MD15G1065500.v1.1

Polygalacturonase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0000579
Physical Location & Seq
Reverse (-)
4564006 .. 4565280
1275 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1065500.v1.1.491

Sequence Viewer

Length: 1122 bp
ATGTCGATCACCAACACACTCGTTTGCATTTTAGTTTTCTTTCTCGCTTCATCGTTGTTTATTGGCATCGGACAAGGCCACAAAATATTAGACGTAACCAAATACGGTGCTATGGGAGATGGACGGGCAGACGACTCCCAAGCTTTTTTTAAAGCGTGGAAAGATTTATGTGAAGGAAATAATGACGCTACGGATGACATACCGATACTTATTGTGCCGGAGGGGAAAACGTACTTATTGCAACGTATAAAGTTTGAAGGTCCATGCAACTCGAAGAGCGTTCACGTTCAGATTCTAGGGAATTTATTGGCTCCTGTGCGTGGTGCATGGAAAGAATGCGATTCGGGGGACTGGCTAAGTTTTTCAAACATTGAAAACCTAATGCTCGACGGCTCAGGAAAAATCGACGGCCAAGGGGCTGCGTGGTGGAGCACCAGCCAGTACAATGCGAGATCGCGCAAACTCTTGGCAAATAACGACTGCAAACCAAATAAGGCATTGCAGTTCCACAACTGTCAAAACCTTAAGCTCAGCGGACTGACTTTTCTGAACAGCCCGCAAGCGCATATTGGTATAAATAGTTGTGACAATGCAGATGTCTCAGATTTGAACATACATGCGCCGGAAGACAGTCCAAACACTGATGGTATTGACATCTCTTCCTCGACCCATGTCACCATTCGCAACTCGTTTATCGGAACAGGCGATGATTGTATCGCCATTGGCGACGGGTGTTCCTTTCTCTACATCACCAACATTGCGTGCGGACCAGGCCATGGAATTAGCGTTGGAAGCTTAGGAGAAGATGGAGCTAGTAATAAAGTGGACAACATATACGTGAAAGATTGTAGTTTTACTGGAACTACAAACGGAGCGAGAATAAAAACGTGGCAGGGCGGCTCCGGGTATGCGAGGAACATCACGTTTGAGAGGATCAAACTTGACAGAGCCAAATACCCTATCATTATTGATCAGTACTATTGCAATGGGGAACACAATTGCAAAAGTCAGTCGTCGGCCGTGGTGGTGGCGGATGTGACGTACAACGATTTTGAAGGCACTTCTGCGACGGATGAGGCGATTAAACTCAACTGTGATAAATGCCAGCGGTCGGGGATATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00040 ko01100 map00040 map01100
Pfam Domains
Protein Families
Glyco_hydro_28

Protein Analysis

374

Amino Acids

40.32

Weight (kDa)

5.26

Isoelectric Point (pI)

34.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 70 - 369 1e-86 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: OG0000579)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G32370 AT4G32375 AT4G32380 AT4G32380
fragaria_vesca FvH4_2g29242 FvH4_2g29270 FvH4_4g07180 FvH4_4g07190 FvH4_6g32320 FvH4_6g35100
malus_domestica MD03G1260700.v1.1 MD03G1260800.v1.1 MD09G1203400.v1.1 MD15G1065500.v1.1 MD15G1124200.v1.1 MD15G1124300.v1.1
prunus_persica Prupe.1G247300_v2.0.a1 Prupe.1G247300_v2.0.a1 Prupe.1G479600_v2.0.a1 Prupe.1G479700_v2.0.a1 Prupe.3G043600_v2.0.a1 Prupe.4G130600_v2.0.a1 Prupe.7G064200_v2.0.a1
pyrus_communis pycom03g20830 pycom15g06200
rosa_chinensis RchiOBHm_Chr2g0140421 RchiOBHm_Chr2g0146281 RchiOBHm_Chr3g0458021 RchiOBHm_Chr3g0481551 RchiOBHm_Chr4g0399361 RchiOBHm_Chr4g0399381 RchiOBHm_Chr4g0399391 RchiOBHm_Chr4g0399401 RchiOBHm_Chr4g0399411 RchiOBHm_Chr4g0399471
rosa_laevigata RLG00000009265 RLG00000009272 RLG00000011536 RLG00000011537 RLG00000019863 RLG00000020193 RLG00000023386
rosa_multiflora Rmu_sc0000384.1_g000011 Rmu_sc0002800.1_g000011 Rmu_sc0002800.1_g000012 Rmu_sc0017309.1_g000001 Rmu_sc0022824.1_g000003
rosa_roxburghii Rroxscaffold_153G00436780 Rroxscaffold_2G00100180 Rroxscaffold_5G00344320 Rroxscaffold_5G00344370 Rroxscaffold_6G00400330 Rroxscaffold_6G00421350 Rroxscaffold_7G00169940 Rroxscaffold_7G00169950
rosa_rugosa Rorug02G0362600 Rorug02G0394100 Rorug03G0024300 Rorug03G0192500 Rorug04G0016900 Rorug04G0017100 Rorug06G0278700
rosa_samantha Rh2CG399600 Rh2CG437200 Rh3AG084800 Rh3BG087600 Rh3CG088100 Rh3DG088500 Rh3DG270800 Rh4BG091900 Rh4BG092300 Rh5AG287300 Rh6DG389600
rosa_wichuraiana Rw0G012400 Rw2G033880 Rw2G036760 Rw3G007220 Rw3G021790 Rw4G007750 Rw4G007770 Rw4G007810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 776
AccII CGCG 1 cut(s) 457
AciI CCGC 6 cut(s) 534, 557, 765, 897, 1031, 1108
AclWI GGATC 1 cut(s) 941
AcoI YGGCCR 2 cut(s) 409, 1017
AcsI RAATTY 1 cut(s) 301
AfaI GTAC 4 cut(s) 233, 443, 977, 1043
AfiI CCNNNNNNNGG 3 cut(s) 320, 776, 1111
AflII CTTAAG 1 cut(s) 524
AgsI TTSAA 5 cut(s) 257, 366, 374, 610, 1055
AjnI CCWGG 1 cut(s) 769
AluBI AGCT 4 cut(s) 143, 529, 795, 812
AluI AGCT 4 cut(s) 143, 529, 795, 812
Alw21I GWGCWC 1 cut(s) 434
Alw26I GTCTC 1 cut(s) 604
AlwI GGATC 1 cut(s) 941
AoxI GGCC 4 cut(s) 76, 409, 772, 1017
ApeKI GCWGC 1 cut(s) 419
ApoI RAATTY 1 cut(s) 301
AspLEI GCGC 3 cut(s) 459, 565, 622
AspS9I GGNCC 2 cut(s) 260, 767
AsuC2I CCSGG 1 cut(s) 904
AsuHPI GGTGA 2 cut(s) 667, 742
AvaII GGWCC 2 cut(s) 260, 767
BbsI GAAGAC 1 cut(s) 633
Bbv12I GWGCWC 1 cut(s) 434
BbvI GCAGC 1 cut(s) 406
BccI CCATC 3 cut(s) 113, 638, 800
BceAI ACGGC 3 cut(s) 406, 424, 1004
BciT130I CCWGG 1 cut(s) 771
BclI TGATCA 1 cut(s) 970
BcnI CCSGG 1 cut(s) 904
BcoDI GTCTC 1 cut(s) 604
BfaI CTAG 2 cut(s) 296, 813
BfrI CTTAAG 1 cut(s) 524
BisI GCNGC 2 cut(s) 420, 898
BlpI GCTNAGC 1 cut(s) 530
BlsI GCNGC 2 cut(s) 421, 899
BmcAI AGTACT 1 cut(s) 977
Bme1390I CCNGG 2 cut(s) 771, 904
Bme18I GGWCC 2 cut(s) 260, 767
BmgT120I GGNCC 2 cut(s) 260, 767
BmiI GGNNCC 2 cut(s) 312, 901
BmrFI CCNGG 2 cut(s) 771, 904
BmsI GCATC 1 cut(s) 75
BoxI GACNNNNGTC 1 cut(s) 671
BpiI GAAGAC 1 cut(s) 633
Bpu10I CCTNAGC 2 cut(s) 394, 796
Bpu1102I GCTNAGC 1 cut(s) 530
BpuMI CCSGG 1 cut(s) 904
BsaAI YACGTR 1 cut(s) 838
BsaJI CCNNGG 3 cut(s) 412, 775, 1020
Bsc4I CCNNNNNNNGG 3 cut(s) 320, 776, 1111
Bse1I ACTGG 3 cut(s) 356, 439, 862
Bse3DI GCAATG 3 cut(s) 497, 756, 991
BseBI CCWGG 1 cut(s) 771
BseDI CCNNGG 3 cut(s) 412, 775, 1020
BseGI GGATG 3 cut(s) 199, 1039, 1078
BseLI CCNNNNNNNGG 3 cut(s) 320, 776, 1111
BseMI GCAATG 3 cut(s) 497, 756, 991
BseMII CTCAG 3 cut(s) 408, 544, 615
BseNI ACTGG 3 cut(s) 356, 439, 862
BseX3I CGGCCG 1 cut(s) 1017
BseXI GCAGC 1 cut(s) 406
Bsh1236I CGCG 1 cut(s) 457
Bsh1285I CGRYCG 2 cut(s) 1020, 1112
BshFI GGCC 4 cut(s) 78, 411, 774, 1019
BsiEI CGRYCG 2 cut(s) 1020, 1112
BsiHKAI GWGCWC 1 cut(s) 434
BsiSI CCGG 3 cut(s) 218, 623, 903
BslFI GGGAC 1 cut(s) 362
BslI CCNNNNNNNGG 3 cut(s) 320, 776, 1111
BsmAI GTCTC 1 cut(s) 604
BsmFI GGGAC 1 cut(s) 362
BsmI GAATGC 1 cut(s) 341
BsnI GGCC 4 cut(s) 78, 411, 774, 1019
Bsp1286I GDGCHC 1 cut(s) 434
Bsp143I GATC 4 cut(s) 6, 452, 933, 970
Bsp1720I GCTNAGC 1 cut(s) 530
Bsp19I CCATGG 1 cut(s) 775
BspACI CCGC 6 cut(s) 534, 557, 765, 897, 1031, 1108
BspANI GGCC 4 cut(s) 78, 411, 774, 1019
BspCNI CTCAG 3 cut(s) 407, 543, 614
BspFNI CGCG 1 cut(s) 457
BspLI GGNNCC 2 cut(s) 312, 901
BspPI GGATC 1 cut(s) 941
BspQI GCTCTTC 1 cut(s) 269
BspTI CTTAAG 1 cut(s) 524
BsrDI GCAATG 3 cut(s) 497, 756, 991
BsrI ACTGG 3 cut(s) 356, 439, 862
BssECI CCNNGG 3 cut(s) 412, 775, 1020
BssMI GATC 4 cut(s) 6, 452, 933, 970
BssT1I CCWWGG 2 cut(s) 412, 775
Bst2UI CCWGG 1 cut(s) 771
Bst4CI ACNGT 4 cut(s) 107, 515, 632, 1094
Bst6I CTCTTC 2 cut(s) 269, 664
BstAFI CTTAAG 1 cut(s) 524
BstBAI YACGTR 1 cut(s) 838
BstC8I GCNNGC 4 cut(s) 557, 561, 763, 1106
BstDEI CTNAG 5 cut(s) 356, 394, 530, 601, 796
BstDSI CCRYGG 2 cut(s) 775, 1020
BstF5I GGATG 3 cut(s) 199, 1039, 1078
BstFNI CGCG 1 cut(s) 457
BstHHI GCGC 3 cut(s) 459, 565, 622
BstKTI GATC 4 cut(s) 9, 455, 936, 973
BstMAI GTCTC 1 cut(s) 604
BstMBI GATC 4 cut(s) 6, 452, 933, 970
BstMCI CGRYCG 2 cut(s) 1020, 1112
BstMWI GCNNNNNNNGC 2 cut(s) 771, 792
BstNI CCWGG 1 cut(s) 771
BstNSI RCATGY 1 cut(s) 620
BstPAI GACNNNNGTC 1 cut(s) 671
BstSCI CCNGG 2 cut(s) 769, 902
BstUI CGCG 1 cut(s) 457
BstV1I GCAGC 1 cut(s) 406
BstV2I GAAGAC 1 cut(s) 633
BstZI CGGCCG 1 cut(s) 1017
BsuRI GGCC 4 cut(s) 78, 411, 774, 1019
BtgI CCRYGG 2 cut(s) 775, 1020
BtgZI GCGATG 1 cut(s) 720
BtsCI GGATG 3 cut(s) 199, 1039, 1078
BtsIMutI CAGTG 1 cut(s) 639
Cac8I GCNNGC 4 cut(s) 557, 561, 763, 1106
CfoI GCGC 3 cut(s) 459, 565, 622
Cfr13I GGNCC 2 cut(s) 260, 767
CseI GACGC 1 cut(s) 194
Csp6I GTAC 4 cut(s) 232, 442, 976, 1042
CviAII CATG 5 cut(s) 264, 327, 617, 671, 776
CviQI GTAC 4 cut(s) 232, 442, 976, 1042
DdeI CTNAG 5 cut(s) 356, 394, 530, 601, 796
DpnI GATC 4 cut(s) 8, 454, 935, 972
DpnII GATC 4 cut(s) 6, 452, 933, 970
DraI TTTAAA 1 cut(s) 151
EaeI YGGCCR 2 cut(s) 409, 1017
EagI CGGCCG 1 cut(s) 1017
Eam1104I CTCTTC 2 cut(s) 269, 664
EarI CTCTTC 2 cut(s) 269, 664
EciI GGCGGA 1 cut(s) 1046
EclXI CGGCCG 1 cut(s) 1017
Eco130I CCWWGG 2 cut(s) 412, 775
Eco47I GGWCC 2 cut(s) 260, 767
Eco52I CGGCCG 1 cut(s) 1017
EcoRII CCWGG 1 cut(s) 769
EcoT14I CCWWGG 2 cut(s) 412, 775
ErhI CCWWGG 2 cut(s) 412, 775
FaeI CATG 5 cut(s) 267, 330, 620, 674, 779
FaqI GGGAC 1 cut(s) 362
FatI CATG 5 cut(s) 263, 326, 616, 670, 775
FauI CCCGC 1 cut(s) 564
FbaI TGATCA 1 cut(s) 970
Fnu4HI GCNGC 2 cut(s) 420, 898
FokI GGATG 3 cut(s) 206, 1046, 1085
Fsp4HI GCNGC 2 cut(s) 420, 898
FspBI CTAG 2 cut(s) 296, 813
GlaI GCGC 3 cut(s) 458, 564, 621
GluI GCNGC 2 cut(s) 420, 898
HaeIII GGCC 4 cut(s) 78, 411, 774, 1019
HapII CCGG 3 cut(s) 218, 623, 903
HgaI GACGC 1 cut(s) 194
HhaI GCGC 3 cut(s) 459, 565, 622
Hin1II CATG 5 cut(s) 267, 330, 620, 674, 779
Hin6I GCGC 3 cut(s) 457, 563, 620
HinP1I GCGC 3 cut(s) 457, 563, 620
HindIII AAGCTT 2 cut(s) 141, 793
HinfI GANTC 3 cut(s) 134, 292, 341
HpaII CCGG 3 cut(s) 218, 623, 903
HphI GGTGA 2 cut(s) 667, 742
Hpy166II GTNNAC 2 cut(s) 283, 826
Hpy188I TCNGA 5 cut(s) 71, 291, 549, 604, 698
Hpy188III TCNNGA 1 cut(s) 396
Hpy8I GTNNAC 2 cut(s) 283, 826
Hpy99I CGWCG 5 cut(s) 392, 410, 731, 1018, 1072
HpyAV CCTTC 3 cut(s) 167, 251, 1049
HpyCH4III ACNGT 4 cut(s) 107, 515, 632, 1094
HpyCH4IV ACGT 8 cut(s) 93, 230, 244, 285, 837, 887, 923, 1040
HpyCH4V TGCA 9 cut(s) 27, 241, 267, 326, 483, 502, 593, 984, 1002
HpyF10VI GCNNNNNNNGC 2 cut(s) 771, 792
HpyF3I CTNAG 5 cut(s) 356, 394, 530, 601, 796
HpySE526I ACGT 8 cut(s) 93, 230, 244, 285, 837, 887, 923, 1040
Hsp92II CATG 5 cut(s) 267, 330, 620, 674, 779
HspAI GCGC 3 cut(s) 457, 563, 620
Ksp22I TGATCA 1 cut(s) 970
Kzo9I GATC 4 cut(s) 6, 452, 933, 970
LguI GCTCTTC 1 cut(s) 269
LmnI GCTCC 5 cut(s) 316, 429, 809, 872, 905
Lsp1109I GCAGC 1 cut(s) 406
LweI GCATC 1 cut(s) 75
MaeI CTAG 2 cut(s) 296, 813
MaeII ACGT 8 cut(s) 93, 230, 244, 285, 837, 887, 923, 1040
MaeIII GTNAC 4 cut(s) 94, 584, 673, 1036
MalI GATC 4 cut(s) 8, 454, 935, 972
MboI GATC 4 cut(s) 6, 452, 933, 970
MboII GAAGA 4 cut(s) 286, 638, 651, 815
MfeI CAATTG 1 cut(s) 997
MhlI GDGCHC 1 cut(s) 434
MluCI AATT 3 cut(s) 301, 780, 997
MlyI GAGTC 1 cut(s) 128
MmeI TCCRAC 1 cut(s) 769
MnlI CCTC 5 cut(s) 214, 673, 906, 924, 1069
MseI TTAA 3 cut(s) 150, 525, 1083
MslI CAYNNNNRTG 1 cut(s) 836
MspA1I CMGCKG 2 cut(s) 534, 1108
MspCI CTTAAG 1 cut(s) 524
MspI CCGG 3 cut(s) 218, 623, 903
MspR9I CCNGG 2 cut(s) 771, 904
MunI CAATTG 1 cut(s) 997
Mva1269I GAATGC 1 cut(s) 341
MvaI CCWGG 1 cut(s) 771
MvnI CGCG 1 cut(s) 457
MwoI GCNNNNNNNGC 2 cut(s) 771, 792
NciI CCSGG 1 cut(s) 904
NcoI CCATGG 1 cut(s) 775
NdeII GATC 4 cut(s) 6, 452, 933, 970
NlaIII CATG 5 cut(s) 267, 330, 620, 674, 779
NlaIV GGNNCC 2 cut(s) 312, 901
NmuCI GTSAC 3 cut(s) 584, 673, 1036
NspI RCATGY 1 cut(s) 620
PciSI GCTCTTC 1 cut(s) 269
PcsI WCGNNNNNNNCGW 3 cut(s) 702, 723, 1076
PctI GAATGC 1 cut(s) 341
PfeI GAWTC 2 cut(s) 292, 341
PflMI CCANNNNNTGG 1 cut(s) 776
PkrI GCNGC 2 cut(s) 421, 899
PleI GAGTC 1 cut(s) 128
PpsI GAGTC 1 cut(s) 128
Ppu21I YACGTR 1 cut(s) 838
PshAI GACNNNNGTC 1 cut(s) 671
Psp6I CCWGG 1 cut(s) 769
PspGI CCWGG 1 cut(s) 769
PspN4I GGNNCC 2 cut(s) 312, 901
PspPI GGNCC 2 cut(s) 260, 767
RsaI GTAC 4 cut(s) 233, 443, 977, 1043
RsaNI GTAC 4 cut(s) 232, 442, 976, 1042
RseI CAYNNNNRTG 1 cut(s) 836
SapI GCTCTTC 1 cut(s) 269
SaqAI TTAA 3 cut(s) 150, 525, 1083
SatI GCNGC 2 cut(s) 420, 898
Sau3AI GATC 4 cut(s) 6, 452, 933, 970
Sau96I GGNCC 2 cut(s) 260, 767
ScaI AGTACT 1 cut(s) 977
SchI GAGTC 1 cut(s) 128
ScrFI CCNGG 2 cut(s) 771, 904
SduI GDGCHC 1 cut(s) 434
SfaNI GCATC 1 cut(s) 75
SinI GGWCC 2 cut(s) 260, 767
SmiMI CAYNNNNRTG 1 cut(s) 836
SmlI CTYRAG 1 cut(s) 524
SmoI CTYRAG 1 cut(s) 524
Sse9I AATT 3 cut(s) 301, 780, 997
SsiI CCGC 6 cut(s) 534, 557, 765, 897, 1031, 1108
SspI AATATT 1 cut(s) 87
SspMI CTAG 2 cut(s) 296, 813
StyD4I CCNGG 2 cut(s) 769, 902
StyI CCWWGG 2 cut(s) 412, 775
TaaI ACNGT 4 cut(s) 107, 515, 632, 1094
TaiI ACGT 8 cut(s) 96, 233, 247, 288, 840, 890, 926, 1043
TaqI TCGA 5 cut(s) 5, 272, 387, 405, 665
TasI AATT 3 cut(s) 301, 780, 997
TatI WGTACW 2 cut(s) 441, 975
TauI GCSGC 1 cut(s) 900
TfiI GAWTC 2 cut(s) 292, 341
Tru1I TTAA 3 cut(s) 150, 525, 1083
Tru9I TTAA 3 cut(s) 150, 525, 1083
TscAI CASTG 1 cut(s) 646
TseFI GTSAC 3 cut(s) 584, 673, 1036
TseI GCWGC 1 cut(s) 419
Tsp45I GTSAC 3 cut(s) 584, 673, 1036
TspDTI ATGAA 1 cut(s) 39
TspGWI ACGGA 3 cut(s) 206, 885, 1085
TspRI CASTG 1 cut(s) 646
Van91I CCANNNNNTGG 1 cut(s) 776
Vha464I CTTAAG 1 cut(s) 524
VpaK11BI GGWCC 2 cut(s) 260, 767
XapI RAATTY 1 cut(s) 301
XceI RCATGY 1 cut(s) 620
XspI CTAG 2 cut(s) 296, 813
ZrmI AGTACT 1 cut(s) 977
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.