Basic Information
Gene Model:Bol023972
Gene Family:U-box Gene Family
Chromosome:C06
Scaffold:Scaffold000096
Sequence:
 | 
Gene Structure
Nucleotide Length:3414 bp
Transcript Length:3198 bp
Protein Length:1065 aa
Strand:+
Location:C06: 7790036 : 7793449
Gene CDSs(3): 1-1275 | 1373-1682 | 1802-3414 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Gene3DG3DSA:1.25.10.10no description 363 654 3.1e-24IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 265 346 2.9e-14Not foundNot found
HMMSmartSM00185no description 918 958 1.4IPR000225Armadillo
HMMSmartSM00185no description 587 632 1.4e+02IPR000225Armadillo
HMMSmartSM00185no description 830 871 1.4e+02IPR000225Armadillo
HMMSmartSM00185no description 547 586 1.3e+02IPR000225Armadillo
HMMSmartSM00185no description 506 546 4.6e+02IPR000225Armadillo
HMMSmartSM00185no description 421 461 9.2IPR000225Armadillo
HMMSmartSM00185no description 378 418 8.8IPR000225Armadillo
HMMSmartSM00504no description 273 339 9.1e-27IPR003613U box domain
HMMPfamPF00514Arm 918 958 0.0003IPR000225Armadillo
HMMPfamPF02985HEAT 552 588 0.0023IPR000357HEAT
HMMPfamPF04564U-box 274 346 2.7e-08IPR003613U box domain
Segsegseg 451 459 NANot foundNot found
Segsegseg 668 684 NANot foundNot found
superfamilySSF48371ARM repeat 925 1048 1.8e-09IPR016024Armadillo-type fold
superfamilySSF48371ARM repeat 275 871 1e-42IPR016024Armadillo-type fold
HMMPantherPTHR22849WDSAM1 PROTEIN 274 354 1.2e-06Not 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
Q9CAA70.0PUB42_ARATH Putative U-box domain-containing protein 42 OS=Arabidopsis thaliana GN=PUB42 PE=2 SV=1
TrEMBL
Best HitE_value Description
A7PNA60.0A7PNA6_VITVI Chromosome chr1 scaffold_22, whole genome shotgun sequence OS=Vitis vinifera GN=GSVIVT00021163001 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
ORTHOMCL3628(12 genes,7 taxa):Arabidopsis thalianaAT1G68940.3
ORTHOMCL3628(12 genes,7 taxa):Brassica oleraceaBol023972
ORTHOMCL3628(12 genes,7 taxa):Brassica rapaBra004351
ORTHOMCL3628(12 genes,7 taxa):Vitis viniferaGSVIVT01010123001
ORTHOMCL3628(12 genes,7 taxa):Oryza sativaOs02t0727300-01
ORTHOMCL3628(12 genes,7 taxa):Oryza sativaOs02t0727300-02
ORTHOMCL3628(12 genes,7 taxa):Oryza sativaOs02t0727300-03
ORTHOMCL3628(12 genes,7 taxa):Oryza sativaOs06t0275700-01
ORTHOMCL3628(12 genes,7 taxa):Populus trichocarpaPOPTR_0008s11210.1
ORTHOMCL3628(12 genes,7 taxa):Populus trichocarpaPOPTR_0010s14630.1
ORTHOMCL3628(12 genes,7 taxa):Sorghum bicolorSb04g029250.1
ORTHOMCL3628(12 genes,7 taxa):Sorghum bicolorSb10g010280.1
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.oleraceaC06:7048411..7804493 (-)A.thalianaChr1:9086853..9390042 (+)17
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC06:7194910..8644772 (+)B.rapaA07:17832928..18615072 (-)119
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
EAT1G689402592200125925374Chr1Subgenome_III(LF)159
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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