MD09G1120000.v1.1

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0000434
Physical Location & Seq
Reverse (-)
9267392 .. 9270141
2750 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1120000.v1.1.491

Sequence Viewer

Length: 1206 bp
ATGGATTTGAAGCTGAAAAATATCTTGTCAATGTTTGTGTTCTTGTTGTTAGTATCCTCATCTAATGCCCAATCTGGTGTCTATGATGTAACAGGTGCAAATTATGGTGGAAAAGCAAACTCTGATATAACCCAGGCTTTGAGCAAAGCTTGGACAGATGCATGTGCATCGACATCGGCAAGTAAAATTGTTGTTCCAAGTGGGACATACAAGTTTGTAGGGGCAACTTTCAAAGGACCATGCAAAGGTCCTATTGAGTTTCAGCTCCAAGGCACACTGCAGGCTCCGGAACATATCAAGGAACTCCCAAAAGAAGATACTTGGGTAGCTTTTGAGCGCATTGATGGGCTCACCTTATCTGGCGGTGGAACTTTCGATGGCCAAGGAGCAACTGCTTGGAAGCAAAATGATTGCCACAAAAACAAAGATTGCAAATTTAAAGCTGTTAATTTGAGGTTCAATTTTATCACCAATTCCATAGTTCGAGGAATAACAACAAAAGACAGCAAAAATTTCCACGTAAATCTTTTGGGTTGCAACAAGTTGGCATTCCAAGATTTTACAGTATCAGCGCCTAAAGAAAGTGTCAATACAGATGGAATTCATATGGGACGTTCAACTGAGATCAACATCACAGATACAACCATTGGAACTGGGGATGATTGCATCTCTATAGGTCATGGCACCAAGCAACTCCATGTAACCAACGTTACATGCGGACCAGGCCACGGCATAAGCATCGGAAGCCTTGGAAGGACTGAGGATGAAGAACCTGTGTCCGGAATCTTTATCAAGAACTGCACAATTACAAATACCGATAATGGTGTAAGGATCAAAACCTGGCCTGCTTCCCCTGCAAAGGGTACTGCTGTCTCAGACGTTCACTTTGAGGATATTATCATGGACAATGTTAAAAACCCTGTCGTCATAGACCAAGAGTATTGCCCACATAAGCTGTGTACACCTGAGGTTTCATCCAAAGTTAAGATCAGCAATGTTAGCTTCAAGAACATAAAGGGCTCGTCATCAGGCCCAGTTGGTGTCAAGCTTTTATGCAGTGGAAAGCTGCCATGTGAGAATGTAGAACTCAGTAACATTGATCTCACATACACCGGAGATAAAGGCTCTATTACCTCTGAATGTAAACATGTCAAGCCCACCATTAACAACGTGGCGAAGCCTCTTGCTTGTGCTACATCTTCTTGA
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

402

Amino Acids

42.84

Weight (kDa)

7.87

Isoelectric Point (pI)

31.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 55 - 385 3.7e-104 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
AccIII TCCGGA 2 cut(s) 286, 779
AciI CCGC 2 cut(s) 363, 717
AclI AACGTT 1 cut(s) 708
AclWI GGATC 1 cut(s) 839
AcoI YGGCCR 1 cut(s) 379
AcsI RAATTY 3 cut(s) 434, 511, 600
AfaI GTAC 2 cut(s) 865, 961
AfiI CCNNNNNNNGG 5 cut(s) 245, 728, 779, 859, 860
AflIII ACRYGT 1 cut(s) 1147
AgsI TTSAA 5 cut(s) 10, 232, 460, 618, 1006
AjnI CCWGG 3 cut(s) 132, 721, 839
AluBI AGCT 9 cut(s) 13, 149, 265, 329, 443, 955, 1002, 1048, 1066
AluI AGCT 9 cut(s) 13, 149, 265, 329, 443, 955, 1002, 1048, 1066
Alw26I GTCTC 1 cut(s) 877
AlwI GGATC 1 cut(s) 839
Aor13HI TCCGGA 2 cut(s) 286, 779
AoxI GGCC 4 cut(s) 379, 724, 842, 1030
ApeKI GCWGC 1 cut(s) 1066
ApoI RAATTY 3 cut(s) 434, 511, 600
ArsI GACNNNNNNTTYG 2 cut(s) 869, 901
AspLEI GCGC 2 cut(s) 339, 574
AspS9I GGNCC 4 cut(s) 236, 248, 719, 1031
AsuHPI GGTGA 2 cut(s) 343, 460
AvaII GGWCC 3 cut(s) 236, 248, 719
AxyI CCTNAGG 1 cut(s) 966
BaeI ACNNNNGTAYC 4 cut(s) 309, 342, 855, 888
BalI TGGCCA 1 cut(s) 381
BanI GGYRCC 1 cut(s) 683
BanII GRGCYC 2 cut(s) 351, 1022
BbvI GCAGC 1 cut(s) 1053
BccI CCATC 3 cut(s) 338, 371, 590
BceAI ACGGC 1 cut(s) 745
BcgI CGANNNNNNTGC 6 cut(s) 150, 156, 184, 190, 721, 755
BciT130I CCWGG 3 cut(s) 134, 723, 841
BciVI GTATCC 1 cut(s) 64
BcoDI GTCTC 1 cut(s) 877
BfmI CTRYAG 2 cut(s) 278, 672
BfoI RGCGCY 1 cut(s) 575
BfuI GTATCC 1 cut(s) 64
BisI GCNGC 1 cut(s) 1067
BlsI GCNGC 1 cut(s) 1068
Bme1390I CCNGG 3 cut(s) 134, 723, 841
Bme18I GGWCC 3 cut(s) 236, 248, 719
BmgT120I GGNCC 4 cut(s) 236, 248, 719, 1031
BmiI GGNNCC 2 cut(s) 285, 685
BmrFI CCNGG 3 cut(s) 134, 723, 841
BmrI ACTGGG 2 cut(s) 663, 1028
BmsI GCATC 4 cut(s) 148, 176, 675, 747
BmuI ACTGGG 2 cut(s) 663, 1028
BsaAI YACGTR 1 cut(s) 520
BsaBI GATNNNNATC 1 cut(s) 629
BsaJI CCNNGG 5 cut(s) 132, 268, 382, 727, 748
BsaWI WCCGGW 3 cut(s) 286, 779, 1112
Bsc4I CCNNNNNNNGG 5 cut(s) 245, 728, 779, 859, 860
Bse1I ACTGG 2 cut(s) 658, 1034
Bse21I CCTNAGG 1 cut(s) 966
Bse3DI GCAATG 1 cut(s) 1000
Bse8I GATNNNNATC 1 cut(s) 629
BseAI TCCGGA 2 cut(s) 286, 779
BseBI CCWGG 3 cut(s) 134, 723, 841
BseDI CCNNGG 5 cut(s) 132, 268, 382, 727, 748
BseGI GGATG 3 cut(s) 664, 769, 974
BseJI GATNNNNATC 1 cut(s) 629
BseLI CCNNNNNNNGG 5 cut(s) 245, 728, 779, 859, 860
BseMI GCAATG 1 cut(s) 1000
BseMII CTCAG 5 cut(s) 612, 750, 888, 957, 1102
BseNI ACTGG 2 cut(s) 658, 1034
BseXI GCAGC 1 cut(s) 1053
BsgI GTGCAG 1 cut(s) 784
BshFI GGCC 4 cut(s) 381, 726, 844, 1032
BshNI GGYRCC 1 cut(s) 683
BsiSI CCGG 3 cut(s) 287, 780, 1113
BslFI GGGAC 2 cut(s) 217, 624
BslI CCNNNNNNNGG 5 cut(s) 245, 728, 779, 859, 860
BsmAI GTCTC 1 cut(s) 877
BsmFI GGGAC 2 cut(s) 217, 624
BsmI GAATGC 1 cut(s) 548
BsnI GGCC 4 cut(s) 381, 726, 844, 1032
Bsp1286I GDGCHC 2 cut(s) 351, 1022
Bsp13I TCCGGA 2 cut(s) 286, 779
Bsp1407I TGTACA 1 cut(s) 959
Bsp143I GATC 4 cut(s) 624, 831, 987, 1099
BspACI CCGC 2 cut(s) 363, 717
BspANI GGCC 4 cut(s) 381, 726, 844, 1032
BspCNI CTCAG 5 cut(s) 613, 751, 887, 958, 1101
BspEI TCCGGA 2 cut(s) 286, 779
BspLI GGNNCC 2 cut(s) 285, 685
BspMAI CTGCAG 1 cut(s) 282
BspPI GGATC 1 cut(s) 839
BspT107I GGYRCC 1 cut(s) 683
BsrDI GCAATG 1 cut(s) 1000
BsrGI TGTACA 1 cut(s) 959
BsrI ACTGG 2 cut(s) 658, 1034
BssECI CCNNGG 5 cut(s) 132, 268, 382, 727, 748
BssMI GATC 4 cut(s) 624, 831, 987, 1099
BssT1I CCWWGG 3 cut(s) 268, 382, 748
Bst2UI CCWGG 3 cut(s) 134, 723, 841
Bst4CI ACNGT 1 cut(s) 565
BstAUI TGTACA 1 cut(s) 959
BstBAI YACGTR 1 cut(s) 520
BstC8I GCNNGC 2 cut(s) 282, 846
BstDEI CTNAG 5 cut(s) 621, 759, 874, 966, 1088
BstDSI CCRYGG 1 cut(s) 727
BstF5I GGATG 3 cut(s) 664, 769, 974
BstH2I RGCGCY 1 cut(s) 575
BstHHI GCGC 2 cut(s) 339, 574
BstKTI GATC 4 cut(s) 627, 834, 990, 1102
BstMAI GTCTC 1 cut(s) 877
BstMBI GATC 4 cut(s) 624, 831, 987, 1099
BstMWI GCNNNNNNNGC 4 cut(s) 723, 744, 854, 999
BstNI CCWGG 3 cut(s) 134, 723, 841
BstNSI RCATGY 3 cut(s) 165, 717, 1151
BstSCI CCNGG 3 cut(s) 132, 721, 839
BstSFI CTRYAG 2 cut(s) 278, 672
BstV1I GCAGC 1 cut(s) 1053
Bsu36I CCTNAGG 1 cut(s) 966
BsuI GTATCC 1 cut(s) 64
BsuRI GGCC 4 cut(s) 381, 726, 844, 1032
BtgI CCRYGG 1 cut(s) 727
BtsCI GGATG 3 cut(s) 664, 769, 974
BtsI GCAGTG 2 cut(s) 275, 1063
BtsIMutI CAGTG 2 cut(s) 275, 1063
Cac8I GCNNGC 2 cut(s) 282, 846
CfoI GCGC 2 cut(s) 339, 574
Cfr13I GGNCC 4 cut(s) 236, 248, 719, 1031
Csp6I GTAC 2 cut(s) 864, 960
CviAII CATG 8 cut(s) 162, 240, 680, 698, 714, 901, 1071, 1148
CviQI GTAC 2 cut(s) 864, 960
DdeI CTNAG 5 cut(s) 621, 759, 874, 966, 1088
DpnI GATC 4 cut(s) 626, 833, 989, 1101
DpnII GATC 4 cut(s) 624, 831, 987, 1099
DraI TTTAAA 1 cut(s) 439
EaeI YGGCCR 1 cut(s) 379
Eco130I CCWWGG 3 cut(s) 268, 382, 748
Eco24I GRGCYC 2 cut(s) 351, 1022
Eco47I GGWCC 3 cut(s) 236, 248, 719
Eco81I CCTNAGG 1 cut(s) 966
EcoO109I RGGNCCY 1 cut(s) 248
EcoRI GAATTC 1 cut(s) 600
EcoRII CCWGG 3 cut(s) 132, 721, 839
EcoT14I CCWWGG 3 cut(s) 268, 382, 748
EcoT22I ATGCAT 1 cut(s) 163
EcoT38I GRGCYC 2 cut(s) 351, 1022
ErhI CCWWGG 3 cut(s) 268, 382, 748
FaeI CATG 8 cut(s) 165, 243, 683, 701, 717, 904, 1074, 1151
FaqI GGGAC 2 cut(s) 217, 624
FatI CATG 8 cut(s) 161, 239, 679, 697, 713, 900, 1070, 1147
FauNDI CATATG 1 cut(s) 606
Fnu4HI GCNGC 1 cut(s) 1067
FokI GGATG 3 cut(s) 671, 776, 961
FriOI GRGCYC 2 cut(s) 351, 1022
Fsp4HI GCNGC 1 cut(s) 1067
GlaI GCGC 2 cut(s) 338, 573
GluI GCNGC 1 cut(s) 1067
HaeII RGCGCY 1 cut(s) 575
HaeIII GGCC 4 cut(s) 381, 726, 844, 1032
HapII CCGG 3 cut(s) 287, 780, 1113
HhaI GCGC 2 cut(s) 339, 574
Hin1II CATG 8 cut(s) 165, 243, 683, 701, 717, 904, 1074, 1151
Hin6I GCGC 2 cut(s) 337, 572
HinP1I GCGC 2 cut(s) 337, 572
HindIII AAGCTT 2 cut(s) 147, 1046
HinfI GANTC 1 cut(s) 783
HpaII CCGG 3 cut(s) 287, 780, 1113
HphI GGTGA 2 cut(s) 343, 460
Hpy166II GTNNAC 4 cut(s) 883, 960, 962, 1145
Hpy188I TCNGA 4 cut(s) 124, 743, 877, 1138
Hpy188III TCNNGA 5 cut(s) 287, 780, 793, 1006, 1203
Hpy8I GTNNAC 4 cut(s) 883, 960, 962, 1145
HpyAV CCTTC 1 cut(s) 747
HpyCH4III ACNGT 1 cut(s) 565
HpyCH4IV ACGT 5 cut(s) 519, 613, 708, 879, 1170
HpyF10VI GCNNNNNNNGC 4 cut(s) 723, 744, 854, 999
HpyF3I CTNAG 5 cut(s) 621, 759, 874, 966, 1088
HpySE526I ACGT 5 cut(s) 519, 613, 708, 879, 1170
Hsp92II CATG 8 cut(s) 165, 243, 683, 701, 717, 904, 1074, 1151
HspAI GCGC 2 cut(s) 337, 572
Kpn2I TCCGGA 2 cut(s) 286, 779
Kzo9I GATC 4 cut(s) 624, 831, 987, 1099
LmnI GCTCC 3 cut(s) 270, 289, 386
Lsp1109I GCAGC 1 cut(s) 1053
LweI GCATC 4 cut(s) 148, 176, 675, 747
MaeII ACGT 5 cut(s) 519, 613, 708, 879, 1170
MaeIII GTNAC 4 cut(s) 88, 700, 709, 1091
MalI GATC 4 cut(s) 626, 833, 989, 1101
MboI GATC 4 cut(s) 624, 831, 987, 1099
MboII GAAGA 3 cut(s) 326, 779, 1191
MhlI GDGCHC 2 cut(s) 351, 1022
MlsI TGGCCA 1 cut(s) 381
MluCI AATT 9 cut(s) 100, 186, 434, 448, 460, 472, 511, 600, 804
MluNI TGGCCA 1 cut(s) 381
MnlI CCTC 8 cut(s) 67, 447, 479, 754, 883, 961, 1144, 1191
Mox20I TGGCCA 1 cut(s) 381
Mph1103I ATGCAT 1 cut(s) 163
MroI TCCGGA 2 cut(s) 286, 779
MscI TGGCCA 1 cut(s) 381
MseI TTAA 5 cut(s) 438, 447, 912, 984, 1164
Msp20I TGGCCA 1 cut(s) 381
MspI CCGG 3 cut(s) 287, 780, 1113
MspR9I CCNGG 3 cut(s) 134, 723, 841
Mva1269I GAATGC 1 cut(s) 548
MvaI CCWGG 3 cut(s) 134, 723, 841
MwoI GCNNNNNNNGC 4 cut(s) 723, 744, 854, 999
NdeI CATATG 1 cut(s) 606
NdeII GATC 4 cut(s) 624, 831, 987, 1099
NlaIII CATG 8 cut(s) 165, 243, 683, 701, 717, 904, 1074, 1151
NlaIV GGNNCC 2 cut(s) 285, 685
NsiI ATGCAT 1 cut(s) 163
NspI RCATGY 3 cut(s) 165, 717, 1151
PciI ACATGT 1 cut(s) 1147
PctI GAATGC 1 cut(s) 548
PfeI GAWTC 1 cut(s) 783
PkrI GCNGC 1 cut(s) 1068
Ppu21I YACGTR 1 cut(s) 520
PpuMI RGGWCCY 1 cut(s) 248
PscI ACATGT 1 cut(s) 1147
Psp1406I AACGTT 1 cut(s) 708
Psp5II RGGWCCY 1 cut(s) 248
Psp6I CCWGG 3 cut(s) 132, 721, 839
PspGI CCWGG 3 cut(s) 132, 721, 839
PspN4I GGNNCC 2 cut(s) 285, 685
PspPI GGNCC 4 cut(s) 236, 248, 719, 1031
PspPPI RGGWCCY 1 cut(s) 248
PstI CTGCAG 1 cut(s) 282
RsaI GTAC 2 cut(s) 865, 961
RsaNI GTAC 2 cut(s) 864, 960
SaqAI TTAA 5 cut(s) 438, 447, 912, 984, 1164
SatI GCNGC 1 cut(s) 1067
Sau3AI GATC 4 cut(s) 624, 831, 987, 1099
Sau96I GGNCC 4 cut(s) 236, 248, 719, 1031
ScrFI CCNGG 3 cut(s) 134, 723, 841
SduI GDGCHC 2 cut(s) 351, 1022
SfaNI GCATC 4 cut(s) 148, 176, 675, 747
SfcI CTRYAG 2 cut(s) 278, 672
SinI GGWCC 3 cut(s) 236, 248, 719
Sse9I AATT 9 cut(s) 100, 186, 434, 448, 460, 472, 511, 600, 804
SsiI CCGC 2 cut(s) 363, 717
StyD4I CCNGG 3 cut(s) 132, 721, 839
StyI CCWWGG 3 cut(s) 268, 382, 748
TaaI ACNGT 1 cut(s) 565
TaiI ACGT 5 cut(s) 522, 616, 711, 882, 1173
TaqI TCGA 3 cut(s) 170, 375, 484
TasI AATT 9 cut(s) 100, 186, 434, 448, 460, 472, 511, 600, 804
TatI WGTACW 1 cut(s) 959
TfiI GAWTC 1 cut(s) 783
Tru1I TTAA 5 cut(s) 438, 447, 912, 984, 1164
Tru9I TTAA 5 cut(s) 438, 447, 912, 984, 1164
TscAI CASTG 2 cut(s) 282, 1063
TseI GCWGC 1 cut(s) 1066
TspDTI ATGAA 3 cut(s) 593, 780, 963
TspRI CASTG 2 cut(s) 282, 1063
VpaK11BI GGWCC 3 cut(s) 236, 248, 719
XapI RAATTY 3 cut(s) 434, 511, 600
XceI RCATGY 3 cut(s) 165, 717, 1151
XcmI CCANNNNNNNNNTGG 1 cut(s) 1168
Zsp2I ATGCAT 1 cut(s) 163
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.