Basic Information
Gene Model:Bol036718
Gene Family:U-box Gene Family
Chromosome:C05
Scaffold:Scaffold000027
Sequence:
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Gene Structure
Nucleotide Length:2091 bp
Transcript Length:2091 bp
Protein Length:696 aa
Strand:-
Location:C05: 25576732 : 25578822
Gene CDSs(1): 1-2091 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00185no description 545 584 21IPR000225Armadillo
HMMSmartSM00185no description 588 630 5.7IPR000225Armadillo
HMMSmartSM00185no description 419 459 0.0035IPR000225Armadillo
HMMSmartSM00185no description 460 500 1.3e+02IPR000225Armadillo
HMMSmartSM00504no description 290 353 4e-26IPR003613U box domain
Gene3DG3DSA:1.25.10.10no description 394 673 3.6e-22IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 290 360 1.2e-19Not foundNot found
Segsegseg 636 646 NANot foundNot found
Segsegseg 265 271 NANot foundNot found
Coilcoilcoiled-coil 217 238 NANot foundNot found
HMMPfamPF00514Arm 419 459 1.3e-07IPR000225Armadillo
HMMPfamPF04564U-box 291 360 1.1e-18IPR003613U box domain
ProfileScanPS50176ARM_REPEAT 556 600 10.762IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 430 472 8.837IPR000225Armadillo
superfamilySSF57850RING/U-box 270 356 4.6e-14Not foundNot found
superfamilySSF48371ARM repeat 327 674 4.5e-39IPR016024Armadillo-type fold
HMMPantherPTHR22904TPR REPEAT CONTAININ 291 359 1.7e-08Not foundNot found
HMMPantherPTHR22904:SF27CARBOXY TERMINUS OF 291 359 1.7e-08Not 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
Q9XIJ50.0PUB18_ARATH U-box domain-containing protein 18 OS=Arabidopsis thaliana GN=PUB18 PE=2 SV=1
TrEMBL
Best HitE_value Description
A7Q2D41e-156A7Q2D4_VITVI Chromosome chr1 scaffold_46, whole genome shotgun sequence OS=Vitis vinifera GN=GSVIVT00028839001 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
vcn:VOLCADRAFT_415283e-07K08332VAC8vacuolar protein 8
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL2291(14 genes,8 taxa):Arabidopsis thalianaAT1G10560.1
ORTHOMCL2291(14 genes,8 taxa):Arabidopsis thalianaAT1G60190.1
ORTHOMCL2291(14 genes,8 taxa):Brassica oleraceaBol036591
ORTHOMCL2291(14 genes,8 taxa):Brassica oleraceaBol036718
ORTHOMCL2291(14 genes,8 taxa):Brassica rapaBra019924
ORTHOMCL2291(14 genes,8 taxa):Brassica rapaBra031521
ORTHOMCL2291(14 genes,8 taxa):Vitis viniferaGSVIVT01020229001
ORTHOMCL2291(14 genes,8 taxa):Oryza sativaOs08t0415600-00
ORTHOMCL2291(14 genes,8 taxa):Oryza sativaOs09t0378700-00
ORTHOMCL2291(14 genes,8 taxa):Populus trichocarpaPOPTR_0012s08030.1
ORTHOMCL2291(14 genes,8 taxa):Populus trichocarpaPOPTR_0015s08550.1
ORTHOMCL2291(14 genes,8 taxa):Sorghum bicolorSb02g023630.1
ORTHOMCL2291(14 genes,8 taxa):Carica papayaevm.TU.supercontig_124.32
ORTHOMCL2291(14 genes,8 taxa):Carica papayaevm.TU.supercontig_69.14
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.oleraceaC05:24991074..26433437 (-)A.thalianaChr1:2936528..3985215 (+)165
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC05:25518352..26276845 (+)B.rapaA09:1777452..2077156 (-)40
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
AAT1G1056034845803486965Chr1Subgenome_III(LF)171
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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