Basic Information
Gene Model:Bol024918
Gene Family:U-box Gene Family
Chromosome:C03
Scaffold:Scaffold000090
Sequence:
 | 
Gene Structure
Nucleotide Length:1611 bp
Transcript Length:1611 bp
Protein Length:536 aa
Strand:+
Location:C03: 39891535 : 39893145
Gene CDSs(1): 1-1611 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Segsegseg 491 507 NANot foundNot found
Segsegseg 255 263 NANot foundNot found
Segsegseg 213 217 NANot foundNot found
Segsegseg 198 207 NANot foundNot found
Segsegseg 155 169 NANot foundNot found
Segsegseg 6 20 NANot foundNot found
superfamilySSF57850RING/U-box 27 104 5.8e-09Not foundNot found
superfamilySSF48371ARM repeat 220 494 1.6e-46IPR016024Armadillo-type fold
HMMPantherPTHR23315BETA CATENIN-RELATED 254 390 2.1e-14Not foundNot found
HMMPantherPTHR23315:SF7ANKYRIN-REPEAT-ARM D 254 390 2.1e-14Not foundNot found
Gene3DG3DSA:3.30.40.10no description 27 104 2.9e-17Not foundNot found
Gene3DG3DSA:1.25.10.10no description 216 488 2.1e-40IPR011989Armadillo-like helical
HMMPfamPF00514Arm 326 367 1.6e-05IPR000225Armadillo
HMMPfamPF04564U-box 30 58 7.6e-12IPR003613U box domain
HMMPfamPF00514Arm 285 325 6.8e-06IPR000225Armadillo
HMMSmartSM00185no description 407 450 9.4IPR000225Armadillo
HMMSmartSM00185no description 368 406 2.6e+02IPR000225Armadillo
HMMSmartSM00185no description 326 367 2.7IPR000225Armadillo
HMMSmartSM00185no description 285 325 0.31IPR000225Armadillo
HMMSmartSM00185no description 243 284 2.1e+02IPR000225Armadillo
HMMSmartSM00504no description 34 97 1.7e-19IPR003613U box domain
ProfileScanPS50176ARM_REPEAT 337 380 9.152IPR000225Armadillo
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
Swiss-Prot
Best HitE_value Description
Q9STT10.0PUB39_ARATH U-box domain-containing protein 39 OS=Arabidopsis thaliana GN=PUB39 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9IEL81e-142B9IEL8_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_902475 PE=4 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
ORTHOMCL11679(7 genes,3 taxa):Arabidopsis thalianaAT3G47820.1
ORTHOMCL11679(7 genes,3 taxa):Arabidopsis thalianaAT5G62560.1
ORTHOMCL11679(7 genes,3 taxa):Brassica oleraceaBol019195
ORTHOMCL11679(7 genes,3 taxa):Brassica oleraceaBol020697
ORTHOMCL11679(7 genes,3 taxa):Brassica oleraceaBol024918
ORTHOMCL11679(7 genes,3 taxa):Brassica rapaBra029250
ORTHOMCL11679(7 genes,3 taxa):Brassica rapaBra035890
Tandem Duplication
ClusterGene Num.Gene List

The tandem genes of this gene was not detected with strict parameters, so there is no information collected in Bolbase.

Synteny Analysis
Synteny Genes
Compared to A.thaliana Compared to B.rapa
Synteny Regions
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:38950224..40121817 (+)A.thalianaChr3:17313646..17712866 (+)43
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:39684679..40637539 (+)B.rapaA07:4445219..5071790 (+)18
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
MAT3G478201764442817646160Chr3Subgenome_III(LF)117
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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