MD13G1094100.v1.1

Polygalacturonase

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
Physical Location & Seq
Reverse (-)
6625969 .. 6630214
4246 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1094100.v1.1.491

Sequence Viewer

Length: 1587 bp
ATGAGTGAGTTCAGTTTCAGAAGCATCACATTCATGCTAGTAATTGCATTTCTGGTTTGGTCGTCGAATTTCGACGCTTGCATGGGCAGAAGAGGCCGGCATTGGAGGCAAAGCAGGGCATCCTTTGCTTCTCTTTCAAAGAAAAAAGGAAAAAGCAACCACGGCGGCAGCGGCGGCGGCCACTACCACAGCGGTAGTGGATCAAAACCCAAGCCCCCATCCCATAAAAAGGCACCATCTCCACCTCGTAACAAGGCACAGCCTCCACCTCATAACAAGGCACCATCGCCACCTCAATATAAAGCTCCACCACCACCACAGAAGGGTCCCTCCACTTATAATGTGCTAGATTTTGGTGCTAAGGGTAACGGCGATACCGACGACACAAAGGCATTCCAAGCTGCATGGGCCGCTGCTTGTAAAGTCGAGGCATCAAGCATTATTGTTCCAGCCGGTTATCAGTTCCTTGTGGGCCCCATCTCATTCTCCGGCCCTTACTGCCAGAAAAACATTTTATTTCAGCTAGATGGCACGATACTAGCGCCGACGGACTCAAAATCCTGGGGCAATGGCCTGCTGCAATGGCTTGAATTTACAAAGCTAAACGGAATCACAGTACAGGGAAAGGGAGTGATTGATGGAAGAGGCTCTCCTTGGTGGCAGGACACTCCCTATGGAGACCCTATAGATGATGATTACAAGCTCATTGTGCCACTAAACAGCTCATTCCAACAACGCCCGCCAATGCCGATAAGAAGCGAGCTGAGCGGGAAAATGCCAAGCATCAAACCGACTGCACTGCGGTTTTATGGGAGTTTCAATGTCACGGTTACAGGCATAACGATTCAGAATAGCCCCCAATGCCATCTCAAATTCGACAACTGCCAGGGAGTGCTGGTCCATGATATGAGCGTCTCGTCCCCTGGGGACAGTCCCAACACAGATGGAATTCACCTCCAGAACTCCCAAAGAGTGCTCATCCACTCCACCACTCTTGGTTGCGGAGATGACTGTATTTCCATACAAACTGGATGCTCGGATGTATATATACACAACGTGAACTGTGGACCAGGGCATGGAATCAGCATTGGAGGTTTAGGAAAGGGCAACACGAAAGCATGTGTTTCAAACATTACCGTTCGAGACATCATGATGCACAACACGATGAATGGTGTCAGAGTCAAGACATGGCAGGGTGGATCAGGGTCTGTTCAGGGAGTGCTGTTCTCAAACATTCAAGTTTCTGAAGTTCAACTCCCCATTGTGATTGACCAATTCTACTGTGACAAAACCACATGCAAAAACCAAACATCAGCTGTGGCTCTATCGGGGATCACCTACGAGAGAATAAGAGGAACTTACACCGTAAAACCAGTACACTTCGCCTGTAGTGACAGCCTACCCTGCGTAGATGTAACACTAAATGGTATACAGCTAAAGCCATTGCAAGAAAAGTATCACCTGTACAACCCCTTCTGCTGGCAGACGTTTGGGGAGTTGAGAACCCCAACAGTCCCACCCATTGGTTGTTTACGGCTTGGCAAGCCATCAGGCAACCAAATAAATTCAAATCATGATGCGTGTTGA

Protein Analysis

529

Amino Acids

57.2

Weight (kDa)

9.12

Isoelectric Point (pI)

47.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pect-lyase_RHGA_epim PF12708 114 - 159 2.9e-06 Rhamnogalacturonase A/epimerase, pectate lyase-like
Glyco_hydro_28 PF00295 143 - 222 3e-09 Glycosyl hydrolases family 28
Glyco_hydro_28 PF00295 262 - 480 7.3e-70 Glycosyl hydrolases family 28
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Orthologous Genes (Group: OG0014180)

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 339
AccB1I GGYRCC 2 cut(s) 232, 280
AccB7I CCANNNNNTGG 2 cut(s) 1076, 1523
AccBSI CCGCTC 1 cut(s) 768
AccI GTMKAC 1 cut(s) 1429
AclWI GGATC 3 cut(s) 208, 1207, 1340
AcoI YGGCCR 1 cut(s) 178
AcsI RAATTY 5 cut(s) 67, 590, 872, 948, 1564
AcuI CTGAAG 1 cut(s) 1266
AdeI CACNNNGTG 1 cut(s) 1057
AfaI GTAC 3 cut(s) 618, 1377, 1466
AfiI CCNNNNNNNGG 5 cut(s) 229, 323, 1076, 1479, 1523
AgsI TTSAA 7 cut(s) 138, 590, 820, 1128, 1238, 1253, 1569
AjnI CCWGG 4 cut(s) 560, 885, 922, 1069
AluBI AGCT 9 cut(s) 305, 401, 523, 601, 703, 723, 763, 1316, 1435
AluI AGCT 9 cut(s) 305, 401, 523, 601, 703, 723, 763, 1316, 1435
Alw21I GWGCWC 1 cut(s) 978
Alw26I GTCTC 3 cut(s) 672, 919, 1137
AlwI GGATC 3 cut(s) 208, 1207, 1340
AlwNI CAGNNNCTG 1 cut(s) 1208
AoxI GGCC 6 cut(s) 94, 178, 408, 472, 490, 571
ApaI GGGCCC 1 cut(s) 476
ApeKI GCWGC 4 cut(s) 168, 401, 413, 577
ApoI RAATTY 5 cut(s) 67, 590, 872, 948, 1564
AspLEI GCGC 1 cut(s) 544
AspS9I GGNCC 7 cut(s) 326, 408, 472, 473, 491, 898, 1067
AsuHPI GGTGA 3 cut(s) 944, 1327, 1451
AvaII GGWCC 3 cut(s) 326, 898, 1067
BaeGI GKGCMC 1 cut(s) 476
BanI GGYRCC 2 cut(s) 232, 280
BanII GRGCYC 1 cut(s) 476
BarI GAAGNNNNNNTAC 2 cut(s) 1457, 1489
Bbv12I GWGCWC 1 cut(s) 978
BbvI GCAGC 4 cut(s) 180, 388, 400, 564
BccI CCATC 9 cut(s) 226, 244, 292, 485, 521, 632, 873, 938, 1555
BceAI ACGGC 3 cut(s) 178, 385, 1550
BcgI CGANNNNNNTGC 2 cut(s) 781, 815
BciT130I CCWGG 4 cut(s) 562, 887, 924, 1071
BcoDI GTCTC 3 cut(s) 672, 919, 1137
BfaI CTAG 4 cut(s) 38, 347, 524, 539
BfmI CTRYAG 2 cut(s) 684, 1387
BfoI RGCGCY 1 cut(s) 545
BisI GCNGC 9 cut(s) 166, 169, 172, 175, 178, 402, 411, 414, 578
BlpI GCTNAGC 1 cut(s) 764
BlsI GCNGC 9 cut(s) 167, 170, 173, 176, 179, 403, 412, 415, 579
Bme1390I CCNGG 4 cut(s) 562, 887, 924, 1071
Bme18I GGWCC 3 cut(s) 326, 898, 1067
BmgT120I GGNCC 7 cut(s) 326, 408, 472, 473, 491, 898, 1067
BmiI GGNNCC 6 cut(s) 234, 282, 327, 328, 474, 475
BmrFI CCNGG 4 cut(s) 562, 887, 924, 1071
BmsI GCATC 7 cut(s) 33, 128, 440, 792, 1022, 1143, 1567
BpmI CTGGAG 1 cut(s) 941
Bpu10I CCTNAGC 1 cut(s) 360
Bpu1102I GCTNAGC 1 cut(s) 764
BsaI GGTCTC 1 cut(s) 672
BsaJI CCNNGG 7 cut(s) 160, 561, 653, 886, 922, 923, 1070
BsaXI ACNNNNNCTCC 2 cut(s) 882, 912
Bsc4I CCNNNNNNNGG 5 cut(s) 229, 323, 1076, 1479, 1523
Bse118I RCCGGY 2 cut(s) 96, 452
Bse1I ACTGG 2 cut(s) 1033, 1373
Bse3DI GCAATG 3 cut(s) 574, 587, 1442
BseBI CCWGG 4 cut(s) 562, 887, 924, 1071
BseDI CCNNGG 7 cut(s) 160, 561, 653, 886, 922, 923, 1070
BseGI GGATG 5 cut(s) 119, 218, 978, 1037, 1045
BseLI CCNNNNNNNGG 5 cut(s) 229, 323, 1076, 1479, 1523
BseMI GCAATG 3 cut(s) 574, 587, 1442
BseMII CTCAG 1 cut(s) 755
BseNI ACTGG 2 cut(s) 1033, 1373
BseSI GKGCMC 1 cut(s) 476
BseXI GCAGC 4 cut(s) 180, 388, 400, 564
BsgI GTGCAG 1 cut(s) 780
BshFI GGCC 6 cut(s) 96, 180, 410, 474, 492, 573
BshNI GGYRCC 2 cut(s) 232, 280
BsiHKAI GWGCWC 1 cut(s) 978
BsiSI CCGG 3 cut(s) 97, 453, 489
BslFI GGGAC 5 cut(s) 312, 904, 918, 941, 1499
BslI CCNNNNNNNGG 5 cut(s) 229, 323, 1076, 1479, 1523
BsmAI GTCTC 3 cut(s) 672, 919, 1137
BsmBI CGTCTC 1 cut(s) 919
BsmFI GGGAC 5 cut(s) 312, 904, 918, 941, 1499
BsmI GAATGC 1 cut(s) 392
BsnI GGCC 6 cut(s) 96, 180, 410, 474, 492, 573
Bso31I GGTCTC 1 cut(s) 672
Bsp120I GGGCCC 1 cut(s) 472
Bsp1286I GDGCHC 2 cut(s) 476, 978
Bsp1407I TGTACA 1 cut(s) 1464
Bsp143I GATC 3 cut(s) 200, 1199, 1332
Bsp1720I GCTNAGC 1 cut(s) 764
BspANI GGCC 6 cut(s) 96, 180, 410, 474, 492, 573
BspCNI CTCAG 1 cut(s) 756
BspHI TCATGA 2 cut(s) 1149, 1573
BspLI GGNNCC 6 cut(s) 234, 282, 327, 328, 474, 475
BspPI GGATC 3 cut(s) 208, 1207, 1340
BspT107I GGYRCC 2 cut(s) 232, 280
BspTNI GGTCTC 1 cut(s) 672
BsrBI CCGCTC 1 cut(s) 768
BsrDI GCAATG 3 cut(s) 574, 587, 1442
BsrFI RCCGGY 2 cut(s) 96, 452
BsrGI TGTACA 1 cut(s) 1464
BsrI ACTGG 2 cut(s) 1033, 1373
BssAI RCCGGY 2 cut(s) 96, 452
BssECI CCNNGG 7 cut(s) 160, 561, 653, 886, 922, 923, 1070
BssMI GATC 3 cut(s) 200, 1199, 1332
BssNAI GTATAC 1 cut(s) 1430
BssT1I CCWWGG 1 cut(s) 653
Bst1107I GTATAC 1 cut(s) 1430
Bst2UI CCWGG 4 cut(s) 562, 887, 924, 1071
Bst4CI ACNGT 9 cut(s) 616, 829, 932, 1013, 1064, 1138, 1283, 1366, 1513
Bst6I CTCTTC 2 cut(s) 85, 637
BstAPI GCANNNNNTGC 1 cut(s) 125
BstAUI TGTACA 1 cut(s) 1464
BstC8I GCNNGC 7 cut(s) 79, 98, 575, 740, 761, 1481, 1544
BstDEI CTNAG 2 cut(s) 360, 764
BstDSI CCRYGG 1 cut(s) 160
BstF5I GGATG 5 cut(s) 119, 218, 978, 1037, 1045
BstH2I RGCGCY 1 cut(s) 545
BstHHI GCGC 1 cut(s) 544
BstKTI GATC 3 cut(s) 203, 1202, 1335
BstMAI GTCTC 3 cut(s) 672, 919, 1137
BstMBI GATC 3 cut(s) 200, 1199, 1332
BstNI CCWGG 4 cut(s) 562, 887, 924, 1071
BstNSI RCATGY 2 cut(s) 1122, 1299
BstSCI CCNGG 4 cut(s) 560, 885, 922, 1069
BstSFI CTRYAG 2 cut(s) 684, 1387
BstSLI GKGCMC 1 cut(s) 476
BstV1I GCAGC 4 cut(s) 180, 388, 400, 564
BstZ17I GTATAC 1 cut(s) 1430
BsuRI GGCC 6 cut(s) 96, 180, 410, 474, 492, 573
BtgI CCRYGG 1 cut(s) 160
BtgZI GCGATG 1 cut(s) 270
BtsCI GGATG 5 cut(s) 119, 218, 978, 1037, 1045
BtsI GCAGTG 1 cut(s) 797
BtsIMutI CAGTG 1 cut(s) 797
Cac8I GCNNGC 7 cut(s) 79, 98, 575, 740, 761, 1481, 1544
CaiI CAGNNNCTG 1 cut(s) 1208
CciI TCATGA 2 cut(s) 1149, 1573
CfoI GCGC 1 cut(s) 544
Cfr10I RCCGGY 2 cut(s) 96, 452
Cfr13I GGNCC 7 cut(s) 326, 408, 472, 473, 491, 898, 1067
CseI GACGC 2 cut(s) 83, 901
Csp6I GTAC 3 cut(s) 617, 1376, 1465
CspCI CAANNNNNGTGG 2 cut(s) 976, 1011
CviQI GTAC 3 cut(s) 617, 1376, 1465
DdeI CTNAG 2 cut(s) 360, 764
DpnI GATC 3 cut(s) 202, 1201, 1334
DpnII GATC 3 cut(s) 200, 1199, 1332
DraIII CACNNNGTG 1 cut(s) 1057
EaeI YGGCCR 1 cut(s) 178
Eam1104I CTCTTC 2 cut(s) 85, 637
EarI CTCTTC 2 cut(s) 85, 637
Eco130I CCWWGG 1 cut(s) 653
Eco24I GRGCYC 1 cut(s) 476
Eco31I GGTCTC 1 cut(s) 672
Eco47I GGWCC 3 cut(s) 326, 898, 1067
Eco57I CTGAAG 1 cut(s) 1266
EcoO109I RGGNCCY 2 cut(s) 326, 473
EcoRI GAATTC 1 cut(s) 948
EcoRII CCWGG 4 cut(s) 560, 885, 922, 1069
EcoT14I CCWWGG 1 cut(s) 653
EcoT38I GRGCYC 1 cut(s) 476
ErhI CCWWGG 1 cut(s) 653
Esp3I CGTCTC 1 cut(s) 919
FalI AAGNNNNNCTT 2 cut(s) 1342, 1374
FaqI GGGAC 5 cut(s) 312, 904, 918, 941, 1499
FauI CCCGC 2 cut(s) 747, 761
FblI GTMKAC 1 cut(s) 1429
Fnu4HI GCNGC 9 cut(s) 166, 169, 172, 175, 178, 402, 411, 414, 578
FokI GGATG 5 cut(s) 106, 205, 965, 1044, 1052
FriOI GRGCYC 1 cut(s) 476
Fsp4HI GCNGC 9 cut(s) 166, 169, 172, 175, 178, 402, 411, 414, 578
FspBI CTAG 4 cut(s) 38, 347, 524, 539
GlaI GCGC 1 cut(s) 543
GluI GCNGC 9 cut(s) 166, 169, 172, 175, 178, 402, 411, 414, 578
GsuI CTGGAG 1 cut(s) 941
HaeII RGCGCY 1 cut(s) 545
HaeIII GGCC 6 cut(s) 96, 180, 410, 474, 492, 573
HapII CCGG 3 cut(s) 97, 453, 489
HgaI GACGC 2 cut(s) 83, 901
HhaI GCGC 1 cut(s) 544
Hin6I GCGC 1 cut(s) 542
HinP1I GCGC 1 cut(s) 542
HinfI GANTC 5 cut(s) 551, 609, 844, 1080, 1179
HpaII CCGG 3 cut(s) 97, 453, 489
HphI GGTGA 3 cut(s) 944, 1327, 1451
Hpy166II GTNNAC 5 cut(s) 1060, 1067, 1378, 1430, 1532
Hpy188I TCNGA 5 cut(s) 20, 849, 1039, 1178, 1246
Hpy188III TCNNGA 5 cut(s) 958, 1142, 1150, 1183, 1574
Hpy8I GTNNAC 5 cut(s) 1060, 1067, 1378, 1430, 1532
Hpy99I CGWCG 4 cut(s) 67, 77, 383, 550
HpyAV CCTTC 2 cut(s) 316, 1483
HpyCH4III ACNGT 9 cut(s) 616, 829, 932, 1013, 1064, 1138, 1283, 1366, 1513
HpyCH4IV ACGT 2 cut(s) 1056, 1487
HpyCH4V TGCA 8 cut(s) 47, 81, 404, 580, 797, 1156, 1299, 1447
HpyF3I CTNAG 2 cut(s) 360, 764
HpySE526I ACGT 2 cut(s) 1056, 1487
HspAI GCGC 1 cut(s) 542
KflI GGGWCCC 1 cut(s) 326
KroI GCCGGC 1 cut(s) 96
KroNI GCCGGC 1 cut(s) 98
Kzo9I GATC 3 cut(s) 200, 1199, 1332
LmnI GCTCC 1 cut(s) 310
Lsp1109I GCAGC 4 cut(s) 180, 388, 400, 564
LweI GCATC 7 cut(s) 33, 128, 440, 792, 1022, 1143, 1567
MaeI CTAG 4 cut(s) 38, 347, 524, 539
MaeII ACGT 2 cut(s) 1056, 1487
MaeIII GTNAC 7 cut(s) 248, 365, 823, 829, 1283, 1391, 1414
MalI GATC 3 cut(s) 202, 1201, 1334
MbiI CCGCTC 1 cut(s) 768
MboI GATC 3 cut(s) 200, 1199, 1332
MboII GAAGA 2 cut(s) 102, 654
MhlI GDGCHC 2 cut(s) 476, 978
MluCI AATT 7 cut(s) 42, 67, 590, 872, 948, 1274, 1564
MlyI GAGTC 2 cut(s) 545, 1188
MmeI TCCRAC 1 cut(s) 754
MroNI GCCGGC 1 cut(s) 96
MslI CAYNNNNRTG 2 cut(s) 32, 1151
MspA1I CMGCKG 4 cut(s) 171, 192, 413, 1316
MspI CCGG 3 cut(s) 97, 453, 489
MspR9I CCNGG 4 cut(s) 562, 887, 924, 1071
Mva1269I GAATGC 1 cut(s) 392
MvaI CCWGG 4 cut(s) 562, 887, 924, 1071
NaeI GCCGGC 1 cut(s) 98
NdeII GATC 3 cut(s) 200, 1199, 1332
NgoMIV GCCGGC 1 cut(s) 96
NlaIV GGNNCC 6 cut(s) 234, 282, 327, 328, 474, 475
NmuCI GTSAC 3 cut(s) 823, 1283, 1391
NspI RCATGY 2 cut(s) 1122, 1299
PagI TCATGA 2 cut(s) 1149, 1573
PasI CCCWGGG 1 cut(s) 923
PcsI WCGNNNNNNNCGW 1 cut(s) 375
PctI GAATGC 1 cut(s) 392
PdiI GCCGGC 1 cut(s) 98
PfeI GAWTC 3 cut(s) 609, 844, 1080
PflMI CCANNNNNTGG 2 cut(s) 1076, 1523
PkrI GCNGC 9 cut(s) 167, 170, 173, 176, 179, 403, 412, 415, 579
PleI GAGTC 2 cut(s) 545, 1187
PpsI GAGTC 2 cut(s) 545, 1187
PpuMI RGGWCCY 1 cut(s) 326
PsiI TTATAA 1 cut(s) 339
Psp5II RGGWCCY 1 cut(s) 326
Psp6I CCWGG 4 cut(s) 560, 885, 922, 1069
PspGI CCWGG 4 cut(s) 560, 885, 922, 1069
PspN4I GGNNCC 6 cut(s) 234, 282, 327, 328, 474, 475
PspOMI GGGCCC 1 cut(s) 472
PspPI GGNCC 7 cut(s) 326, 408, 472, 473, 491, 898, 1067
PspPPI RGGWCCY 1 cut(s) 326
PstNI CAGNNNCTG 1 cut(s) 1208
PvuII CAGCTG 1 cut(s) 1316
RsaI GTAC 3 cut(s) 618, 1377, 1466
RsaNI GTAC 3 cut(s) 617, 1376, 1465
RseI CAYNNNNRTG 2 cut(s) 32, 1151
SatI GCNGC 9 cut(s) 166, 169, 172, 175, 178, 402, 411, 414, 578
Sau3AI GATC 3 cut(s) 200, 1199, 1332
Sau96I GGNCC 7 cut(s) 326, 408, 472, 473, 491, 898, 1067
SchI GAGTC 2 cut(s) 545, 1188
ScrFI CCNGG 4 cut(s) 562, 887, 924, 1071
SduI GDGCHC 2 cut(s) 476, 978
SfaNI GCATC 7 cut(s) 33, 128, 440, 792, 1022, 1143, 1567
SfcI CTRYAG 2 cut(s) 684, 1387
SinI GGWCC 3 cut(s) 326, 898, 1067
SmiMI CAYNNNNRTG 2 cut(s) 32, 1151
Sse9I AATT 7 cut(s) 42, 67, 590, 872, 948, 1274, 1564
SspMI CTAG 4 cut(s) 38, 347, 524, 539
StyD4I CCNGG 4 cut(s) 560, 885, 922, 1069
StyI CCWWGG 1 cut(s) 653
TaaI ACNGT 9 cut(s) 616, 829, 932, 1013, 1064, 1138, 1283, 1366, 1513
TaiI ACGT 2 cut(s) 1059, 1490
TaqI TCGA 5 cut(s) 65, 72, 426, 876, 1141
TasI AATT 7 cut(s) 42, 67, 590, 872, 948, 1274, 1564
TatI WGTACW 3 cut(s) 616, 1375, 1464
TauI GCSGC 5 cut(s) 168, 174, 177, 180, 413
TfiI GAWTC 3 cut(s) 609, 844, 1080
TscAI CASTG 1 cut(s) 804
TseFI GTSAC 3 cut(s) 823, 1283, 1391
TseI GCWGC 4 cut(s) 168, 401, 413, 577
Tsp45I GTSAC 3 cut(s) 823, 1283, 1391
TspDTI ATGAA 2 cut(s) 22, 1181
TspGWI ACGGA 2 cut(s) 563, 621
TspRI CASTG 1 cut(s) 804
Van91I CCANNNNNTGG 2 cut(s) 1076, 1523
VpaK11BI GGWCC 3 cut(s) 326, 898, 1067
XapI RAATTY 5 cut(s) 67, 590, 872, 948, 1564
XceI RCATGY 2 cut(s) 1122, 1299
XcmI CCANNNNNNNNNTGG 1 cut(s) 194
XmiI GTMKAC 1 cut(s) 1429
XspI CTAG 4 cut(s) 38, 347, 524, 539
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.