MD16G1097700.v1.1

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0015960
Physical Location & Seq
Forward (+)
6823600 .. 6826326
2727 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1097700.v1.1.491

Sequence Viewer

Length: 1401 bp
ATGAAGAGAAGTAGAAATTCATCTACTCTCCTTTTTTTATTTTTGATTGTCTGTGTCACATTTTTTACAGTTTCAATTGACGCAAGAACTCATCACAACAAGAAGAGCAAACCACATAATGAACATCATGAAGGGAAGGGTGGCAGTCATAAATCACATTTTCCTGGCCCTGCTCCAGCCCCTCTTCCCCCCTCTGGTTCTCGAACAACTTTCCCCGTCCTGTCATTCGGAGCCAAGGGTGATGGAGTCTCCGATGATTCAAAGGCACTCTTAGCAGCATGGAAAGCTGCCTGCAGGGTTAAGGGGGCAACTGTCGAAATCCCATCAGGATTCAAGTTCCTCGTCCACCCCATAACACTTGAAGGCGCGTGTATGCCTGACCTTGTTCTTCAGATAGATGGAACTCTCTTGGCTCCTTCAAAAGTAGGTTCCTGGCCAGATTCCGGTTTGTTACAATGGATAAACTTAAAATACGTCCATAACTTCACCATCCAGGGCACTGGTAGTGTTGATGGCCAGGGCTTTGACTGGTGGAGCAAGTCCAACCACGTCCCGAAATCGAAACCCACTGCTTTAAGATTTTATTCAGGCTTTGACGTCACAGTTCGCGATATCAAAATTTTAAACAGCCCTCAGTGCCATCTAAAATTTGACAACTCTGCGTCGATCAAAGTTGACAACATTACCATAACTTCACCAGAGAATAGCCCAAACACTGACGGCATTCACTTGCAAAACACCAAAAATGTGGAAATTCAGCATTCTACTATTGGCTGTGGAGACGACTGTGTGTCCATACAAACAGGCTGCGATAATGTTCATGTTCATCATATTAAATGTGGCCCTGGCCATGGCATAAGTCTAGGAGGACTTGGAGGAAACCAAAGTACAGCATGTGTCTCAAACATTATTGTGAACGACATTTCATTCAACAACACTCAATTAGGAGTTAGGATCAAGACTTGGCCGGGCGGACGGGGATCTGTGAAGAATGTATCATTTTCGAATATCGAGGTTTCCAATGTGGGCAAACCTATAGTGATAGACCAGAACTATTGTGACAACAAATTAAAAAAAATTATGAGCAAGAAAAACCATAGAGGAGCTGTAGCAATCTCAGGTGTTAAATACGAACGGATTACCGGGAATTATACACAGCAGCCTATTCTTCTAAATTGTAGCAGTGACACTCCATGCACAGATGTGGACATTATTGATATTCAGCTCAAGCCAATCTCTGAGAAGCTGAGTTCATCACCTGGACTTGATTGGTGTCAAAACTCTTACGGGAAGACAAAAGCTCCATTGGTTCCTTCAAGCATAGACTACTGCTTGGGAAGAGATGGGAGTCCACTACTCAAGAATATAGCAAAGTCACACGAGAAGAATATTATTTGTTAG

Protein Analysis

467

Amino Acids

50.39

Weight (kDa)

8.97

Isoelectric Point (pI)

40.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 103 - 413 1.3e-78 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0015960)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G26610
fragaria_vesca FvH4_4g26050
malus_domestica MD16G1097700.v1.1
prunus_persica Prupe.1G249200_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0433511
rosa_laevigata RLG00000006749
rosa_multiflora Rmu_sc0000312.1_g000004
rosa_roxburghii Rroxscaffold_5G00375030
rosa_rugosa Rorug04G0269200
rosa_samantha Rh4AG323800 Rh4BG331800 Rh4CG347100 Rh4DG328300
rosa_wichuraiana Rw0G020120 Rw4G028060

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 600
AccII CGCG 2 cut(s) 368, 609
AciI CCGC 1 cut(s) 972
AclWI GGATC 2 cut(s) 962, 988
AcoI YGGCCR 4 cut(s) 434, 514, 847, 965
AcsI RAATTY 4 cut(s) 16, 618, 647, 753
AcuI CTGAAG 1 cut(s) 374
AcyI GRCGYC 1 cut(s) 597
AfaI GTAC 1 cut(s) 889
AfiI CCNNNNNNNGG 3 cut(s) 194, 443, 851
AgsI TTSAA 7 cut(s) 75, 261, 334, 362, 420, 931, 1317
AhdI GACNNNNNGTC 1 cut(s) 790
AjiI CACGTC 1 cut(s) 550
AjnI CCWGG 6 cut(s) 163, 431, 492, 516, 844, 1258
AleI CACNNNNGTG 1 cut(s) 1202
AluBI AGCT 5 cut(s) 287, 1106, 1225, 1246, 1301
AluI AGCT 5 cut(s) 287, 1106, 1225, 1246, 1301
Alw26I GTCTC 3 cut(s) 253, 774, 904
AlwI GGATC 2 cut(s) 962, 988
AoxI GGCC 6 cut(s) 166, 434, 514, 841, 847, 965
ApeKI GCWGC 4 cut(s) 275, 287, 807, 1159
ApoI RAATTY 4 cut(s) 16, 618, 647, 753
AspLEI GCGC 1 cut(s) 368
AspS9I GGNCC 2 cut(s) 167, 842
AsuC2I CCSGG 2 cut(s) 969, 1144
AsuHPI GGTGA 4 cut(s) 251, 478, 687, 1248
AsuII TTCGAA 1 cut(s) 1004
BaeGI GKGCMC 1 cut(s) 500
BalI TGGCCA 3 cut(s) 436, 516, 849
BauI CACGAG 1 cut(s) 1379
BbsI GAAGAC 1 cut(s) 1298
BbvI GCAGC 4 cut(s) 274, 287, 794, 1171
BccI CCATC 7 cut(s) 236, 331, 392, 497, 506, 648, 1337
BceAI ACGGC 1 cut(s) 736
BciT130I CCWGG 6 cut(s) 165, 433, 494, 518, 846, 1260
BcnI CCSGG 2 cut(s) 969, 1144
BcoDI GTCTC 3 cut(s) 253, 774, 904
BfaI CTAG 1 cut(s) 863
BfmI CTRYAG 3 cut(s) 292, 1035, 1107
BisI GCNGC 4 cut(s) 276, 288, 808, 1160
BlsI GCNGC 4 cut(s) 277, 289, 809, 1161
Bme1390I CCNGG 8 cut(s) 165, 433, 494, 518, 846, 969, 1144, 1260
BmeRI GACNNNNNGTC 1 cut(s) 790
BmgBI CACGTC 1 cut(s) 550
BmgT120I GGNCC 2 cut(s) 167, 842
BmiI GGNNCC 4 cut(s) 232, 414, 430, 1311
BmrFI CCNGG 8 cut(s) 165, 433, 494, 518, 846, 969, 1144, 1260
BpiI GAAGAC 1 cut(s) 1298
BpmI CTGGAG 1 cut(s) 159
Bpu14I TTCGAA 1 cut(s) 1004
BpuEI CTTGAG 2 cut(s) 1211, 1343
BpuMI CCSGG 2 cut(s) 969, 1144
BsaHI GRCGYC 1 cut(s) 597
BsaJI CCNNGG 5 cut(s) 234, 493, 517, 844, 850
BsaWI WCCGGW 1 cut(s) 443
BsaXI ACNNNNNCTCC 2 cut(s) 1285, 1315
Bsc4I CCNNNNNNNGG 3 cut(s) 194, 443, 851
Bse1I ACTGG 2 cut(s) 505, 533
BseBI CCWGG 6 cut(s) 165, 433, 494, 518, 846, 1260
BseDI CCNNGG 5 cut(s) 234, 493, 517, 844, 850
BseGI GGATG 1 cut(s) 489
BseLI CCNNNNNNNGG 3 cut(s) 194, 443, 851
BseMII CTCAG 4 cut(s) 647, 1131, 1230, 1238
BseNI ACTGG 2 cut(s) 505, 533
BseRI GAGGAG 1 cut(s) 1116
BseSI GKGCMC 1 cut(s) 500
BseXI GCAGC 4 cut(s) 274, 287, 794, 1171
Bsh1236I CGCG 2 cut(s) 368, 609
BshFI GGCC 6 cut(s) 168, 436, 516, 843, 849, 967
BsiSI CCGG 3 cut(s) 444, 968, 1143
BslFI GGGAC 1 cut(s) 536
BslI CCNNNNNNNGG 3 cut(s) 194, 443, 851
BsmAI GTCTC 3 cut(s) 253, 774, 904
BsmBI CGTCTC 1 cut(s) 774
BsmFI GGGAC 1 cut(s) 536
BsmI GAATGC 2 cut(s) 723, 760
BsnI GGCC 6 cut(s) 168, 436, 516, 843, 849, 967
Bsp119I TTCGAA 1 cut(s) 1004
Bsp1286I GDGCHC 1 cut(s) 500
Bsp143I GATC 3 cut(s) 666, 954, 980
Bsp19I CCATGG 1 cut(s) 850
Bsp68I TCGCGA 1 cut(s) 609
BspACI CCGC 1 cut(s) 972
BspANI GGCC 6 cut(s) 168, 436, 516, 843, 849, 967
BspCNI CTCAG 4 cut(s) 646, 1130, 1231, 1239
BspFNI CGCG 2 cut(s) 368, 609
BspHI TCATGA 1 cut(s) 127
BspLI GGNNCC 4 cut(s) 232, 414, 430, 1311
BspMAI CTGCAG 1 cut(s) 296
BspPI GGATC 2 cut(s) 962, 988
BspQI GCTCTTC 1 cut(s) 98
BspT104I TTCGAA 1 cut(s) 1004
BsrI ACTGG 2 cut(s) 505, 533
BssECI CCNNGG 5 cut(s) 234, 493, 517, 844, 850
BssMI GATC 3 cut(s) 666, 954, 980
BssNI GRCGYC 1 cut(s) 597
BssSI CACGAG 1 cut(s) 1379
BssT1I CCWWGG 2 cut(s) 234, 850
Bst2BI CACGAG 1 cut(s) 1379
Bst2UI CCWGG 6 cut(s) 165, 433, 494, 518, 846, 1260
Bst4CI ACNGT 4 cut(s) 70, 313, 604, 788
Bst6I CTCTTC 3 cut(s) 98, 189, 1333
BstACI GRCGYC 1 cut(s) 597
BstBI TTCGAA 1 cut(s) 1004
BstC8I GCNNGC 1 cut(s) 292
BstDEI CTNAG 5 cut(s) 271, 633, 1117, 1239, 1247
BstDSI CCRYGG 1 cut(s) 850
BstF5I GGATG 1 cut(s) 489
BstFNI CGCG 2 cut(s) 368, 609
BstHHI GCGC 1 cut(s) 368
BstKTI GATC 3 cut(s) 669, 957, 983
BstMAI GTCTC 3 cut(s) 253, 774, 904
BstMBI GATC 3 cut(s) 666, 954, 980
BstMWI GCNNNNNNNGC 3 cut(s) 272, 284, 636
BstNI CCWGG 6 cut(s) 165, 433, 494, 518, 846, 1260
BstNSI RCATGY 1 cut(s) 897
BstSCI CCNGG 8 cut(s) 163, 431, 492, 516, 844, 967, 1142, 1258
BstSFI CTRYAG 3 cut(s) 292, 1035, 1107
BstSLI GKGCMC 1 cut(s) 500
BstUI CGCG 2 cut(s) 368, 609
BstV1I GCAGC 4 cut(s) 274, 287, 794, 1171
BstV2I GAAGAC 1 cut(s) 1298
BstX2I RGATCY 1 cut(s) 980
BstXI CCANNNNNNTGG 2 cut(s) 500, 748
BstYI RGATCY 1 cut(s) 980
BsuRI GGCC 6 cut(s) 168, 436, 516, 843, 849, 967
BtgI CCRYGG 1 cut(s) 850
BtrI CACGTC 1 cut(s) 550
BtsCI GGATG 1 cut(s) 489
BtsI GCAGTG 2 cut(s) 567, 1189
BtsIMutI CAGTG 5 cut(s) 498, 567, 641, 714, 1189
BtuMI TCGCGA 1 cut(s) 609
Cac8I GCNNGC 1 cut(s) 292
CciI TCATGA 1 cut(s) 127
CfoI GCGC 1 cut(s) 368
Cfr13I GGNCC 2 cut(s) 167, 842
CseI GACGC 2 cut(s) 89, 651
Csp6I GTAC 1 cut(s) 888
CviAII CATG 6 cut(s) 128, 279, 821, 851, 894, 1194
CviQI GTAC 1 cut(s) 888
DdeI CTNAG 5 cut(s) 271, 633, 1117, 1239, 1247
DpnI GATC 3 cut(s) 668, 956, 982
DpnII GATC 3 cut(s) 666, 954, 980
DraI TTTAAA 1 cut(s) 624
DriI GACNNNNNGTC 1 cut(s) 790
EaeI YGGCCR 4 cut(s) 434, 514, 847, 965
Eam1104I CTCTTC 3 cut(s) 98, 189, 1333
Eam1105I GACNNNNNGTC 1 cut(s) 790
EarI CTCTTC 3 cut(s) 98, 189, 1333
EciI GGCGGA 1 cut(s) 987
Eco130I CCWWGG 2 cut(s) 234, 850
Eco32I GATATC 1 cut(s) 613
Eco57I CTGAAG 1 cut(s) 374
EcoRII CCWGG 6 cut(s) 163, 431, 492, 516, 844, 1258
EcoRV GATATC 1 cut(s) 613
EcoT14I CCWWGG 2 cut(s) 234, 850
ErhI CCWWGG 2 cut(s) 234, 850
Esp3I CGTCTC 1 cut(s) 774
FaeI CATG 6 cut(s) 131, 282, 824, 854, 897, 1197
FalI AAGNNNNNCTT 2 cut(s) 254, 286
FaqI GGGAC 1 cut(s) 536
FatI CATG 6 cut(s) 127, 278, 820, 850, 893, 1193
Fnu4HI GCNGC 4 cut(s) 276, 288, 808, 1160
FokI GGATG 1 cut(s) 476
Fsp4HI GCNGC 4 cut(s) 276, 288, 808, 1160
FspBI CTAG 1 cut(s) 863
GlaI GCGC 1 cut(s) 367
GluI GCNGC 4 cut(s) 276, 288, 808, 1160
GsuI CTGGAG 1 cut(s) 159
HaeIII GGCC 6 cut(s) 168, 436, 516, 843, 849, 967
HapII CCGG 3 cut(s) 444, 968, 1143
HgaI GACGC 2 cut(s) 89, 651
HhaI GCGC 1 cut(s) 368
Hin1I GRCGYC 1 cut(s) 597
Hin1II CATG 6 cut(s) 131, 282, 824, 854, 897, 1197
Hin6I GCGC 1 cut(s) 366
HinP1I GCGC 1 cut(s) 366
HincII GTYRAC 1 cut(s) 676
HindII GTYRAC 1 cut(s) 676
HinfI GANTC 5 cut(s) 246, 257, 330, 440, 1348
HpaII CCGG 3 cut(s) 444, 968, 1143
HphI GGTGA 4 cut(s) 251, 478, 687, 1248
Hpy166II GTNNAC 5 cut(s) 346, 676, 916, 1207, 1352
Hpy188I TCNGA 4 cut(s) 230, 253, 393, 1240
Hpy188III TCNNGA 7 cut(s) 128, 201, 327, 553, 608, 958, 1360
Hpy8I GTNNAC 5 cut(s) 346, 676, 916, 1207, 1352
Hpy99I CGWCG 1 cut(s) 667
HpyAV CCTTC 5 cut(s) 125, 130, 356, 426, 1323
HpyCH4III ACNGT 4 cut(s) 70, 313, 604, 788
HpyCH4IV ACGT 3 cut(s) 474, 549, 597
HpyCH4V TGCA 3 cut(s) 294, 733, 1197
HpyF10VI GCNNNNNNNGC 3 cut(s) 272, 284, 636
HpyF3I CTNAG 5 cut(s) 271, 633, 1117, 1239, 1247
HpySE526I ACGT 3 cut(s) 474, 549, 597
Hsp92I GRCGYC 1 cut(s) 597
Hsp92II CATG 6 cut(s) 131, 282, 824, 854, 897, 1197
HspAI GCGC 1 cut(s) 366
Kzo9I GATC 3 cut(s) 666, 954, 980
LguI GCTCTTC 1 cut(s) 98
LmnI GCTCC 6 cut(s) 178, 230, 418, 534, 1103, 1306
Lsp1109I GCAGC 4 cut(s) 274, 287, 794, 1171
MaeI CTAG 1 cut(s) 863
MaeII ACGT 3 cut(s) 474, 549, 597
MaeIII GTNAC 6 cut(s) 55, 450, 598, 1058, 1184, 1374
MalI GATC 3 cut(s) 668, 956, 982
MboI GATC 3 cut(s) 666, 954, 980
MboII GAAGA 9 cut(s) 16, 115, 176, 380, 1000, 1160, 1303, 1350, 1396
MfeI CAATTG 1 cut(s) 75
MflI RGATCY 1 cut(s) 980
MhlI GDGCHC 1 cut(s) 500
MlsI TGGCCA 3 cut(s) 436, 516, 849
MluNI TGGCCA 3 cut(s) 436, 516, 849
MlyI GAGTC 2 cut(s) 255, 1357
MmeI TCCRAC 1 cut(s) 567
MnlI CCTC 8 cut(s) 192, 202, 350, 642, 860, 869, 1006, 1094
Mox20I TGGCCA 3 cut(s) 436, 516, 849
MscI TGGCCA 3 cut(s) 436, 516, 849
MseI TTAA 7 cut(s) 300, 467, 575, 623, 834, 1070, 1125
MslI CAYNNNNRTG 2 cut(s) 911, 1202
Msp20I TGGCCA 3 cut(s) 436, 516, 849
MspI CCGG 3 cut(s) 444, 968, 1143
MspR9I CCNGG 8 cut(s) 165, 433, 494, 518, 846, 969, 1144, 1260
MunI CAATTG 1 cut(s) 75
Mva1269I GAATGC 2 cut(s) 723, 760
MvaI CCWGG 6 cut(s) 165, 433, 494, 518, 846, 1260
MvnI CGCG 2 cut(s) 368, 609
MwoI GCNNNNNNNGC 3 cut(s) 272, 284, 636
NciI CCSGG 2 cut(s) 969, 1144
NcoI CCATGG 1 cut(s) 850
NdeII GATC 3 cut(s) 666, 954, 980
NlaIII CATG 6 cut(s) 131, 282, 824, 854, 897, 1197
NlaIV GGNNCC 4 cut(s) 232, 414, 430, 1311
NmuCI GTSAC 5 cut(s) 55, 598, 1058, 1184, 1374
NruI TCGCGA 1 cut(s) 609
NspI RCATGY 1 cut(s) 897
NspV TTCGAA 1 cut(s) 1004
OliI CACNNNNGTG 1 cut(s) 1202
PagI TCATGA 1 cut(s) 127
PciSI GCTCTTC 1 cut(s) 98
PctI GAATGC 2 cut(s) 723, 760
PfeI GAWTC 3 cut(s) 257, 330, 440
PkrI GCNGC 4 cut(s) 277, 289, 809, 1161
PleI GAGTC 2 cut(s) 254, 1356
PpsI GAGTC 2 cut(s) 254, 1356
Psp6I CCWGG 6 cut(s) 163, 431, 492, 516, 844, 1258
PspGI CCWGG 6 cut(s) 163, 431, 492, 516, 844, 1258
PspN4I GGNNCC 4 cut(s) 232, 414, 430, 1311
PspPI GGNCC 2 cut(s) 167, 842
PstI CTGCAG 1 cut(s) 296
PsuI RGATCY 1 cut(s) 980
RruI TCGCGA 1 cut(s) 609
RsaI GTAC 1 cut(s) 889
RsaNI GTAC 1 cut(s) 888
RseI CAYNNNNRTG 2 cut(s) 911, 1202
SapI GCTCTTC 1 cut(s) 98
SaqAI TTAA 7 cut(s) 300, 467, 575, 623, 834, 1070, 1125
SatI GCNGC 4 cut(s) 276, 288, 808, 1160
Sau3AI GATC 3 cut(s) 666, 954, 980
Sau96I GGNCC 2 cut(s) 167, 842
SbfI CCTGCAGG 1 cut(s) 296
SchI GAGTC 2 cut(s) 255, 1357
ScrFI CCNGG 8 cut(s) 165, 433, 494, 518, 846, 969, 1144, 1260
SdaI CCTGCAGG 1 cut(s) 296
SduI GDGCHC 1 cut(s) 500
SfcI CTRYAG 3 cut(s) 292, 1035, 1107
SfuI TTCGAA 1 cut(s) 1004
SmiMI CAYNNNNRTG 2 cut(s) 911, 1202
SmlI CTYRAG 2 cut(s) 1226, 1358
SmoI CTYRAG 2 cut(s) 1226, 1358
Sse8387I CCTGCAGG 1 cut(s) 296
SsiI CCGC 1 cut(s) 972
SspI AATATT 1 cut(s) 1390
SspMI CTAG 1 cut(s) 863
StyD4I CCNGG 8 cut(s) 163, 431, 492, 516, 844, 967, 1142, 1258
StyI CCWWGG 2 cut(s) 234, 850
TaaI ACNGT 4 cut(s) 70, 313, 604, 788
TaiI ACGT 3 cut(s) 477, 552, 600
TaqI TCGA 6 cut(s) 202, 315, 560, 665, 1004, 1011
TatI WGTACW 1 cut(s) 887
TfiI GAWTC 3 cut(s) 257, 330, 440
Tru1I TTAA 7 cut(s) 300, 467, 575, 623, 834, 1070, 1125
Tru9I TTAA 7 cut(s) 300, 467, 575, 623, 834, 1070, 1125
TscAI CASTG 5 cut(s) 505, 574, 641, 721, 1189
TseFI GTSAC 5 cut(s) 55, 598, 1058, 1184, 1374
TseI GCWGC 4 cut(s) 275, 287, 807, 1159
Tsp45I GTSAC 5 cut(s) 55, 598, 1058, 1184, 1374
TspDTI ATGAA 8 cut(s) 9, 17, 135, 144, 809, 815, 915, 1242
TspGWI ACGGA 1 cut(s) 1150
TspRI CASTG 5 cut(s) 505, 574, 641, 721, 1189
XapI RAATTY 4 cut(s) 16, 618, 647, 753
XceI RCATGY 1 cut(s) 897
XspI CTAG 1 cut(s) 863
ZraI GACGTC 1 cut(s) 598
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.