Basic Information
Gene Model:Bol027639
Gene Family:U-box Gene Family
Chromosome:C06
Scaffold:Scaffold000076
Sequence:
 | 
Gene Structure
Nucleotide Length:2818 bp
Transcript Length:2430 bp
Protein Length:809 aa
Strand:-
Location:C06: 1710724 : 1713541
Gene CDSs(2): 1-1583 | 1972-2818 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00185no description 666 707 9.7IPR000225Armadillo
HMMSmartSM00185no description 711 753 81IPR000225Armadillo
HMMSmartSM00185no description 301 338 1.4e+02IPR000225Armadillo
HMMSmartSM00185no description 339 384 4.3e+02IPR000225Armadillo
HMMSmartSM00185no description 438 480 7.5IPR000225Armadillo
HMMSmartSM00185no description 260 300 1e+02IPR000225Armadillo
HMMSmartSM00185no description 175 215 1.2e+02IPR000225Armadillo
HMMSmartSM00504no description 26 94 1.3e-24IPR003613U box domain
HMMSmartSM00185no description 133 173 4.3e+02IPR000225Armadillo
HMMPfamPF02985HEAT 139 175 0.041IPR000357HEAT
HMMPfamPF04564U-box 22 101 2.3e-12IPR003613U box domain
superfamilySSF57850RING/U-box 4 94 3.2e-10Not foundNot found
superfamilySSF48371ARM repeat 441 793 3.8e-18IPR016024Armadillo-type fold
superfamilySSF48371ARM repeat 28 527 1.1e-43IPR016024Armadillo-type fold
Segsegseg 516 525 NANot foundNot found
Segsegseg 503 513 NANot foundNot found
Segsegseg 208 221 NANot foundNot found
HMMPantherPTHR22849WDSAM1 PROTEIN 23 109 1e-08Not foundNot found
Gene3DG3DSA:3.30.40.10no description 19 101 3.4e-18Not foundNot found
Gene3DG3DSA:1.25.10.10no description 137 441 3.9e-30IPR011989Armadillo-like helical
Gene3DG3DSA:1.25.10.10no description 443 793 2.7e-14IPR011989Armadillo-like helical
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
Q9SFX20.0PUB43_ARATH U-box domain-containing protein 43 OS=Arabidopsis thaliana GN=PUB43 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9NDM50.0B9NDM5_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_593178 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
ORTHOMCL1098(19 genes,8 taxa):Arabidopsis thalianaAT1G20780.1
ORTHOMCL1098(19 genes,8 taxa):Arabidopsis thalianaAT1G76390.1
ORTHOMCL1098(19 genes,8 taxa):Brassica oleraceaBol007008
ORTHOMCL1098(19 genes,8 taxa):Brassica oleraceaBol025462
ORTHOMCL1098(19 genes,8 taxa):Brassica oleraceaBol027639
ORTHOMCL1098(19 genes,8 taxa):Brassica rapaBra012249
ORTHOMCL1098(19 genes,8 taxa):Brassica rapaBra015754
ORTHOMCL1098(19 genes,8 taxa):Brassica rapaBra016453
ORTHOMCL1098(19 genes,8 taxa):Vitis viniferaGSVIVT01013395001
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs03t0657100-01
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs12t0277000-01
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs12t0277000-02
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs12t0277400-01
ORTHOMCL1098(19 genes,8 taxa):Populus trichocarpaPOPTR_0002s00910.1
ORTHOMCL1098(19 genes,8 taxa):Populus trichocarpaPOPTR_0005s27480.1
ORTHOMCL1098(19 genes,8 taxa):Sorghum bicolorSb02g032190.1
ORTHOMCL1098(19 genes,8 taxa):Sorghum bicolorSb04g038540.1
ORTHOMCL1098(19 genes,8 taxa):Sorghum bicolorSb08g010420.1
ORTHOMCL1098(19 genes,8 taxa):Carica papayaevm.TU.supercontig_26.166
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.oleraceaC06:777929..2462610 (-)A.thalianaChr1:6679281..7915003 (+)93
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:766229..2285457 (+)B.rapaA08:1852719..2468415 (+)44
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
EAT1G763902865539928658711Chr1Subgenome_III(LF)587
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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