MD16G1223600.v1.1

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0000434
Physical Location & Seq
Reverse (-)
22488835 .. 22489710
876 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1223600.v1.1.491

Sequence Viewer

Length: 876 bp
ATGATCACCGTATCAGGTAGCGGAACCTTTGATGGCCAAGGAGCACTTGCTTGGAGTCGTAATAACTGCAGCAAAAGCAAAAATTGTGCTGGTTCCGTTAATCTGAGGTTCAGCTTCGTCACGAATTCCACAATTCAGGACGTAAGTTCACTTAACAGCAAAAACTTCCACATCCATGTTTTCAGGTGCCTCAATGTTACGTTCCAACACGTTCACATAACAGCACCCGGAGACAGCAAAAATACTGACGGAATTCATATTGAGAAATCAACAGGGATCAACATTACTCACACAAACATTGGAACTGGGGATGACTGTGTTTCAATAGGTGATGGCAGCAACCAAATCACCGTGACCAACGTTACTTGTGGTCCAGGTCATGGCATAAGCATTGGAAGTCTCGGAAGATACAACAATGAGGAATCTTTGGCTGGAATCAGAGTCAAGAACTGCACCCTGACCAACACACAGAATGGTGTGCGCATCAAAACATGGCCGAATTCTCCTTTGGCTACCACTGCCTCGGATATACACTTTGAGGATATTATCATGGTTAATGTAGGTAACCCTATTGTCATAGACCAACTTTATTGCCCGTATAGGAAGTGTGATAATTTTCTTCCGTTGAAGGTTAAGATCAGCGATGTCAGCTTCAAGAACATTAAGGGCTCATCTGCAACTGCACTTGCACTCAAGATTGTGTGCAGCAGCGGCTCGCAATGTGAGAATGTAGAGTTGACTGACATTGATCTCACCTACAATGGAGCCAATGGAACTCTTACCTCTCAATCTTTGAATGTCAAGCCAACAATTTCTGGCCTGATCAGAGCTCTTGCTTGCGCTACATCCATTGTGATGCCTCCTCCGTTGATCTAA
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

292

Amino Acids

30.96

Weight (kDa)

8.0

Isoelectric Point (pI)

25.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 3 - 267 1.1e-84 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)
Acc16I TGCGCA 1 cut(s) 482
AccB1I GGYRCC 1 cut(s) 186
AccB7I CCANNNNNTGG 1 cut(s) 380
AciI CCGC 2 cut(s) 21, 711
AclI AACGTT 1 cut(s) 360
AclWI GGATC 1 cut(s) 284
AcoI YGGCCR 2 cut(s) 34, 494
AcsI RAATTY 3 cut(s) 124, 252, 499
AfiI CCNNNNNNNGG 1 cut(s) 380
AflIII ACRYGT 1 cut(s) 208
AgsI TTSAA 4 cut(s) 324, 628, 655, 796
AjnI CCWGG 1 cut(s) 373
AjuI GAANNNNNNNTTGG 2 cut(s) 491, 523
AluBI AGCT 3 cut(s) 114, 651, 830
AluI AGCT 3 cut(s) 114, 651, 830
Alw21I GWGCWC 2 cut(s) 46, 832
Alw26I GTCTC 2 cut(s) 225, 404
AlwI GGATC 1 cut(s) 284
AoxI GGCC 3 cut(s) 34, 494, 817
ApeKI GCWGC 4 cut(s) 69, 336, 705, 708
ApoI RAATTY 3 cut(s) 124, 252, 499
AspLEI GCGC 2 cut(s) 483, 842
AspS9I GGNCC 1 cut(s) 371
AsuC2I CCSGG 1 cut(s) 228
AsuHPI GGTGA 3 cut(s) 340, 341, 745
AvaII GGWCC 1 cut(s) 371
BalI TGGCCA 1 cut(s) 36
BanI GGYRCC 1 cut(s) 186
BanII GRGCYC 2 cut(s) 671, 832
Bbv12I GWGCWC 2 cut(s) 46, 832
BbvI GCAGC 4 cut(s) 81, 348, 717, 720
BccI CCATC 2 cut(s) 26, 326
BciT130I CCWGG 1 cut(s) 375
BclI TGATCA 2 cut(s) 3, 822
BcnI CCSGG 1 cut(s) 228
BcoDI GTCTC 2 cut(s) 225, 404
BfmI CTRYAG 1 cut(s) 67
BisI GCNGC 5 cut(s) 70, 337, 706, 709, 712
BlsI GCNGC 5 cut(s) 71, 338, 707, 710, 713
Bme1390I CCNGG 2 cut(s) 228, 375
Bme18I GGWCC 1 cut(s) 371
BmgT120I GGNCC 1 cut(s) 371
BmiI GGNNCC 4 cut(s) 25, 94, 188, 766
BmrFI CCNGG 2 cut(s) 228, 375
BmrI ACTGGG 1 cut(s) 315
BmsI GCATC 2 cut(s) 492, 846
BmuI ACTGGG 1 cut(s) 315
BpuEI CTTGAG 1 cut(s) 677
BpuMI CCSGG 1 cut(s) 228
BsaJI CCNNGG 2 cut(s) 37, 522
Bsc4I CCNNNNNNNGG 1 cut(s) 380
Bse1I ACTGG 1 cut(s) 310
Bse3DI GCAATG 1 cut(s) 725
BseBI CCWGG 1 cut(s) 375
BseDI CCNNGG 2 cut(s) 37, 522
BseGI GGATG 3 cut(s) 171, 316, 845
BseLI CCNNNNNNNGG 1 cut(s) 380
BseMI GCAATG 1 cut(s) 725
BseMII CTCAG 1 cut(s) 95
BseNI ACTGG 1 cut(s) 310
BseRI GAGGAG 1 cut(s) 852
BseXI GCAGC 4 cut(s) 81, 348, 717, 720
BsgI GTGCAG 3 cut(s) 436, 666, 724
BshFI GGCC 3 cut(s) 36, 496, 819
BshNI GGYRCC 1 cut(s) 186
BsiHKAI GWGCWC 2 cut(s) 46, 832
BsiSI CCGG 1 cut(s) 228
BslI CCNNNNNNNGG 1 cut(s) 380
BsmAI GTCTC 2 cut(s) 225, 404
BsnI GGCC 3 cut(s) 36, 496, 819
Bsp1286I GDGCHC 3 cut(s) 46, 671, 832
Bsp143I GATC 6 cut(s) 3, 276, 636, 748, 822, 870
BspACI CCGC 2 cut(s) 21, 711
BspANI GGCC 3 cut(s) 36, 496, 819
BspCNI CTCAG 1 cut(s) 96
BspLI GGNNCC 4 cut(s) 25, 94, 188, 766
BspMAI CTGCAG 1 cut(s) 71
BspPI GGATC 1 cut(s) 284
BspT107I GGYRCC 1 cut(s) 186
BsrDI GCAATG 1 cut(s) 725
BsrI ACTGG 1 cut(s) 310
BssECI CCNNGG 2 cut(s) 37, 522
BssMI GATC 6 cut(s) 3, 276, 636, 748, 822, 870
BssT1I CCWWGG 1 cut(s) 37
Bst2UI CCWGG 1 cut(s) 375
Bst4CI ACNGT 3 cut(s) 10, 317, 352
BstC8I GCNNGC 2 cut(s) 716, 838
BstDEI CTNAG 1 cut(s) 104
BstEII GGTNACC 1 cut(s) 563
BstF5I GGATG 3 cut(s) 171, 316, 845
BstHHI GCGC 2 cut(s) 483, 842
BstKTI GATC 6 cut(s) 6, 279, 639, 751, 825, 873
BstMAI GTCTC 2 cut(s) 225, 404
BstMBI GATC 6 cut(s) 3, 276, 636, 748, 822, 870
BstMWI GCNNNNNNNGC 4 cut(s) 75, 518, 648, 711
BstNI CCWGG 1 cut(s) 375
BstPI GGTNACC 1 cut(s) 563
BstSCI CCNGG 2 cut(s) 226, 373
BstSFI CTRYAG 1 cut(s) 67
BstV1I GCAGC 4 cut(s) 81, 348, 717, 720
BsuRI GGCC 3 cut(s) 36, 496, 819
BtgZI GCGATG 1 cut(s) 657
BtsCI GGATG 3 cut(s) 171, 316, 845
BtsI GCAGTG 1 cut(s) 516
BtsIMutI CAGTG 1 cut(s) 516
Cac8I GCNNGC 2 cut(s) 716, 838
CfoI GCGC 2 cut(s) 483, 842
Cfr13I GGNCC 1 cut(s) 371
CviAII CATG 4 cut(s) 176, 380, 492, 550
DdeI CTNAG 1 cut(s) 104
DpnI GATC 6 cut(s) 5, 278, 638, 750, 824, 872
DpnII GATC 6 cut(s) 3, 276, 636, 748, 822, 870
EaeI YGGCCR 2 cut(s) 34, 494
Ecl136II GAGCTC 1 cut(s) 830
Eco130I CCWWGG 1 cut(s) 37
Eco24I GRGCYC 2 cut(s) 671, 832
Eco47I GGWCC 1 cut(s) 371
Eco53kI GAGCTC 1 cut(s) 830
Eco91I GGTNACC 1 cut(s) 563
EcoICRI GAGCTC 1 cut(s) 830
EcoO65I GGTNACC 1 cut(s) 563
EcoRI GAATTC 3 cut(s) 124, 252, 499
EcoRII CCWGG 1 cut(s) 373
EcoT14I CCWWGG 1 cut(s) 37
EcoT38I GRGCYC 2 cut(s) 671, 832
ErhI CCWWGG 1 cut(s) 37
FaeI CATG 4 cut(s) 179, 383, 495, 553
FalI AAGNNNNNCTT 2 cut(s) 30, 62
FatI CATG 4 cut(s) 175, 379, 491, 549
FbaI TGATCA 2 cut(s) 3, 822
Fnu4HI GCNGC 5 cut(s) 70, 337, 706, 709, 712
FokI GGATG 3 cut(s) 158, 323, 832
FriOI GRGCYC 2 cut(s) 671, 832
Fsp4HI GCNGC 5 cut(s) 70, 337, 706, 709, 712
FspAI RTGCGCAY 1 cut(s) 482
FspI TGCGCA 1 cut(s) 482
GlaI GCGC 2 cut(s) 482, 841
GluI GCNGC 5 cut(s) 70, 337, 706, 709, 712
HaeIII GGCC 3 cut(s) 36, 496, 819
HapII CCGG 1 cut(s) 228
HhaI GCGC 2 cut(s) 483, 842
Hin1II CATG 4 cut(s) 179, 383, 495, 553
Hin6I GCGC 2 cut(s) 481, 840
HinP1I GCGC 2 cut(s) 481, 840
HincII GTYRAC 1 cut(s) 738
HindII GTYRAC 1 cut(s) 738
HinfI GANTC 4 cut(s) 55, 422, 435, 441
HpaII CCGG 1 cut(s) 228
HphI GGTGA 3 cut(s) 340, 341, 745
Hpy166II GTNNAC 3 cut(s) 149, 214, 738
Hpy188I TCNGA 5 cut(s) 105, 404, 440, 526, 827
Hpy188III TCNNGA 5 cut(s) 121, 137, 445, 655, 694
Hpy8I GTNNAC 3 cut(s) 149, 214, 738
HpyAV CCTTC 1 cut(s) 622
HpyCH4III ACNGT 3 cut(s) 10, 317, 352
HpyCH4IV ACGT 4 cut(s) 141, 200, 210, 360
HpyCH4V TGCA 6 cut(s) 69, 453, 677, 683, 689, 705
HpyF10VI GCNNNNNNNGC 4 cut(s) 75, 518, 648, 711
HpyF3I CTNAG 1 cut(s) 104
HpySE526I ACGT 4 cut(s) 141, 200, 210, 360
Hsp92II CATG 4 cut(s) 179, 383, 495, 553
HspAI GCGC 2 cut(s) 481, 840
Ksp22I TGATCA 2 cut(s) 3, 822
Kzo9I GATC 6 cut(s) 3, 276, 636, 748, 822, 870
LmnI GCTCC 2 cut(s) 41, 764
Lsp1109I GCAGC 4 cut(s) 81, 348, 717, 720
LweI GCATC 2 cut(s) 492, 846
MaeII ACGT 4 cut(s) 141, 200, 210, 360
MaeIII GTNAC 5 cut(s) 118, 196, 352, 361, 563
MalI GATC 6 cut(s) 5, 278, 638, 750, 824, 872
MboI GATC 6 cut(s) 3, 276, 636, 748, 822, 870
MboII GAAGA 2 cut(s) 417, 611
MhlI GDGCHC 3 cut(s) 46, 671, 832
MlsI TGGCCA 1 cut(s) 36
MluCI AATT 7 cut(s) 82, 124, 132, 252, 499, 613, 810
MluNI TGGCCA 1 cut(s) 36
MlyI GAGTC 2 cut(s) 64, 450
MmeI TCCRAC 1 cut(s) 229
MnlI CCTC 8 cut(s) 99, 200, 412, 532, 532, 793, 870, 873
Mox20I TGGCCA 1 cut(s) 36
MscI TGGCCA 1 cut(s) 36
MseI TTAA 5 cut(s) 99, 153, 555, 633, 663
MslI CAYNNNNRTG 2 cut(s) 174, 854
Msp20I TGGCCA 1 cut(s) 36
MspA1I CMGCKG 1 cut(s) 711
MspI CCGG 1 cut(s) 228
MspR9I CCNGG 2 cut(s) 228, 375
MvaI CCWGG 1 cut(s) 375
MwoI GCNNNNNNNGC 4 cut(s) 75, 518, 648, 711
NciI CCSGG 1 cut(s) 228
NdeII GATC 6 cut(s) 3, 276, 636, 748, 822, 870
NlaIII CATG 4 cut(s) 179, 383, 495, 553
NlaIV GGNNCC 4 cut(s) 25, 94, 188, 766
NmuCI GTSAC 2 cut(s) 118, 352
NsbI TGCGCA 1 cut(s) 482
PfeI GAWTC 2 cut(s) 422, 435
PflMI CCANNNNNTGG 1 cut(s) 380
PkrI GCNGC 5 cut(s) 71, 338, 707, 710, 713
PleI GAGTC 2 cut(s) 63, 449
PpsI GAGTC 2 cut(s) 63, 449
Psp124BI GAGCTC 1 cut(s) 832
Psp1406I AACGTT 1 cut(s) 360
Psp6I CCWGG 1 cut(s) 373
PspEI GGTNACC 1 cut(s) 563
PspGI CCWGG 1 cut(s) 373
PspN4I GGNNCC 4 cut(s) 25, 94, 188, 766
PspPI GGNCC 1 cut(s) 371
PstI CTGCAG 1 cut(s) 71
RseI CAYNNNNRTG 2 cut(s) 174, 854
SacI GAGCTC 1 cut(s) 832
SaqAI TTAA 5 cut(s) 99, 153, 555, 633, 663
SatI GCNGC 5 cut(s) 70, 337, 706, 709, 712
Sau3AI GATC 6 cut(s) 3, 276, 636, 748, 822, 870
Sau96I GGNCC 1 cut(s) 371
SchI GAGTC 2 cut(s) 64, 450
ScrFI CCNGG 2 cut(s) 228, 375
SduI GDGCHC 3 cut(s) 46, 671, 832
SfaNI GCATC 2 cut(s) 492, 846
SfcI CTRYAG 1 cut(s) 67
SinI GGWCC 1 cut(s) 371
SmiMI CAYNNNNRTG 2 cut(s) 174, 854
SmlI CTYRAG 1 cut(s) 692
SmoI CTYRAG 1 cut(s) 692
Sse9I AATT 7 cut(s) 82, 124, 132, 252, 499, 613, 810
SsiI CCGC 2 cut(s) 21, 711
SstI GAGCTC 1 cut(s) 832
StyD4I CCNGG 2 cut(s) 226, 373
StyI CCWWGG 1 cut(s) 37
TaaI ACNGT 3 cut(s) 10, 317, 352
TaiI ACGT 4 cut(s) 144, 203, 213, 363
TasI AATT 7 cut(s) 82, 124, 132, 252, 499, 613, 810
TauI GCSGC 1 cut(s) 714
TfiI GAWTC 2 cut(s) 422, 435
Tru1I TTAA 5 cut(s) 99, 153, 555, 633, 663
Tru9I TTAA 5 cut(s) 99, 153, 555, 633, 663
TscAI CASTG 1 cut(s) 523
TseFI GTSAC 2 cut(s) 118, 352
TseI GCWGC 4 cut(s) 69, 336, 705, 708
Tsp45I GTSAC 2 cut(s) 118, 352
TspDTI ATGAA 1 cut(s) 245
TspGWI ACGGA 4 cut(s) 85, 264, 612, 855
TspRI CASTG 1 cut(s) 523
Van91I CCANNNNNTGG 1 cut(s) 380
VpaK11BI GGWCC 1 cut(s) 371
XapI RAATTY 3 cut(s) 124, 252, 499
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.