Basic Information
Gene Model:Bol000236
Gene Family:U-box Gene Family
Chromosome:Cun
Scaffold:Scaffold000960
Sequence:
 | 
Gene Structure
Nucleotide Length:2019 bp
Transcript Length:2019 bp
Protein Length:672 aa
Strand:+
Location:Scaffold000960: 766 : 2784
Gene CDSs(1): 1-2019 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
superfamilySSF48371ARM repeat 311 643 1.2e-38IPR016024Armadillo-type fold
superfamilySSF57850RING/U-box 254 339 3.5e-14Not foundNot found
Gene3DG3DSA:3.30.40.10no description 267 344 9.4e-26Not foundNot found
Gene3DG3DSA:1.25.10.10no description 369 650 1.1e-25IPR011989Armadillo-like helical
HMMPfamPF04564U-box 270 344 1.9e-31IPR003613U box domain
HMMPfamPF00514Arm 396 436 5.7e-08IPR000225Armadillo
Segsegseg 462 472 NANot foundNot found
Segsegseg 624 635 NANot foundNot found
HMMPantherPTHR23258:SF448RECEPTOR PROTEIN KIN 272 349 6.2e-13Not foundNot found
HMMPantherPTHR23258SERINE-THREONINE PRO 272 349 6.2e-13Not foundNot found
ProfileScanPS50176ARM_REPEAT 407 449 12.092IPR000225Armadillo
Coilcoilcoiled-coil 208 229 NANot foundNot found
HMMSmartSM00504no description 274 337 1e-32IPR003613U box domain
HMMSmartSM00185no description 395 436 0.00032IPR000225Armadillo
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
Q9LZW30.0PUB16_ARATH U-box domain-containing protein 16 OS=Arabidopsis thaliana GN=PUB16 PE=2 SV=1
TrEMBL
Best HitE_value Description

Note: this gene was not detected its best hit in TrEMBL database.

KEGG
Best HitE_valueKOEC or Symbol Description
tps:THAPSDRAFT_2613253e-06K08332VAC8vacuolar protein 8
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL4074(12 genes,8 taxa):Arabidopsis thalianaAT5G01830.1
ORTHOMCL4074(12 genes,8 taxa):Brassica oleraceaBol000236
ORTHOMCL4074(12 genes,8 taxa):Brassica rapaBra001998
ORTHOMCL4074(12 genes,8 taxa):Brassica rapaBra019022
ORTHOMCL4074(12 genes,8 taxa):Vitis viniferaGSVIVT01030205001
ORTHOMCL4074(12 genes,8 taxa):Oryza sativaOs01t0823900-01
ORTHOMCL4074(12 genes,8 taxa):Oryza sativaOs05t0476700-01
ORTHOMCL4074(12 genes,8 taxa):Populus trichocarpaPOPTR_0006s10810.1
ORTHOMCL4074(12 genes,8 taxa):Populus trichocarpaPOPTR_0016s14150.1
ORTHOMCL4074(12 genes,8 taxa):Sorghum bicolorSb03g038360.1
ORTHOMCL4074(12 genes,8 taxa):Sorghum bicolorSb09g023380.1
ORTHOMCL4074(12 genes,8 taxa):Carica papayaevm.TU.supercontig_86.33
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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