Basic Information
Gene Model:Bol033996
Gene Family:U-box Gene Family
Chromosome:Cun
Scaffold:Scaffold000040
Sequence:
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Gene Structure
Nucleotide Length:1831 bp
Transcript Length:1368 bp
Protein Length:455 aa
Strand:-
Location:Scaffold000040: 700223 : 702053
Gene CDSs(2): 1-1071 | 1535-1831 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Segsegseg 15 28 NANot foundNot found
Segsegseg 218 229 NANot foundNot found
HMMSmartSM00185no description 241 282 11IPR000225Armadillo
HMMSmartSM00185no description 283 323 3.6IPR000225Armadillo
HMMSmartSM00504no description 79 142 1e-31IPR003613U box domain
HMMPfamPF00514Arm 283 323 0.00015IPR000225Armadillo
HMMPfamPF04564U-box 75 145 8.7e-30IPR003613U box domain
HMMPfamPF00514Arm 241 282 0.0084IPR000225Armadillo
superfamilySSF48371ARM repeat 116 447 2.4e-43IPR016024Armadillo-type fold
superfamilySSF57850RING/U-box 59 145 1.7e-12Not foundNot found
Coilcoilcoiled-coil 14 38 NANot foundNot found
HMMPantherPTHR22849WDSAM1 PROTEIN 77 157 7.4e-12Not foundNot found
Gene3DG3DSA:3.30.40.10no description 72 149 4.7e-26Not foundNot found
Gene3DG3DSA:1.25.10.10no description 166 454 2.1e-24IPR011989Armadillo-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
Q9SRT00.0PUB9_ARATH U-box domain-containing protein 9 OS=Arabidopsis thaliana GN=PUB9 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9T5I01e-160B9T5I0_RICCO Spotted leaf protein, putative OS=Ricinus communis GN=RCOM_0379340 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
ORTHOMCL1774(16 genes,8 taxa):Arabidopsis thalianaAT3G07360.1
ORTHOMCL1774(16 genes,8 taxa):Brassica oleraceaBol007667
ORTHOMCL1774(16 genes,8 taxa):Brassica oleraceaBol008152
ORTHOMCL1774(16 genes,8 taxa):Brassica oleraceaBol033996
ORTHOMCL1774(16 genes,8 taxa):Brassica rapaBra001247
ORTHOMCL1774(16 genes,8 taxa):Brassica rapaBra029642
ORTHOMCL1774(16 genes,8 taxa):Brassica rapaBra040374
ORTHOMCL1774(16 genes,8 taxa):Vitis viniferaGSVIVT01007275001
ORTHOMCL1774(16 genes,8 taxa):Vitis viniferaGSVIVT01026372001
ORTHOMCL1774(16 genes,8 taxa):Oryza sativaOs02t0488600-01
ORTHOMCL1774(16 genes,8 taxa):Populus trichocarpaPOPTR_0002s25000.1
ORTHOMCL1774(16 genes,8 taxa):Populus trichocarpaPOPTR_0013s04900.1
ORTHOMCL1774(16 genes,8 taxa):Populus trichocarpaPOPTR_0013s04930.1
ORTHOMCL1774(16 genes,8 taxa):Populus trichocarpaPOPTR_0019s04500.1
ORTHOMCL1774(16 genes,8 taxa):Sorghum bicolorSb04g019280.1
ORTHOMCL1774(16 genes,8 taxa):Carica papayaevm.TU.supercontig_8.93
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
Note: This gene was not anchored on pseudo-chromosomes.
Synteny Regions
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise

Note: this gene was not anchored on syntenic regions compared to A.thaliana genome.

SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise

Note: this gene was not anchored on syntenic regions compared to B.rapa genome.

Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block

Note: this gene was no corresponding triplicated genes.

 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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