Basic Information
Gene Model:Bol034488
Gene Family:U-box Gene Family
Chromosome:C03
Scaffold:Scaffold000039
Sequence:
 | 
Gene Structure
Nucleotide Length:5712 bp
Transcript Length:3060 bp
Protein Length:1019 aa
Strand:-
Location:C03: 3645792 : 3651503
Gene CDSs(11): 1-83 | 395-584 | 679-896 | 1089-1180 | 1302-1507 | 1743-1835 | 1916-1972 | 2047-2175 | 2559-3153 | 3877-4946 | 5386-5712 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR11782ADENOSINE/GUANOSINE 622 1019 2e-273IPR000407Nucleoside phosphatase GDA1/CD39
HMMPantherPTHR11782:SF8ADENOSINE DIPHOSPHAT 622 1019 2e-273Not foundNot found
HMMPfamPF04564U-box 85 158 1.9e-14IPR003613U box domain
HMMPfamPF01150GDA1_CD39 621 1019 1.6e-121IPR000407Nucleoside phosphatase GDA1/CD39
HMMSmartSM00504no description 89 151 1e-13IPR003613U box domain
Gene3DG3DSA:1.25.10.10no description 170 416 2.8e-09IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 82 158 9.2e-19Not foundNot found
superfamilySSF48371ARM repeat 125 412 3e-28IPR016024Armadillo-type fold
superfamilySSF57850RING/U-box 69 152 3.6e-09Not foundNot found
PatternScanPS01238GDA1_CD39_NTPASE 747 762 NAIPR000407Nucleoside phosphatase GDA1/CD39
Segsegseg 854 865 NANot foundNot found
Segsegseg 903 913 NANot foundNot found
Segsegseg 298 313 NANot foundNot found
Segsegseg 532 546 NANot foundNot found
Segsegseg 579 597 NANot foundNot found
Segsegseg 649 661 NANot foundNot found
Segsegseg 2 11 NANot foundNot found
Segsegseg 16 28 NANot foundNot found
Segsegseg 65 88 NANot foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0000151 Cellular Component ubiquitin ligase complex
GO:0004842 Molecular Function ubiquitin-protein ligase activity
GO:0005488 Molecular Function binding
GO:0016567 Biological Process protein ubiquitination
GO:0016787 Molecular Function hydrolase activity
Swiss-Prot
Best HitE_value Description
P805951e-120APY_SOLTU Apyrase OS=Solanum tuberosum GN=RROP1 PE=1 SV=2
TrEMBL
Best HitE_value Description
Q9M7B30.0Q9M7B3_ARATH Apyrase OS=Arabidopsis thaliana GN=Atapy2 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description

Note: this gene was not detected its best hit in KEGG database.

Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1534(17 genes,8 taxa):Arabidopsis thalianaAT3G04080.1
ORTHOMCL1534(17 genes,8 taxa):Arabidopsis thalianaAT5G18280.2
ORTHOMCL1534(17 genes,8 taxa):Brassica oleraceaBol001208
ORTHOMCL1534(17 genes,8 taxa):Brassica oleraceaBol001954
ORTHOMCL1534(17 genes,8 taxa):Brassica oleraceaBol019729
ORTHOMCL1534(17 genes,8 taxa):Brassica oleraceaBol034488
ORTHOMCL1534(17 genes,8 taxa):Brassica rapaBra002150
ORTHOMCL1534(17 genes,8 taxa):Brassica rapaBra006450
ORTHOMCL1534(17 genes,8 taxa):Brassica rapaBra031947
ORTHOMCL1534(17 genes,8 taxa):Brassica rapaBra040151
ORTHOMCL1534(17 genes,8 taxa):Vitis viniferaGSVIVT01038278001
ORTHOMCL1534(17 genes,8 taxa):Oryza sativaOs07t0682800-01
ORTHOMCL1534(17 genes,8 taxa):Populus trichocarpaPOPTR_0013s05040.1
ORTHOMCL1534(17 genes,8 taxa):Populus trichocarpaPOPTR_0019s04650.1
ORTHOMCL1534(17 genes,8 taxa):Sorghum bicolorSb01g036510.1
ORTHOMCL1534(17 genes,8 taxa):Sorghum bicolorSb02g043200.1
ORTHOMCL1534(17 genes,8 taxa):Carica papayaevm.TU.supercontig_676.2
Tandem Duplication
ClusterGene Num.Gene List
Cluster_2713Bol034488 Bol034489 Bol034491 
Synteny Analysis
Synteny Genes
Compared to A.thaliana Compared to B.rapa
Synteny Regions
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:1982512..4896037 (+)A.thalianaChr5:4002775..7686779 (+)386
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:3384356..7484156 (+)B.rapaA10:5981599..12607476 (+)333
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
RAT5G1828060505146054875Chr5Subgenome_II626
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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