MD16G1223300.v1.1

Exopolygalacturonase-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0000434
Physical Location & Seq
Reverse (-)
22461020 .. 22462011
992 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1223300.v1.1.491

Sequence Viewer

Length: 849 bp
ATGTTAACAGAAGCAAGTTTTAAAGGTCCTTGCAAGGCTCCTATTGAGATTCAAGTCCAAGGGAAATTGCAAGCTCCAGTATATGGCGGAAAACTTACCAAACCGGATACTTGGGTTGGTTTTGAGCACATTAATATGCTCACTGTATCAGGTGGTGGAACTTTTGACGGGCAAGGAGCACTTGCTTGGAAGCAAAATGACTGCAACAAAAACAAAGATTGCAAATTTATCGCCATTAATATGAGGTTCAACTTCGTTACCAATTCCATAATTCAAGACATAATTTTCCTCGATAGCAAGAATTTTCACGTAACATTTTGGGGTGTAACAATGTCACATTCCACCGTGTCAATGATTACTTGTGGACCAGGCCATGGCATAAGCATTGGAAGTCTTGGAAGGTACCCGAACGAAGAACCTGTGGTTGGAATCAGAGTTAAAAACTGCACCTTGACTAATACGTCCAACGGCGTGAGAATCAAGACATGGCCTGCTTCCCCTTCGGATGGTATTGCATCAGATATACACTTTGATGATATTATCATGGTCAATGTCAGCAACCCTGTCCTCATAGACCAACAGTACTGCCCGTGGAACCAGTATAAACAGAACATTCCTTCAAAAGTTAAGATCAGCAATGTCAGCTTCAAGAACATTAAAGGCTCGTCTGCAACACCATTTGCAGTTCAGATTGTATGCAGCAGTGGCATACCGTGTGAGAATGTAGAATTGGCTGACATCGATCTCACCTACAATGGAAACAAAGGATGTCTTACCTCTCAACGTTCAAACATGAATCCCACCATTACACGTGTGCCTAAGGCTCTTGCGTGTGGTACATCTGCTTGA
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

283

Amino Acids

30.63

Weight (kDa)

8.64

Isoelectric Point (pI)

29.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Glyco_hydro_28 PF00295 2 - 113 2.5e-20 Glycosyl hydrolases family 28
Glyco_hydro_28 PF00295 115 - 255 3.2e-46 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)
AasI GACNNNNNNGTC 1 cut(s) 460
Acc65I GGTACC 1 cut(s) 402
AccB1I GGYRCC 1 cut(s) 402
AccB7I CCANNNNNTGG 2 cut(s) 83, 374
AciI CCGC 1 cut(s) 87
AclI AACGTT 1 cut(s) 784
AcsI RAATTY 2 cut(s) 224, 301
AcvI CACGTG 1 cut(s) 812
AfaI GTAC 3 cut(s) 404, 584, 838
AfiI CCNNNNNNNGG 4 cut(s) 83, 374, 425, 506
AflIII ACRYGT 2 cut(s) 809, 811
AgsI TTSAA 6 cut(s) 53, 250, 275, 621, 649, 789
AjnI CCWGG 1 cut(s) 367
AjuI GAANNNNNNNTTGG 4 cut(s) 408, 440, 713, 745
AluBI AGCT 2 cut(s) 74, 645
AluI AGCT 2 cut(s) 74, 645
Alw21I GWGCWC 2 cut(s) 129, 181
AoxI GGCC 2 cut(s) 370, 488
ApeKI GCWGC 1 cut(s) 699
ApoI RAATTY 2 cut(s) 224, 301
AseI ATTAAT 2 cut(s) 132, 237
Asp718I GGTACC 1 cut(s) 402
AspS9I GGNCC 2 cut(s) 26, 365
AsuHPI GGTGA 1 cut(s) 739
AvaII GGWCC 2 cut(s) 26, 365
AxyI CCTNAGG 1 cut(s) 819
BaeI ACNNNNGTAYC 2 cut(s) 99, 132
BanI GGYRCC 1 cut(s) 402
BbrPI CACGTG 1 cut(s) 812
Bbv12I GWGCWC 2 cut(s) 129, 181
BbvI GCAGC 1 cut(s) 711
BccI CCATC 1 cut(s) 500
BceAI ACGGC 1 cut(s) 484
BcgI CGANNNNNNTGC 2 cut(s) 211, 245
BciT130I CCWGG 1 cut(s) 369
BciVI GTATCC 1 cut(s) 100
BfuI GTATCC 1 cut(s) 100
BisI GCNGC 1 cut(s) 700
BlsI GCNGC 1 cut(s) 701
BmcAI AGTACT 1 cut(s) 584
Bme1390I CCNGG 1 cut(s) 369
Bme18I GGWCC 2 cut(s) 26, 365
BmgT120I GGNCC 2 cut(s) 26, 365
BmiI GGNNCC 3 cut(s) 39, 404, 596
BmrFI CCNGG 1 cut(s) 369
BmsI GCATC 1 cut(s) 524
BpmI CTGGAG 1 cut(s) 60
Bsa29I ATCGAT 1 cut(s) 741
BsaAI YACGTR 2 cut(s) 310, 812
BsaJI CCNNGG 3 cut(s) 58, 373, 590
BsaWI WCCGGW 1 cut(s) 103
Bsc4I CCNNNNNNNGG 4 cut(s) 83, 374, 425, 506
Bse1I ACTGG 2 cut(s) 77, 598
Bse21I CCTNAGG 1 cut(s) 819
Bse3DI GCAATG 1 cut(s) 643
BseBI CCWGG 1 cut(s) 369
BseCI ATCGAT 1 cut(s) 741
BseDI CCNNGG 3 cut(s) 58, 373, 590
BseGI GGATG 2 cut(s) 511, 773
BseLI CCNNNNNNNGG 4 cut(s) 83, 374, 425, 506
BseMI GCAATG 1 cut(s) 643
BseNI ACTGG 2 cut(s) 77, 598
BseXI GCAGC 1 cut(s) 711
BsgI GTGCAG 1 cut(s) 430
BshFI GGCC 2 cut(s) 372, 490
BshNI GGYRCC 1 cut(s) 402
BshVI ATCGAT 1 cut(s) 741
BsiHKAI GWGCWC 2 cut(s) 129, 181
BsiSI CCGG 1 cut(s) 104
BslI CCNNNNNNNGG 4 cut(s) 83, 374, 425, 506
BsnI GGCC 2 cut(s) 372, 490
Bsp1286I GDGCHC 2 cut(s) 129, 181
Bsp143I GATC 2 cut(s) 630, 742
Bsp19I CCATGG 1 cut(s) 373
BspACI CCGC 1 cut(s) 87
BspANI GGCC 2 cut(s) 372, 490
BspDI ATCGAT 1 cut(s) 741
BspLI GGNNCC 3 cut(s) 39, 404, 596
BspT107I GGYRCC 1 cut(s) 402
BsrDI GCAATG 1 cut(s) 643
BsrI ACTGG 2 cut(s) 77, 598
BssECI CCNNGG 3 cut(s) 58, 373, 590
BssMI GATC 2 cut(s) 630, 742
BssT1I CCWWGG 2 cut(s) 58, 373
Bst2UI CCWGG 1 cut(s) 369
Bst4CI ACNGT 4 cut(s) 145, 346, 582, 714
BstBAI YACGTR 2 cut(s) 310, 812
BstC8I GCNNGC 2 cut(s) 72, 492
BstDEI CTNAG 1 cut(s) 819
BstDSI CCRYGG 2 cut(s) 373, 590
BstF5I GGATG 2 cut(s) 511, 773
BstKTI GATC 2 cut(s) 633, 745
BstMBI GATC 2 cut(s) 630, 742
BstMWI GCNNNNNNNGC 2 cut(s) 642, 705
BstNI CCWGG 1 cut(s) 369
BstSCI CCNGG 1 cut(s) 367
BstV1I GCAGC 1 cut(s) 711
Bsu15I ATCGAT 1 cut(s) 741
Bsu36I CCTNAGG 1 cut(s) 819
BsuI GTATCC 1 cut(s) 100
BsuRI GGCC 2 cut(s) 372, 490
BsuTUI ATCGAT 1 cut(s) 741
BtgI CCRYGG 2 cut(s) 373, 590
BtsCI GGATG 2 cut(s) 511, 773
BtsI GCAGTG 1 cut(s) 709
BtsIMutI CAGTG 2 cut(s) 141, 709
Cac8I GCNNGC 2 cut(s) 72, 492
Cfr13I GGNCC 2 cut(s) 26, 365
ClaI ATCGAT 1 cut(s) 741
Csp6I GTAC 3 cut(s) 403, 583, 837
CviAII CATG 4 cut(s) 374, 486, 544, 793
CviJI RGCY 8 cut(s) 38, 74, 372, 490, 645, 663, 734, 824
CviKI_1 RGCY 8 cut(s) 38, 74, 372, 490, 645, 663, 734, 824
CviQI GTAC 3 cut(s) 403, 583, 837
DdeI CTNAG 1 cut(s) 819
DpnI GATC 2 cut(s) 632, 744
DpnII GATC 2 cut(s) 630, 742
DraI TTTAAA 1 cut(s) 22
DrdI GACNNNNNNGTC 1 cut(s) 460
DseDI GACNNNNNNGTC 1 cut(s) 460
EciI GGCGGA 1 cut(s) 102
Eco130I CCWWGG 2 cut(s) 58, 373
Eco47I GGWCC 2 cut(s) 26, 365
Eco72I CACGTG 1 cut(s) 812
Eco81I CCTNAGG 1 cut(s) 819
EcoO109I RGGNCCY 1 cut(s) 26
EcoRII CCWGG 1 cut(s) 367
EcoT14I CCWWGG 2 cut(s) 58, 373
ErhI CCWWGG 2 cut(s) 58, 373
FaeI CATG 4 cut(s) 377, 489, 547, 796
FalI AAGNNNNNCTT 4 cut(s) 165, 197, 756, 788
FatI CATG 4 cut(s) 373, 485, 543, 792
Fnu4HI GCNGC 1 cut(s) 700
FokI GGATG 2 cut(s) 518, 780
Fsp4HI GCNGC 1 cut(s) 700
GluI GCNGC 1 cut(s) 700
GsuI CTGGAG 1 cut(s) 60
HaeIII GGCC 2 cut(s) 372, 490
HapII CCGG 1 cut(s) 104
Hin1II CATG 4 cut(s) 377, 489, 547, 796
HincII GTYRAC 1 cut(s) 6
HindII GTYRAC 1 cut(s) 6
HinfI GANTC 4 cut(s) 49, 429, 477, 796
HpaI GTTAAC 1 cut(s) 6
HpaII CCGG 1 cut(s) 104
HphI GGTGA 1 cut(s) 739
Hpy166II GTNNAC 2 cut(s) 6, 365
Hpy188I TCNGA 4 cut(s) 434, 505, 520, 690
Hpy188III TCNNGA 3 cut(s) 275, 481, 649
Hpy8I GTNNAC 2 cut(s) 6, 365
HpyAV CCTTC 3 cut(s) 393, 510, 627
HpyCH4III ACNGT 4 cut(s) 145, 346, 582, 714
HpyCH4IV ACGT 4 cut(s) 309, 461, 784, 811
HpyCH4V TGCA 9 cut(s) 33, 70, 204, 222, 447, 515, 671, 683, 699
HpyF10VI GCNNNNNNNGC 2 cut(s) 642, 705
HpyF3I CTNAG 1 cut(s) 819
HpySE526I ACGT 4 cut(s) 309, 461, 784, 811
Hsp92II CATG 4 cut(s) 377, 489, 547, 796
KpnI GGTACC 1 cut(s) 406
KspAI GTTAAC 1 cut(s) 6
Kzo9I GATC 2 cut(s) 630, 742
LmnI GCTCC 3 cut(s) 43, 79, 176
LpnPI CCDG 9 cut(s) 90, 117, 135, 354, 381, 432, 504, 576, 611
Lsp1109I GCAGC 1 cut(s) 711
LweI GCATC 1 cut(s) 524
MaeII ACGT 4 cut(s) 309, 461, 784, 811
MaeIII GTNAC 4 cut(s) 256, 310, 325, 333
MalI GATC 2 cut(s) 632, 744
MboI GATC 2 cut(s) 630, 742
MboII GAAGA 1 cut(s) 425
MhlI GDGCHC 2 cut(s) 129, 181
MluCI AATT 7 cut(s) 65, 224, 262, 270, 282, 301, 728
MmeI TCCRAC 2 cut(s) 406, 489
MnlI CCTC 4 cut(s) 237, 299, 578, 787
MseI TTAA 7 cut(s) 5, 21, 132, 237, 438, 627, 657
MslI CAYNNNNRTG 3 cut(s) 134, 239, 531
MspI CCGG 1 cut(s) 104
MspR9I CCNGG 1 cut(s) 369
MvaI CCWGG 1 cut(s) 369
MwoI GCNNNNNNNGC 2 cut(s) 642, 705
NcoI CCATGG 1 cut(s) 373
NdeII GATC 2 cut(s) 630, 742
NlaIII CATG 4 cut(s) 377, 489, 547, 796
NlaIV GGNNCC 3 cut(s) 39, 404, 596
NmuCI GTSAC 1 cut(s) 333
PfeI GAWTC 4 cut(s) 49, 429, 477, 796
PflMI CCANNNNNTGG 2 cut(s) 83, 374
PkrI GCNGC 1 cut(s) 701
PmaCI CACGTG 1 cut(s) 812
PmlI CACGTG 1 cut(s) 812
Ppu21I YACGTR 2 cut(s) 310, 812
PpuMI RGGWCCY 1 cut(s) 26
PshBI ATTAAT 2 cut(s) 132, 237
Psp1406I AACGTT 1 cut(s) 784
Psp5II RGGWCCY 1 cut(s) 26
Psp6I CCWGG 1 cut(s) 367
PspCI CACGTG 1 cut(s) 812
PspGI CCWGG 1 cut(s) 367
PspN4I GGNNCC 3 cut(s) 39, 404, 596
PspPI GGNCC 2 cut(s) 26, 365
PspPPI RGGWCCY 1 cut(s) 26
RsaI GTAC 3 cut(s) 404, 584, 838
RsaNI GTAC 3 cut(s) 403, 583, 837
RseI CAYNNNNRTG 3 cut(s) 134, 239, 531
SaqAI TTAA 7 cut(s) 5, 21, 132, 237, 438, 627, 657
SatI GCNGC 1 cut(s) 700
Sau3AI GATC 2 cut(s) 630, 742
Sau96I GGNCC 2 cut(s) 26, 365
ScaI AGTACT 1 cut(s) 584
ScrFI CCNGG 1 cut(s) 369
SduI GDGCHC 2 cut(s) 129, 181
SfaNI GCATC 1 cut(s) 524
SinI GGWCC 2 cut(s) 26, 365
SmiMI CAYNNNNRTG 3 cut(s) 134, 239, 531
Sse9I AATT 7 cut(s) 65, 224, 262, 270, 282, 301, 728
SsiI CCGC 1 cut(s) 87
StyD4I CCNGG 1 cut(s) 367
StyI CCWWGG 2 cut(s) 58, 373
TaaI ACNGT 4 cut(s) 145, 346, 582, 714
TaiI ACGT 4 cut(s) 312, 464, 787, 814
TaqI TCGA 2 cut(s) 291, 741
TasI AATT 7 cut(s) 65, 224, 262, 270, 282, 301, 728
TatI WGTACW 1 cut(s) 582
TfiI GAWTC 4 cut(s) 49, 429, 477, 796
Tru1I TTAA 7 cut(s) 5, 21, 132, 237, 438, 627, 657
Tru9I TTAA 7 cut(s) 5, 21, 132, 237, 438, 627, 657
TscAI CASTG 2 cut(s) 148, 709
TseFI GTSAC 1 cut(s) 333
TseI GCWGC 1 cut(s) 699
Tsp45I GTSAC 1 cut(s) 333
TspDTI ATGAA 1 cut(s) 809
TspRI CASTG 2 cut(s) 148, 709
Van91I CCANNNNNTGG 2 cut(s) 83, 374
VpaK11BI GGWCC 2 cut(s) 26, 365
VspI ATTAAT 2 cut(s) 132, 237
XapI RAATTY 2 cut(s) 224, 301
ZrmI AGTACT 1 cut(s) 584
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.