Basic Information
Gene Model:Bol036591
Gene Family:U-box Gene Family
Chromosome:C01
Scaffold:Scaffold000028
Sequence:
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Gene Structure
Nucleotide Length:2040 bp
Transcript Length:2040 bp
Protein Length:679 aa
Strand:+
Location:C01: 22029097 : 22031136
Gene CDSs(1): 1-2040 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR22849WDSAM1 PROTEIN 276 355 1.8e-10Not foundNot found
HMMSmartSM00185no description 531 573 2.4e+02IPR000225Armadillo
HMMSmartSM00185no description 575 616 73IPR000225Armadillo
HMMSmartSM00504no description 277 340 9.6e-29IPR003613U box domain
HMMSmartSM00185no description 402 442 0.00022IPR000225Armadillo
HMMPfamPF00514Arm 402 442 2.7e-07IPR000225Armadillo
HMMPfamPF04564U-box 278 347 7.1e-19IPR003613U box domain
ProfileScanPS50176ARM_REPEAT 413 455 10.727IPR000225Armadillo
superfamilySSF57850RING/U-box 257 343 8e-14Not foundNot found
superfamilySSF48371ARM repeat 314 667 1.6e-35IPR016024Armadillo-type fold
Gene3DG3DSA:3.30.40.10no description 277 344 4.1e-18Not foundNot found
Gene3DG3DSA:1.25.10.10no description 387 667 5.3e-25IPR011989Armadillo-like helical
Segsegseg 342 356 NANot foundNot found
Segsegseg 451 456 NANot foundNot found
Segsegseg 607 617 NANot foundNot found
Segsegseg 255 267 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
Swiss-Prot
Best HitE_value Description
O807420.0PUB19_ARATH U-box domain-containing protein 19 OS=Arabidopsis thaliana GN=PUB19 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-06K08332VAC8vacuolar 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.oleraceaC01:19705347..22433011 (+)A.thalianaChr1:21263420..22327359 (+)61
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC01:20274073..22464861 (+)B.rapaA09:30274059..31263929 (-)23
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
DAT1G601902219840322200678Chr1Subgenome_I92
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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