MD09G1120200.v1.1

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0000434
Physical Location & Seq
Reverse (-)
9306883 .. 9309252
2370 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1120200.v1.1.491

Sequence Viewer

Length: 1203 bp
ATGGATTTGAAACTGAAAAATATCTTGCCAATGTTTGTGTCCTTGTTGTTAGTATCCACATCTAATGCCCAATCTGGTGTCTATGATGTAACAAGTGCAAATTATGGTGGAAAAGCAAACTCTGATATTACCCAGGCTTTGAGCAAAGCTTGGACAGATGCATGTGCATCGACATCGGCAAGTAAAATTGTGGTTCCAAGTGGGACATACAAGTTTGTAGGGGCAACTTTCAAAGGACCATGCAAAGCCCCTATTGAGTTTCAGCTTCAGGGCACATTGCAGGCTCCAGAAGATGGCAGCCAACTCCCAAAAGCAGATACTTGGATAGGTTTTGAGCGCATTGATGGGCTCACCTTATCCGGTGGTGGAACTTTCGATGGCCTAGGAGCAACTGCTTGGAAGCAAAATGACTGCAACAAAAACAAAAATTGCAAATCTATTGCTATCAATCTGAGATTCAATTTTGTCACCAATTCCATAATTCGAGACATAACAACAAAAGACAGCAAAAATTTCCACGTAAATCTTTTGGGTTGCAACAATGTGGCATTCCAACATTTTACCGTCTCAGCGCCTAAAGAAAGCATCAATACCGATGGAATTCATATCGGACGTTCAACTGGGATCAACATCACAGATACGACCATTGGAACTGGGGATGATTGCATCTCTATTGGTGATGGCACCAAGCAACTCCATGTAACCAACGTTACTTGTGGACCAGGCCACGGCATAAGCATCGGGAGCCTCGGAAAGTATGAGAATGAAGAACCTGTGTCTGGAATATTTATCAAGAACTGCACAATTACAAATACAGATAATGGTGTGAGGATCAAAACATGGCCTGCTTCCCCTGCAAATGGCGTTGTCTCAGATGTTCACTTTGAGGATATTATCATGGATAATGTTAAAAACCCTGTCATCATAGACCAAGAGTATTGCCCATATAATCAGTGCACACTTCAGGTTCCATCCAAAGTTAAGATCAGCAATGTCAGCTTCAAGAACATAAAGGGTTCATCTTCAACCCCAGTTGGTATTAAGCTTGTATGCAGTGGAGGGCTGCCATGTGAGAATGTGGAATTGAGTAACATTGATCTCACATACACTGGAAAAGAAGGCTCTATTACGTCTGAATGTAAACATATCAAGCCCACCATCAACAACGTGGCGCAGCCTCTTGCTTGTGCTACATCTTCTTGA
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

401

Amino Acids

42.54

Weight (kDa)

6.64

Isoelectric Point (pI)

31.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 55 - 384 2e-103 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: OG0000434)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07820 AT3G07830 AT3G07840 AT5G48140
fragaria_vesca FvH4_1g26811 FvH4_2g02350 FvH4_6g41380 FvH4_6g41380 FvH4_6g41380 FvH4_6g41430 FvH4_6g41740 FvH4_6g43060 FvH4_7g02910
malus_domestica MD00G1117700.v1.1 MD00G1117800.v1.1 MD00G1117900.v1.1 MD09G1120000.v1.1 MD09G1120100.v1.1 MD09G1120200.v1.1 MD09G1120300.v1.1 MD12G1142000.v1.1 MD13G1218300.v1.1 MD13G1220100.v1.1 MD13G1220200.v1.1 MD16G1223300.v1.1 MD16G1223500.v1.1 MD16G1223600.v1.1 MD17G1110800.v1.1
prunus_persica Prupe.1G044900_v2.0.a1 Prupe.1G045000_v2.0.a1 Prupe.1G167700_v2.0.a1 Prupe.2G005600_v2.0.a1 Prupe.2G005700_v2.0.a1 Prupe.2G008600_v2.0.a1 Prupe.2G009200_v2.0.a1 Prupe.2G009300_v2.0.a1 Prupe.2G009400_v2.0.a1 Prupe.3G109100_v2.0.a1 Prupe.3G109200_v2.0.a1 Prupe.3G109400_v2.0.a1 Prupe.3G109500_v2.0.a1 Prupe.3G109700_v2.0.a1 Prupe.3G203300_v2.0.a1 Prupe.3G203600_v2.0.a1 Prupe.3G203900_v2.0.a1 Prupe.3G204000_v2.0.a1 Prupe.3G204100_v2.0.a1 Prupe.3G204200_v2.0.a1
pyrus_communis pycom09g04480 pycom09g04490 pycom09g04500 pycom12g13680
rosa_chinensis RchiOBHm_Chr1g0323871 RchiOBHm_Chr2g0156921 RchiOBHm_Chr2g0159061 RchiOBHm_Chr6g0246271 RchiOBHm_Chr6g0246281
rosa_laevigata RLG00000015266 RLG00000020954 RLG00000021134 RLG00000030246 RLG00000030250 RLG00000030295
rosa_multiflora Rmu_co8098394.1_g000001 Rmu_co8404671.1_g000001 Rmu_sc0000507.1_g000021 Rmu_sc0001066.1_g000011 Rmu_sc0001066.1_g000015 Rmu_sc0009451.1_g000001 Rmu_ssc0000408.1_g000005
rosa_roxburghii Rroxscaffold_2G00090810 Rroxscaffold_2G00092580 Rroxscaffold_4G00326280 Rroxscaffold_7G00214720
rosa_rugosa Rorug01G0040400 Rorug02G0457200 Rorug05G0520000
rosa_samantha Rh1AG057700 Rh1BG048800 Rh1CG059100 Rh1DG063000 Rh2AG522900 Rh2BG536200 Rh2BG553200 Rh2CG507800 Rh2DG545200 Rh6AG034100 Rh6BG029300 Rh6DG028700
rosa_wichuraiana Rw0G023110 Rw1G004930 Rw2G043170 Rw2G044730 Rw6G002760 Rw6G002920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 683
AccB7I CCANNNNNTGG 1 cut(s) 293
AclI AACGTT 1 cut(s) 708
AclWI GGATC 2 cut(s) 632, 839
AcsI RAATTY 2 cut(s) 511, 600
AcuI CTGAAG 2 cut(s) 251, 947
AfiI CCNNNNNNNGG 4 cut(s) 293, 728, 779, 860
AgsI TTSAA 6 cut(s) 10, 232, 460, 618, 1003, 1026
AjnI CCWGG 2 cut(s) 132, 721
AluBI AGCT 4 cut(s) 149, 265, 999, 1045
AluI AGCT 4 cut(s) 149, 265, 999, 1045
Alw21I GWGCWC 1 cut(s) 959
Alw26I GTCTC 3 cut(s) 480, 571, 874
Alw44I GTGCAC 1 cut(s) 955
AlwI GGATC 2 cut(s) 632, 839
AoxI GGCC 3 cut(s) 379, 724, 842
ApaLI GTGCAC 1 cut(s) 955
ApeKI GCWGC 3 cut(s) 297, 1063, 1174
ApoI RAATTY 2 cut(s) 511, 600
AspA2I CCTAGG 1 cut(s) 382
AspLEI GCGC 3 cut(s) 339, 574, 1174
AspS9I GGNCC 2 cut(s) 236, 719
AsuHPI GGTGA 3 cut(s) 343, 460, 689
AvaII GGWCC 2 cut(s) 236, 719
AvrII CCTAGG 1 cut(s) 382
BaeGI GKGCMC 2 cut(s) 275, 959
BanI GGYRCC 1 cut(s) 683
BanII GRGCYC 1 cut(s) 351
Bbv12I GWGCWC 1 cut(s) 959
BbvI GCAGC 3 cut(s) 309, 1050, 1186
BccI CCATC 7 cut(s) 287, 338, 371, 590, 674, 979, 1166
BceAI ACGGC 1 cut(s) 745
BcgI CGANNNNNNTGC 6 cut(s) 150, 156, 184, 190, 721, 755
BciT130I CCWGG 2 cut(s) 134, 723
BciVI GTATCC 1 cut(s) 64
BcoDI GTCTC 3 cut(s) 480, 571, 874
BfaI CTAG 1 cut(s) 383
BfoI RGCGCY 1 cut(s) 575
BfuI GTATCC 1 cut(s) 64
BisI GCNGC 3 cut(s) 298, 1064, 1175
BlnI CCTAGG 1 cut(s) 382
BlsI GCNGC 3 cut(s) 299, 1065, 1176
Bme1390I CCNGG 2 cut(s) 134, 723
Bme18I GGWCC 2 cut(s) 236, 719
BmgT120I GGNCC 2 cut(s) 236, 719
BmiI GGNNCC 5 cut(s) 195, 285, 685, 746, 969
BmrFI CCNGG 2 cut(s) 134, 723
BmrI ACTGGG 3 cut(s) 630, 663, 1025
BmsI GCATC 5 cut(s) 148, 176, 594, 675, 747
BmuI ACTGGG 3 cut(s) 630, 663, 1025
BpmI CTGGAG 1 cut(s) 270
BsaAI YACGTR 1 cut(s) 520
BsaBI GATNNNNATC 1 cut(s) 629
BsaJI CCNNGG 4 cut(s) 132, 382, 727, 748
BsaWI WCCGGW 1 cut(s) 359
Bsc4I CCNNNNNNNGG 4 cut(s) 293, 728, 779, 860
Bse1I ACTGG 4 cut(s) 625, 658, 1031, 1114
Bse3DI GCAATG 2 cut(s) 275, 997
Bse8I GATNNNNATC 1 cut(s) 629
BseBI CCWGG 2 cut(s) 134, 723
BseDI CCNNGG 4 cut(s) 132, 382, 727, 748
BseGI GGATG 2 cut(s) 664, 971
BseJI GATNNNNATC 1 cut(s) 629
BseLI CCNNNNNNNGG 4 cut(s) 293, 728, 779, 860
BseMI GCAATG 2 cut(s) 275, 997
BseMII CTCAG 3 cut(s) 443, 582, 885
BseNI ACTGG 4 cut(s) 625, 658, 1031, 1114
BseSI GKGCMC 2 cut(s) 275, 959
BseXI GCAGC 3 cut(s) 309, 1050, 1186
BsgI GTGCAG 1 cut(s) 784
BshFI GGCC 3 cut(s) 381, 726, 844
BshNI GGYRCC 1 cut(s) 683
BsiHKAI GWGCWC 1 cut(s) 959
BsiSI CCGG 1 cut(s) 360
BslFI GGGAC 1 cut(s) 217
BslI CCNNNNNNNGG 4 cut(s) 293, 728, 779, 860
BsmAI GTCTC 3 cut(s) 480, 571, 874
BsmBI CGTCTC 1 cut(s) 571
BsmFI GGGAC 1 cut(s) 217
BsmI GAATGC 1 cut(s) 548
BsnI GGCC 3 cut(s) 381, 726, 844
Bsp1286I GDGCHC 3 cut(s) 275, 351, 959
Bsp143I GATC 4 cut(s) 624, 831, 984, 1096
BspANI GGCC 3 cut(s) 381, 726, 844
BspCNI CTCAG 3 cut(s) 444, 581, 884
BspLI GGNNCC 5 cut(s) 195, 285, 685, 746, 969
BspPI GGATC 2 cut(s) 632, 839
BspT107I GGYRCC 1 cut(s) 683
BsrDI GCAATG 2 cut(s) 275, 997
BsrI ACTGG 4 cut(s) 625, 658, 1031, 1114
BssECI CCNNGG 4 cut(s) 132, 382, 727, 748
BssMI GATC 4 cut(s) 624, 831, 984, 1096
BssT1I CCWWGG 1 cut(s) 382
Bst2UI CCWGG 2 cut(s) 134, 723
Bst4CI ACNGT 1 cut(s) 565
BstBAI YACGTR 1 cut(s) 520
BstC8I GCNNGC 2 cut(s) 282, 846
BstDEI CTNAG 3 cut(s) 452, 568, 871
BstDSI CCRYGG 1 cut(s) 727
BstF5I GGATG 2 cut(s) 664, 971
BstH2I RGCGCY 1 cut(s) 575
BstHHI GCGC 3 cut(s) 339, 574, 1174
BstKTI GATC 4 cut(s) 627, 834, 987, 1099
BstMAI GTCTC 3 cut(s) 480, 571, 874
BstMBI GATC 4 cut(s) 624, 831, 984, 1096
BstMWI GCNNNNNNNGC 3 cut(s) 744, 854, 996
BstNI CCWGG 2 cut(s) 134, 723
BstNSI RCATGY 1 cut(s) 165
BstSCI CCNGG 2 cut(s) 132, 721
BstSLI GKGCMC 2 cut(s) 275, 959
BstV1I GCAGC 3 cut(s) 309, 1050, 1186
BsuI GTATCC 1 cut(s) 64
BsuRI GGCC 3 cut(s) 381, 726, 844
BtgI CCRYGG 1 cut(s) 727
BtsCI GGATG 2 cut(s) 664, 971
BtsI GCAGTG 1 cut(s) 1060
BtsIMutI CAGTG 3 cut(s) 959, 1060, 1107
Cac8I GCNNGC 2 cut(s) 282, 846
CfoI GCGC 3 cut(s) 339, 574, 1174
Cfr13I GGNCC 2 cut(s) 236, 719
CviAII CATG 6 cut(s) 162, 240, 698, 840, 898, 1068
DdeI CTNAG 3 cut(s) 452, 568, 871
DpnI GATC 4 cut(s) 626, 833, 986, 1098
DpnII GATC 4 cut(s) 624, 831, 984, 1096
Eco130I CCWWGG 1 cut(s) 382
Eco24I GRGCYC 1 cut(s) 351
Eco47I GGWCC 2 cut(s) 236, 719
Eco57I CTGAAG 2 cut(s) 251, 947
EcoRI GAATTC 1 cut(s) 600
EcoRII CCWGG 2 cut(s) 132, 721
EcoT14I CCWWGG 1 cut(s) 382
EcoT22I ATGCAT 1 cut(s) 163
EcoT38I GRGCYC 1 cut(s) 351
ErhI CCWWGG 1 cut(s) 382
Esp3I CGTCTC 1 cut(s) 571
FaeI CATG 6 cut(s) 165, 243, 701, 843, 901, 1071
FaqI GGGAC 1 cut(s) 217
FatI CATG 6 cut(s) 161, 239, 697, 839, 897, 1067
Fnu4HI GCNGC 3 cut(s) 298, 1064, 1175
FokI GGATG 2 cut(s) 671, 958
FriOI GRGCYC 1 cut(s) 351
Fsp4HI GCNGC 3 cut(s) 298, 1064, 1175
FspBI CTAG 1 cut(s) 383
GlaI GCGC 3 cut(s) 338, 573, 1173
GluI GCNGC 3 cut(s) 298, 1064, 1175
GsuI CTGGAG 1 cut(s) 270
HaeII RGCGCY 1 cut(s) 575
HaeIII GGCC 3 cut(s) 381, 726, 844
HapII CCGG 1 cut(s) 360
HhaI GCGC 3 cut(s) 339, 574, 1174
Hin1II CATG 6 cut(s) 165, 243, 701, 843, 901, 1071
Hin6I GCGC 3 cut(s) 337, 572, 1172
HinP1I GCGC 3 cut(s) 337, 572, 1172
HindIII AAGCTT 2 cut(s) 147, 1043
HinfI GANTC 1 cut(s) 456
HpaII CCGG 1 cut(s) 360
HphI GGTGA 3 cut(s) 343, 460, 689
Hpy166II GTNNAC 4 cut(s) 719, 880, 957, 1142
Hpy188I TCNGA 6 cut(s) 124, 453, 611, 752, 874, 1135
Hpy188III TCNNGA 7 cut(s) 287, 485, 742, 780, 793, 1003, 1200
Hpy8I GTNNAC 4 cut(s) 719, 880, 957, 1142
HpyAV CCTTC 1 cut(s) 1112
HpyCH4III ACNGT 1 cut(s) 565
HpyCH4IV ACGT 5 cut(s) 519, 613, 708, 1130, 1167
HpyF10VI GCNNNNNNNGC 3 cut(s) 744, 854, 996
HpyF3I CTNAG 3 cut(s) 452, 568, 871
HpySE526I ACGT 5 cut(s) 519, 613, 708, 1130, 1167
Hsp92II CATG 6 cut(s) 165, 243, 701, 843, 901, 1071
HspAI GCGC 3 cut(s) 337, 572, 1172
Kzo9I GATC 4 cut(s) 624, 831, 984, 1096
LmnI GCTCC 3 cut(s) 289, 386, 744
Lsp1109I GCAGC 3 cut(s) 309, 1050, 1186
LweI GCATC 5 cut(s) 148, 176, 594, 675, 747
MaeI CTAG 1 cut(s) 383
MaeII ACGT 5 cut(s) 519, 613, 708, 1130, 1167
MaeIII GTNAC 5 cut(s) 88, 466, 700, 709, 1088
MalI GATC 4 cut(s) 626, 833, 986, 1098
MboI GATC 4 cut(s) 624, 831, 984, 1096
MboII GAAGA 4 cut(s) 302, 779, 1014, 1188
MhlI GDGCHC 3 cut(s) 275, 351, 959
MmeI TCCRAC 1 cut(s) 577
MnlI CCTC 5 cut(s) 758, 822, 880, 1052, 1188
Mph1103I ATGCAT 1 cut(s) 163
MseI TTAA 3 cut(s) 909, 981, 1041
MspI CCGG 1 cut(s) 360
MspR9I CCNGG 2 cut(s) 134, 723
Mva1269I GAATGC 1 cut(s) 548
MvaI CCWGG 2 cut(s) 134, 723
MwoI GCNNNNNNNGC 3 cut(s) 744, 854, 996
NdeII GATC 4 cut(s) 624, 831, 984, 1096
NlaIII CATG 6 cut(s) 165, 243, 701, 843, 901, 1071
NlaIV GGNNCC 5 cut(s) 195, 285, 685, 746, 969
NmuCI GTSAC 1 cut(s) 466
NsiI ATGCAT 1 cut(s) 163
NspI RCATGY 1 cut(s) 165
PctI GAATGC 1 cut(s) 548
PfeI GAWTC 1 cut(s) 456
PflMI CCANNNNNTGG 1 cut(s) 293
PkrI GCNGC 3 cut(s) 299, 1065, 1176
Ppu21I YACGTR 1 cut(s) 520
Psp1406I AACGTT 1 cut(s) 708
Psp6I CCWGG 2 cut(s) 132, 721
PspGI CCWGG 2 cut(s) 132, 721
PspN4I GGNNCC 5 cut(s) 195, 285, 685, 746, 969
PspPI GGNCC 2 cut(s) 236, 719
SaqAI TTAA 3 cut(s) 909, 981, 1041
SatI GCNGC 3 cut(s) 298, 1064, 1175
Sau3AI GATC 4 cut(s) 624, 831, 984, 1096
Sau96I GGNCC 2 cut(s) 236, 719
ScrFI CCNGG 2 cut(s) 134, 723
SduI GDGCHC 3 cut(s) 275, 351, 959
SfaNI GCATC 5 cut(s) 148, 176, 594, 675, 747
SinI GGWCC 2 cut(s) 236, 719
SspI AATATT 1 cut(s) 786
SspMI CTAG 1 cut(s) 383
StyD4I CCNGG 2 cut(s) 132, 721
StyI CCWWGG 1 cut(s) 382
TaaI ACNGT 1 cut(s) 565
TaiI ACGT 5 cut(s) 522, 616, 711, 1133, 1170
TaqI TCGA 3 cut(s) 170, 375, 484
TfiI GAWTC 1 cut(s) 456
Tru1I TTAA 3 cut(s) 909, 981, 1041
Tru9I TTAA 3 cut(s) 909, 981, 1041
TscAI CASTG 3 cut(s) 959, 1060, 1114
TseFI GTSAC 1 cut(s) 466
TseI GCWGC 3 cut(s) 297, 1063, 1174
Tsp45I GTSAC 1 cut(s) 466
TspDTI ATGAA 3 cut(s) 593, 780, 1008
TspRI CASTG 3 cut(s) 959, 1060, 1114
Van91I CCANNNNNTGG 1 cut(s) 293
VneI GTGCAC 1 cut(s) 955
VpaK11BI GGWCC 2 cut(s) 236, 719
XapI RAATTY 2 cut(s) 511, 600
XceI RCATGY 1 cut(s) 165
XcmI CCANNNNNNNNNTGG 1 cut(s) 1165
XmaJI CCTAGG 1 cut(s) 382
XspI CTAG 1 cut(s) 383
Zsp2I ATGCAT 1 cut(s) 163
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.