AT3G48950

Polygalacturonase

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
Physical Location & Seq
Forward (+)
18147671 .. 18150058
2388 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G48950.1

Sequence Viewer

Length: 1410 bp
ATGATTAGACCAACGTTTGGTTTACTAGTCTTTTTGGCTATATTCCTTTTTCCGGCGATTGAATCCCGGAGTCACCGAAATTCGGTGACTTCCAAGATTGAATTTTCAGCGCTGAATTGCCGGAAACATAGTGCAATACTGACTGATTTTGGTGCGGTTGGAGATGGAAAAACTTCTAATACAAAAGCGTTTAGAAATGCCATAAGCAAGCTCAGCCAAATGGCAACCGATGGCGGAGCTCAACTCGTAGTACCTCCCGGAAAATGGCTTACCGGAAGTTTTAACCTTACAAGCCATTTCACTTTGTTCATCCAGCGAGGTGCTACCATCCTTGCATCTCAGGATGAATCTGAATGGCCAGTTATCGCTCCATTGCCATCGTACGGGAAAGGAAGAGACGGAACCGGAACCGGGAGATTCAACAGTCTCATCTCCGGTACAAACCTAACCGACGTGGTTATCACTGGTAACAACGGAACGATCAACGGACAGGGACAGTATTGGTGGGACAAATTCAAGAAGAAGCAGTTCAAAATAACAAGACCGTACTTGATCGAGATCTTGTTCTCCAAAAACATTCAAATCTCGAACATCACATTGATCGATTCGCCGTCGTGGAATATTCATCCTGTCTATTGTAATAGCGTCATTGTCAAATCCGTCACCGTTCTTGCTCCCGTCACTGTTCCCAACACCGACGGTATCAATCCAGATTCTTGCACAAACACATTGATCGAAGACTGTTACATAGTCTCCGGAGACGACTGCATCGCCGTCAAAAGCGGTTGGGACCAATACGGAATCAAATTCGGAATGCCGACGCAGCAACTCTCGATCCGACGGCTGACATGCATCTCCCCAAAGAGTGCAGGAGTAGCCTTAGGAAGTGAAATGTCCGGAGGAATCAAAGACGTTAGAATCGAAGATGTAACTCTAACCAACACCGAATCCGCCATCCGAATCAAAACTGCGGTGGGACGTGGCGCTTACGTCAAGGATATTTACGCTAGGAGGATCACAATGAAGACGATGAAATATGTTTTCTGGATGAGTGGAAACTACGGTAGTCATCCTGACGAAGGATTTGATCCCAAGGCGTTGCCGGAAATTACTAATATCAATTACCGCGATATGACGGCGGAGAATGTTACAATGTCAGCGAGTCTCGACGGGATTGATAAAGATCCGTTTACGGGTATTTGTATCTCGAATGTGACTATAGCTTTGGCGGCTAAGGCTAAGAAAATGCAGTGGAATTGTACAGATGTGGCTGGAGTTACCAGCAGAGTTACGCCAGAGCCATGTAGTTTGTTGCCTGAGAAGAAAGCTCAGGCGAAGAATGTTGACTGTGCGTTTCCGTCTGATTTGATTCCGATTGAGAGTGTTGTATTGAAGAAGTGCTTTCTTTGA
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

Protein Analysis

469

Amino Acids

51.2

Weight (kDa)

8.9

Isoelectric Point (pI)

38.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 48 - 91 3.3e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 141 - 424 7.2e-41 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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 17
AccII CGCG 1 cut(s) 1128
AccIII TCCGGA 2 cut(s) 755, 896
AciI CCGC 8 cut(s) 155, 234, 783, 951, 971, 1126, 1139, 1229
AclI AACGTT 1 cut(s) 14
AclWI GGATC 4 cut(s) 829, 1022, 1082, 1178
AcoI YGGCCR 1 cut(s) 356
AcsI RAATTY 4 cut(s) 79, 101, 512, 806
AfaI GTAC 5 cut(s) 252, 383, 439, 548, 1261
AfeI AGCGCT 1 cut(s) 111
AfiI CCNNNNNNNGG 8 cut(s) 17, 52, 82, 264, 383, 411, 1079, 1193
AgsI TTSAA 7 cut(s) 62, 101, 421, 517, 532, 581, 1393
AhlI ACTAGT 1 cut(s) 25
AjiI CACGTC 2 cut(s) 454, 980
AluBI AGCT 4 cut(s) 211, 239, 1223, 1328
AluI AGCT 4 cut(s) 211, 239, 1223, 1328
Alw21I GWGCWC 1 cut(s) 241
Alw26I GTCTC 5 cut(s) 390, 431, 753, 757, 1169
AlwI GGATC 4 cut(s) 829, 1022, 1082, 1178
Aor13HI TCCGGA 2 cut(s) 755, 896
Aor51HI AGCGCT 1 cut(s) 111
AoxI GGCC 1 cut(s) 356
ApeKI GCWGC 1 cut(s) 823
ApoI RAATTY 4 cut(s) 79, 101, 512, 806
ArsI GACNNNNNNTTYG 4 cut(s) 1067, 1099, 1207, 1239
Asp700I GAANNNNTTC 2 cut(s) 172, 527
AspLEI GCGC 2 cut(s) 112, 986
AspS9I GGNCC 1 cut(s) 790
AsuC2I CCSGG 3 cut(s) 67, 258, 412
AsuHPI GGTGA 3 cut(s) 65, 97, 655
AvaII GGWCC 1 cut(s) 790
AxyI CCTNAGG 1 cut(s) 880
BalI TGGCCA 1 cut(s) 358
BanII GRGCYC 1 cut(s) 241
BbsI GAAGAC 2 cut(s) 744, 1031
Bbv12I GWGCWC 1 cut(s) 241
BbvI GCAGC 1 cut(s) 835
BccI CCATC 5 cut(s) 158, 224, 335, 385, 962
BceAI ACGGC 4 cut(s) 595, 758, 857, 1152
BcnI CCSGG 3 cut(s) 67, 258, 412
BcoDI GTCTC 5 cut(s) 390, 431, 753, 757, 1169
BcuI ACTAGT 1 cut(s) 25
BfaI CTAG 2 cut(s) 26, 1008
BfmI CTRYAG 1 cut(s) 1218
BfoI RGCGCY 2 cut(s) 113, 987
BglII AGATCT 1 cut(s) 558
BisI GCNGC 2 cut(s) 824, 1230
BlpI GCTNAGC 1 cut(s) 212
BlsI GCNGC 2 cut(s) 825, 1231
Bme1390I CCNGG 3 cut(s) 67, 258, 412
Bme18I GGWCC 1 cut(s) 790
BmgBI CACGTC 2 cut(s) 454, 980
BmgT120I GGNCC 1 cut(s) 790
BmiI GGNNCC 3 cut(s) 403, 409, 791
BmrFI CCNGG 3 cut(s) 67, 258, 412
BmsI GCATC 3 cut(s) 344, 777, 861
BpiI GAAGAC 2 cut(s) 744, 1031
BplI GAGNNNNNCTC 2 cut(s) 228, 260
BpmI CTGGAG 1 cut(s) 1293
Bpu10I CCTNAGC 2 cut(s) 1233, 1329
Bpu1102I GCTNAGC 1 cut(s) 212
BpuMI CCSGG 3 cut(s) 67, 258, 412
Bsa29I ATCGAT 1 cut(s) 603
BsaBI GATNNNNATC 2 cut(s) 557, 1182
BsaJI CCNNGG 1 cut(s) 1092
BsaWI WCCGGW 5 cut(s) 272, 404, 434, 755, 896
BsaXI ACNNNNNCTCC 2 cut(s) 737, 767
Bsc4I CCNNNNNNNGG 8 cut(s) 17, 52, 82, 264, 383, 411, 1079, 1193
Bse1I ACTGG 2 cut(s) 359, 469
Bse21I CCTNAGG 1 cut(s) 880
Bse3DI GCAATG 1 cut(s) 371
Bse8I GATNNNNATC 2 cut(s) 557, 1182
BseAI TCCGGA 2 cut(s) 755, 896
BseCI ATCGAT 1 cut(s) 603
BseDI CCNNGG 1 cut(s) 1092
BseGI GGATG 7 cut(s) 309, 327, 349, 625, 954, 1053, 1069
BseJI GATNNNNATC 2 cut(s) 557, 1182
BseLI CCNNNNNNNGG 8 cut(s) 17, 52, 82, 264, 383, 411, 1079, 1193
BseMI GCAATG 1 cut(s) 371
BseMII CTCAG 4 cut(s) 226, 353, 1308, 1343
BseNI ACTGG 2 cut(s) 359, 469
BseXI GCAGC 1 cut(s) 835
BsgI GTGCAG 1 cut(s) 888
Bsh1236I CGCG 1 cut(s) 1128
BshFI GGCC 1 cut(s) 358
BshVI ATCGAT 1 cut(s) 603
BsiHKAI GWGCWC 1 cut(s) 241
BsiWI CGTACG 1 cut(s) 381
BslFI GGGAC 4 cut(s) 507, 521, 803, 990
BslI CCNNNNNNNGG 8 cut(s) 17, 52, 82, 264, 383, 411, 1079, 1193
BsmAI GTCTC 5 cut(s) 390, 431, 753, 757, 1169
BsmBI CGTCTC 2 cut(s) 390, 753
BsmFI GGGAC 4 cut(s) 507, 521, 803, 990
BsmI GAATGC 1 cut(s) 819
BsnI GGCC 1 cut(s) 358
Bsp1286I GDGCHC 1 cut(s) 241
Bsp13I TCCGGA 2 cut(s) 755, 896
Bsp1407I TGTACA 1 cut(s) 1259
Bsp143I GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
Bsp1720I GCTNAGC 1 cut(s) 212
BspACI CCGC 8 cut(s) 155, 234, 783, 951, 971, 1126, 1139, 1229
BspANI GGCC 1 cut(s) 358
BspCNI CTCAG 4 cut(s) 225, 352, 1309, 1342
BspDI ATCGAT 1 cut(s) 603
BspEI TCCGGA 2 cut(s) 755, 896
BspFNI CGCG 1 cut(s) 1128
BspLI GGNNCC 3 cut(s) 403, 409, 791
BspPI GGATC 4 cut(s) 829, 1022, 1082, 1178
BsrDI GCAATG 1 cut(s) 371
BsrGI TGTACA 1 cut(s) 1259
BsrI ACTGG 2 cut(s) 359, 469
BssECI CCNNGG 1 cut(s) 1092
BssMI GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
BssT1I CCWWGG 1 cut(s) 1092
Bst4CI ACNGT 9 cut(s) 425, 498, 546, 667, 685, 701, 743, 1064, 1349
Bst6I CTCTTC 1 cut(s) 388
BstAUI TGTACA 1 cut(s) 1259
BstC8I GCNNGC 1 cut(s) 209
BstDEI CTNAG 7 cut(s) 212, 339, 880, 1233, 1239, 1317, 1329
BstENI CCTNNNNNAGG 1 cut(s) 1077
BstF5I GGATG 7 cut(s) 309, 327, 349, 625, 954, 1053, 1069
BstFNI CGCG 1 cut(s) 1128
BstH2I RGCGCY 2 cut(s) 113, 987
BstHHI GCGC 2 cut(s) 112, 986
BstKTI GATC 9 cut(s) 483, 555, 561, 603, 735, 837, 1017, 1090, 1186
BstMAI GTCTC 5 cut(s) 390, 431, 753, 757, 1169
BstMBI GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
BstMWI GCNNNNNNNGC 5 cut(s) 213, 823, 875, 1229, 1235
BstNSI RCATGY 1 cut(s) 852
BstSCI CCNGG 3 cut(s) 65, 256, 410
BstSFI CTRYAG 1 cut(s) 1218
BstUI CGCG 1 cut(s) 1128
BstV1I GCAGC 1 cut(s) 835
BstV2I GAAGAC 2 cut(s) 744, 1031
BstX2I RGATCY 2 cut(s) 558, 1183
BstYI RGATCY 2 cut(s) 558, 1183
Bsu15I ATCGAT 1 cut(s) 603
Bsu36I CCTNAGG 1 cut(s) 880
BsuRI GGCC 1 cut(s) 358
BsuTUI ATCGAT 1 cut(s) 603
BtgZI GCGATG 1 cut(s) 754
BtrI CACGTC 2 cut(s) 454, 980
BtsCI GGATG 7 cut(s) 309, 327, 349, 625, 954, 1053, 1069
BtsI GCAGTG 1 cut(s) 1256
BtsIMutI CAGTG 3 cut(s) 462, 681, 1256
Cac8I GCNNGC 1 cut(s) 209
CfoI GCGC 2 cut(s) 112, 986
Cfr13I GGNCC 1 cut(s) 790
ClaI ATCGAT 1 cut(s) 603
CseI GACGC 2 cut(s) 634, 829
Csp6I GTAC 5 cut(s) 251, 382, 438, 547, 1260
CviAII CATG 2 cut(s) 849, 1302
CviQI GTAC 5 cut(s) 251, 382, 438, 547, 1260
DdeI CTNAG 7 cut(s) 212, 339, 880, 1233, 1239, 1317, 1329
DpnI GATC 9 cut(s) 482, 554, 560, 602, 734, 836, 1016, 1089, 1185
DpnII GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
EaeI YGGCCR 1 cut(s) 356
Eam1104I CTCTTC 1 cut(s) 388
EarI CTCTTC 1 cut(s) 388
EciI GGCGGA 3 cut(s) 249, 940, 1154
Ecl136II GAGCTC 1 cut(s) 239
Eco130I CCWWGG 1 cut(s) 1092
Eco24I GRGCYC 1 cut(s) 241
Eco47I GGWCC 1 cut(s) 790
Eco47III AGCGCT 1 cut(s) 111
Eco53kI GAGCTC 1 cut(s) 239
Eco81I CCTNAGG 1 cut(s) 880
EcoICRI GAGCTC 1 cut(s) 239
EcoNI CCTNNNNNAGG 1 cut(s) 1077
EcoT14I CCWWGG 1 cut(s) 1092
EcoT22I ATGCAT 1 cut(s) 854
EcoT38I GRGCYC 1 cut(s) 241
ErhI CCWWGG 1 cut(s) 1092
Esp3I CGTCTC 2 cut(s) 390, 753
FaeI CATG 2 cut(s) 852, 1305
FaiI YATR 9 cut(s) 41, 129, 203, 749, 850, 1038, 1133, 1220, 1303
FalI AAGNNNNNCTT 1 cut(s) 1385
FaqI GGGAC 4 cut(s) 507, 521, 803, 990
FatI CATG 2 cut(s) 848, 1301
Fnu4HI GCNGC 2 cut(s) 824, 1230
FokI GGATG 7 cut(s) 296, 314, 356, 612, 941, 1056, 1060
FriOI GRGCYC 1 cut(s) 241
Fsp4HI GCNGC 2 cut(s) 824, 1230
FspBI CTAG 2 cut(s) 26, 1008
GlaI GCGC 2 cut(s) 111, 985
GluI GCNGC 2 cut(s) 824, 1230
GsuI CTGGAG 1 cut(s) 1293
HaeII RGCGCY 2 cut(s) 113, 987
HaeIII GGCC 1 cut(s) 358
HgaI GACGC 2 cut(s) 634, 829
HhaI GCGC 2 cut(s) 112, 986
Hin1II CATG 2 cut(s) 852, 1305
Hin6I GCGC 2 cut(s) 110, 984
HinP1I GCGC 2 cut(s) 110, 984
HincII GTYRAC 1 cut(s) 1345
HindII GTYRAC 1 cut(s) 1345
HphI GGTGA 3 cut(s) 65, 97, 655
Hpy166II GTNNAC 3 cut(s) 23, 1191, 1345
Hpy188I TCNGA 6 cut(s) 352, 812, 839, 959, 1363, 1374
Hpy8I GTNNAC 3 cut(s) 23, 1191, 1345
Hpy99I CGWCG 6 cut(s) 455, 616, 701, 823, 843, 1172
HpyAV CCTTC 1 cut(s) 1073
HpyCH4III ACNGT 9 cut(s) 425, 498, 546, 667, 685, 701, 743, 1064, 1349
HpyCH4IV ACGT 5 cut(s) 14, 453, 912, 979, 990
HpyCH4V TGCA 7 cut(s) 134, 335, 720, 768, 852, 869, 1249
HpyF10VI GCNNNNNNNGC 5 cut(s) 213, 823, 875, 1229, 1235
HpyF3I CTNAG 7 cut(s) 212, 339, 880, 1233, 1239, 1317, 1329
HpySE526I ACGT 5 cut(s) 14, 453, 912, 979, 990
Hsp92II CATG 2 cut(s) 852, 1305
HspAI GCGC 2 cut(s) 110, 984
Kpn2I TCCGGA 2 cut(s) 755, 896
Kzo9I GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
LmnI GCTCC 3 cut(s) 236, 373, 679
Lsp1109I GCAGC 1 cut(s) 835
LweI GCATC 3 cut(s) 344, 777, 861
MaeI CTAG 2 cut(s) 26, 1008
MaeII ACGT 5 cut(s) 14, 453, 912, 979, 990
MalI GATC 9 cut(s) 482, 554, 560, 602, 734, 836, 1016, 1089, 1185
MboI GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
MboII GAAGA 8 cut(s) 405, 532, 749, 935, 1036, 1333, 1348, 1405
MflI RGATCY 2 cut(s) 558, 1183
MhlI GDGCHC 1 cut(s) 241
MlsI TGGCCA 1 cut(s) 358
MluCI AATT 8 cut(s) 79, 101, 115, 512, 806, 1107, 1120, 1255
MluNI TGGCCA 1 cut(s) 358
MlyI GAGTC 2 cut(s) 79, 1171
MmeI TCCRAC 2 cut(s) 139, 862
MnlI CCTC 4 cut(s) 264, 311, 893, 1005
Mox20I TGGCCA 1 cut(s) 358
Mph1103I ATGCAT 1 cut(s) 854
MroI TCCGGA 2 cut(s) 755, 896
MroXI GAANNNNTTC 2 cut(s) 172, 527
MscI TGGCCA 1 cut(s) 358
MseI TTAA 1 cut(s) 282
Msp20I TGGCCA 1 cut(s) 358
MspR9I CCNGG 3 cut(s) 67, 258, 412
Mva1269I GAATGC 1 cut(s) 819
MvnI CGCG 1 cut(s) 1128
MwoI GCNNNNNNNGC 5 cut(s) 213, 823, 875, 1229, 1235
NciI CCSGG 3 cut(s) 67, 258, 412
NdeII GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
NlaIII CATG 2 cut(s) 852, 1305
NlaIV GGNNCC 3 cut(s) 403, 409, 791
NmuCI GTSAC 5 cut(s) 71, 85, 661, 679, 1213
NsiI ATGCAT 1 cut(s) 854
NspI RCATGY 1 cut(s) 852
PcsI WCGNNNNNNNCGW 1 cut(s) 918
PctI GAATGC 1 cut(s) 819
PdmI GAANNNNTTC 2 cut(s) 172, 527
Pfl23II CGTACG 1 cut(s) 381
PflMI CCANNNNNTGG 1 cut(s) 17
PfoI TCCNGGA 2 cut(s) 65, 256
PkrI GCNGC 2 cut(s) 825, 1231
PleI GAGTC 2 cut(s) 78, 1170
PpsI GAGTC 2 cut(s) 78, 1170
Psp124BI GAGCTC 1 cut(s) 241
Psp1406I AACGTT 1 cut(s) 14
PspLI CGTACG 1 cut(s) 381
PspN4I GGNNCC 3 cut(s) 403, 409, 791
PspPI GGNCC 1 cut(s) 790
PsuI RGATCY 2 cut(s) 558, 1183
RsaI GTAC 5 cut(s) 252, 383, 439, 548, 1261
RsaNI GTAC 5 cut(s) 251, 382, 438, 547, 1260
SacI GAGCTC 1 cut(s) 241
SaqAI TTAA 1 cut(s) 282
SatI GCNGC 2 cut(s) 824, 1230
Sau3AI GATC 9 cut(s) 480, 552, 558, 600, 732, 834, 1014, 1087, 1183
Sau96I GGNCC 1 cut(s) 790
SchI GAGTC 2 cut(s) 79, 1171
ScrFI CCNGG 3 cut(s) 67, 258, 412
SduI GDGCHC 1 cut(s) 241
SfaNI GCATC 3 cut(s) 344, 777, 861
SfcI CTRYAG 1 cut(s) 1218
SinI GGWCC 1 cut(s) 790
SpeI ACTAGT 1 cut(s) 25
Sse9I AATT 8 cut(s) 79, 101, 115, 512, 806, 1107, 1120, 1255
SsiI CCGC 8 cut(s) 155, 234, 783, 951, 971, 1126, 1139, 1229
SspI AATATT 1 cut(s) 622
SspMI CTAG 2 cut(s) 26, 1008
SstI GAGCTC 1 cut(s) 241
StyD4I CCNGG 3 cut(s) 65, 256, 410
StyI CCWWGG 1 cut(s) 1092
TaaI ACNGT 9 cut(s) 425, 498, 546, 667, 685, 701, 743, 1064, 1349
TaiI ACGT 5 cut(s) 17, 456, 915, 982, 993
TaqI TCGA 8 cut(s) 555, 587, 603, 735, 833, 921, 1167, 1208
TasI AATT 8 cut(s) 79, 101, 115, 512, 806, 1107, 1120, 1255
TatI WGTACW 1 cut(s) 1259
TauI GCSGC 1 cut(s) 1232
Tru1I TTAA 1 cut(s) 282
Tru9I TTAA 1 cut(s) 282
TscAI CASTG 3 cut(s) 469, 688, 1256
TseFI GTSAC 5 cut(s) 71, 85, 661, 679, 1213
TseI GCWGC 1 cut(s) 823
Tsp45I GTSAC 5 cut(s) 71, 85, 661, 679, 1213
TspDTI ATGAA 5 cut(s) 298, 360, 614, 1037, 1046
TspGWI ACGGA 7 cut(s) 414, 489, 501, 649, 813, 1176, 1347
TspRI CASTG 3 cut(s) 469, 688, 1256
Van91I CCANNNNNTGG 1 cut(s) 17
VpaK11BI GGWCC 1 cut(s) 790
XagI CCTNNNNNAGG 1 cut(s) 1077
XapI RAATTY 4 cut(s) 79, 101, 512, 806
XceI RCATGY 1 cut(s) 852
XmnI GAANNNNTTC 2 cut(s) 172, 527
XspI CTAG 2 cut(s) 26, 1008
Zsp2I ATGCAT 1 cut(s) 854
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.