Basic Information
Gene Model:Bol041392
Gene Family:U-box Gene Family
Chromosome:C03
Scaffold:Scaffold000011
Sequence:
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Gene Structure
Nucleotide Length:2188 bp
Transcript Length:1971 bp
Protein Length:656 aa
Strand:-
Location:C03: 35763128 : 35765315
Gene CDSs(4): 1-1149 | 1221-1655 | 1733-1849 | 1919-2188 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF00514Arm 542 582 1.2e-05IPR000225Armadillo
HMMPfamPF00514Arm 460 500 1.4e-06IPR000225Armadillo
HMMPfamPF00514Arm 419 459 2.5e-06IPR000225Armadillo
HMMPfamPF00514Arm 378 418 1.4e-10IPR000225Armadillo
HMMPfamPF04564U-box 251 324 1.2e-30IPR003613U box domain
Gene3DG3DSA:1.25.10.10no description 344 631 1.1e-60IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 247 324 1.1e-28Not foundNot found
Segsegseg 640 656 NANot foundNot found
Segsegseg 325 343 NANot foundNot found
HMMSmartSM00185no description 584 624 96IPR000225Armadillo
HMMSmartSM00185no description 542 582 35IPR000225Armadillo
HMMSmartSM00185no description 501 541 9.4IPR000225Armadillo
HMMSmartSM00185no description 460 500 3IPR000225Armadillo
HMMSmartSM00185no description 419 459 0.064IPR000225Armadillo
HMMSmartSM00185no description 378 418 4.7e-06IPR000225Armadillo
HMMSmartSM00504no description 254 317 3.6e-36IPR003613U box domain
ProfileScanPS50176ARM_REPEAT 512 549 8.872IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 389 431 13.177IPR000225Armadillo
HMMPantherPTHR23315BETA CATENIN-RELATED 364 538 7.5e-15Not foundNot found
HMMPantherPTHR23315:SF7ANKYRIN-REPEAT-ARM D 364 538 7.5e-15Not foundNot found
superfamilySSF57850RING/U-box 250 309 3.7e-10Not foundNot found
superfamilySSF48371ARM repeat 291 624 3.9e-68IPR016024Armadillo-type fold
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
Q9SNC60.0PUB13_ARATH U-box domain-containing protein 13 OS=Arabidopsis thaliana GN=PUB13 PE=2 SV=1
TrEMBL
Best HitE_value Description
A7NZ270.0A7NZ27_VITVI Chromosome chr6 scaffold_3, whole genome shotgun sequence OS=Vitis vinifera GN=GSVIVT00024348001 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
vcn:VOLCADRAFT_415282e-19K08332VAC8vacuolar protein 8
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL602(25 genes,8 taxa):Arabidopsis thalianaAT2G28830.1
ORTHOMCL602(25 genes,8 taxa):Arabidopsis thalianaAT3G46510.1
ORTHOMCL602(25 genes,8 taxa):Arabidopsis thalianaAT3G54850.1
ORTHOMCL602(25 genes,8 taxa):Brassica oleraceaBol018774
ORTHOMCL602(25 genes,8 taxa):Brassica oleraceaBol033248
ORTHOMCL602(25 genes,8 taxa):Brassica oleraceaBol041392
ORTHOMCL602(25 genes,8 taxa):Brassica oleraceaBol045384
ORTHOMCL602(25 genes,8 taxa):Brassica rapaBra007105
ORTHOMCL602(25 genes,8 taxa):Brassica rapaBra018212
ORTHOMCL602(25 genes,8 taxa):Brassica rapaBra033820
ORTHOMCL602(25 genes,8 taxa):Brassica rapaBra035665
ORTHOMCL602(25 genes,8 taxa):Vitis viniferaGSVIVT01016225001
ORTHOMCL602(25 genes,8 taxa):Oryza sativaOs03t0275900-01
ORTHOMCL602(25 genes,8 taxa):Oryza sativaOs03t0275900-03
ORTHOMCL602(25 genes,8 taxa):Oryza sativaOs06t0102700-01
ORTHOMCL602(25 genes,8 taxa):Oryza sativaOs12t0570000-01
ORTHOMCL602(25 genes,8 taxa):Populus trichocarpaPOPTR_0001s24550.1
ORTHOMCL602(25 genes,8 taxa):Populus trichocarpaPOPTR_0008s03560.1
ORTHOMCL602(25 genes,8 taxa):Populus trichocarpaPOPTR_0009s03500.1
ORTHOMCL602(25 genes,8 taxa):Populus trichocarpaPOPTR_0010s23330.1
ORTHOMCL602(25 genes,8 taxa):Sorghum bicolorSb01g039580.1
ORTHOMCL602(25 genes,8 taxa):Sorghum bicolorSb08g018765.1
ORTHOMCL602(25 genes,8 taxa):Sorghum bicolorSb10g000280.1
ORTHOMCL602(25 genes,8 taxa):Carica papayaevm.TU.supercontig_53.126
ORTHOMCL602(25 genes,8 taxa):Carica papayaevm.TU.supercontig_81.170
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.oleraceaC03:34916112..36126669 (-)A.thalianaChr5:24003888..24260043 (+)13
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:34027832..36299190 (+)B.rapaA10:8012747..8881908 (+)20
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
MAT3G465101712373917126691Chr3Subgenome_III(LF)117
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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