 cut(s) 285
HinfI GANTC 4 cut(s) 579, 706, 747, 906
HpaII CCGG 7 cut(s) 80, 407, 438, 701, 777, 981, 1325
HphI GGTGA 2 cut(s) 335, 901
Hpy166II GTNNAC 3 cut(s) 751, 842, 1225
Hpy188I TCNGA 5 cut(s) 578, 679, 734, 1111, 1210
Hpy188III TCNNGA 5 cut(s) 225, 418, 701, 931, 958
Hpy8I GTNNAC 3 cut(s) 751, 842, 1225
HpyAV CCTTC 3 cut(s) 517, 729, 1043
HpyCH4III ACNGT 5 cut(s) 313, 415, 503, 913, 1061
HpyCH4IV ACGT 2 cut(s) 831, 1113
HpyF3I CTNAG 2 cut(s) 426, 1280
HpySE526I ACGT 2 cut(s) 831, 1113
Hsp92II CATG 6 cut(s) 279, 363, 437, 646, 966, 1260
HspAI GCGC 1 cut(s) 201
KflI GGGWCCC 1 cut(s) 510
Kpn2I TCCGGA 1 cut(s) 700
KpnI GGTACC 2 cut(s) 810, 1091
Kzo9I GATC 2 cut(s) 768, 971
LmnI GCTCC 3 cut(s) 227, 300, 409
Lsp1109I GCAGC 8 cut(s) 116, 148, 149, 170, 215, 259, 305, 1185
LweI GCATC 5 cut(s) 173, 230, 682, 963, 993
MaeI CTAG 2 cut(s) 44, 344
MaeII ACGT 2 cut(s) 831, 1113
MaeIII GTNAC 3 cut(s) 373, 907, 1114
MalI GATC 2 cut(s) 770, 973
MboI GATC 2 cut(s) 768, 971
MboII GAAGA 3 cut(s) 131, 888, 1019
MflI RGATCY 1 cut(s) 971
MhlI GDGCHC 1 cut(s) 305
MlsI TGGCCA 3 cut(s) 56, 967, 1071
MluCI AATT 5 cut(s) 306, 383, 394, 756, 855
MluNI TGGCCA 3 cut(s) 56, 967, 1071
MlyI GAGTC 3 cut(s) 715, 756, 915
MmeI TCCRAC 1 cut(s) 1017
MnlI CCTC 6 cut(s) 524, 708, 909, 935, 1000, 1231
Mox20I TGGCCA 3 cut(s) 56, 967, 1071
MroI TCCGGA 1 cut(s) 700
MscI TGGCCA 3 cut(s) 56, 967, 1071
MseI TTAA 5 cut(s) 216, 606, 654, 755, 1131
Msp20I TGGCCA 3 cut(s) 56, 967, 1071
MspA1I CMGCKG 4 cut(s) 161, 1247, 1284, 1301
MspI CCGG 7 cut(s) 80, 407, 438, 701, 777, 981, 1325
MspR9I CCNGG 5 cut(s) 198, 846, 969, 981, 1326
MvaI CCWGG 3 cut(s) 198, 846, 969
NciI CCSGG 2 cut(s) 981, 1326
NdeII GATC 2 cut(s) 768, 971
NlaIII CATG 6 cut(s) 279, 363, 437, 646, 966, 1260
NmeAIII GCCGAG 1 cut(s) 1232
NmuCI GTSAC 3 cut(s) 373, 907, 1114
NspI RCATGY 2 cut(s) 437, 1260
NspV TTCGAA 2 cut(s) 453, 1005
PfeI GAWTC 1 cut(s) 579
PinAI ACCGGT 1 cut(s) 79
PleI GAGTC 3 cut(s) 714, 755, 914
PpsI GAGTC 3 cut(s) 714, 755, 914
PpuMI RGGWCCY 1 cut(s) 510
PshBI ATTAAT 1 cut(s) 606
Psp5II RGGWCCY 1 cut(s) 510
Psp6I CCWGG 3 cut(s) 196, 844, 967
PspFI CCCAGC 1 cut(s) 1082
PspGI CCWGG 3 cut(s) 196, 844, 967
PspPI GGNCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
PspPPI RGGWCCY 1 cut(s) 510
PsuI RGATCY 1 cut(s) 971
PvuII CAGCTG 2 cut(s) 161, 1247
RsaI GTAC 4 cut(s) 808, 1058, 1089, 1138
RsaNI GTAC 4 cut(s) 807, 1057, 1088, 1137
SaqAI TTAA 5 cut(s) 216, 606, 654, 755, 1131
Sau3AI GATC 2 cut(s) 768, 971
Sau96I GGNCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
ScaI AGTACT 1 cut(s) 1058
SchI GAGTC 3 cut(s) 715, 756, 915
ScrFI CCNGG 5 cut(s) 198, 846, 969, 981, 1326
SduI GDGCHC 1 cut(s) 305
SfaNI GCATC 5 cut(s) 173, 230, 682, 963, 993
SfcI CTRYAG 2 cut(s) 108, 141
SfuI TTCGAA 2 cut(s) 453, 1005
SinI GGWCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
SpeI ACTAGT 1 cut(s) 43
Sse9I AATT 5 cut(s) 306, 383, 394, 756, 855
SsiI CCGC 6 cut(s) 24, 153, 260, 269, 1284, 1301
SspI AATATT 1 cut(s) 1198
SspMI CTAG 2 cut(s) 44, 344
StyD4I CCNGG 5 cut(s) 196, 844, 967, 979, 1324
TaaI ACNGT 5 cut(s) 313, 415, 503, 913, 1061
TaiI ACGT 2 cut(s) 834, 1116
TaqI TCGA 4 cut(s) 87, 453, 1005, 1047
TasI AATT 5 cut(s) 306, 383, 394, 756, 855
TatI WGTACW 1 cut(s) 1056
TauI GCSGC 3 cut(s) 263, 272, 1304
TfiI GAWTC 1 cut(s) 579
Tru1I TTAA 5 cut(s) 216, 606, 654, 755, 1131
Tru9I TTAA 5 cut(s) 216, 606, 654, 755, 1131
TscAI CASTG 5 cut(s) 318, 589, 943, 1079, 1315
TseFI GTSAC 3 cut(s) 373, 907, 1114
TseI GCWGC 8 cut(s) 104, 137, 158, 161, 203, 272, 293, 1173
Tsp45I GTSAC 3 cut(s) 373, 907, 1114
TspDTI ATGAA 1 cut(s) 659
TspGWI ACGGA 1 cut(s) 867
TspRI CASTG 5 cut(s) 318, 589, 943, 1079, 1315
VpaK11BI GGWCC 8 cut(s) 356, 368, 510, 738, 842, 1222, 1241, 1328
VspI ATTAAT 1 cut(s) 606
XapI RAATTY 1 cut(s) 855
XceI RCATGY 2 cut(s) 437, 1260
XcmI CCANNNNNNNNNTGG 2 cut(s) 438, 1079
XspI CTAG 2 cut(s) 44, 344
ZrmI AGTACT 1 cut(s) 1058
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.