Basic Information
Gene Model:Bol022877
Gene Family:U-box Gene Family
Chromosome:C03
Scaffold:Scaffold000103
Sequence:
 | 
Gene Structure
Nucleotide Length:1275 bp
Transcript Length:1275 bp
Protein Length:424 aa
Strand:-
Location:C03: 23114355 : 23115629
Gene CDSs(1): 1-1275 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00504no description 15 78 4e-23IPR003613U box domain
HMMPfamPF04564U-box 11 78 4.6e-18IPR003613U box domain
Segsegseg 302 315 NANot foundNot found
Segsegseg 201 207 NANot foundNot found
HMMPantherPTHR22849WDSAM1 PROTEIN 12 93 1.7e-07Not foundNot found
superfamilySSF57850RING/U-box 1 78 4.5e-11Not foundNot found
superfamilySSF48371ARM repeat 52 402 9.1e-23IPR016024Armadillo-type fold
Gene3DG3DSA:1.25.10.10no description 201 402 8.2e-06IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 8 85 1.3e-22Not 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
Swiss-Prot
Best HitE_value Description
Q9LSA61e-169PUB29_ARATH U-box domain-containing protein 29 OS=Arabidopsis thaliana GN=PUB29 PE=1 SV=1
TrEMBL
Best HitE_value Description
B1PBZ41e-138B1PBZ4_ARALP Putative uncharacterized protein OS=Arabidopsis lyrata subsp. petraea GN=AP9_G11.1 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
ORTHOMCL12867(6 genes,3 taxa):Arabidopsis thalianaAT3G18710.1
ORTHOMCL12867(6 genes,3 taxa):Brassica oleraceaBol022877
ORTHOMCL12867(6 genes,3 taxa):Brassica oleraceaBol030961
ORTHOMCL12867(6 genes,3 taxa):Brassica rapaBra001717
ORTHOMCL12867(6 genes,3 taxa):Brassica rapaBra022347
ORTHOMCL12867(6 genes,3 taxa):Brassica rapaBra037568
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.oleraceaC03:21661066..23820630 (+)A.thalianaChr3:5305926..6609295 (+)104
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:22167356..23194911 (+)B.rapaA05:4427742..5728726 (+)63
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
FAT3G1871064340836435561Chr3Subgenome_II468
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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