Basic Information
Gene Model:Bol018774
Gene Family:U-box Gene Family
Chromosome:C01
Scaffold:Scaffold000137
Sequence:
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Gene Structure
Nucleotide Length:2452 bp
Transcript Length:1986 bp
Protein Length:661 aa
Strand:-
Location:C01: 15040202 : 15042653
Gene CDSs(4): 1-270 | 564-680 | 766-1215 | 1304-2452 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR23315BETA CATENIN-RELATED 369 582 1e-14Not foundNot found
HMMPantherPTHR23315:SF7ANKYRIN-REPEAT-ARM D 369 582 1e-14Not foundNot found
HMMPfamPF00514Arm 465 505 3.8e-07IPR000225Armadillo
HMMPfamPF00514Arm 547 587 2.2e-06IPR000225Armadillo
HMMPfamPF00514Arm 383 423 1.4e-10IPR000225Armadillo
HMMPfamPF00514Arm 424 464 2.5e-06IPR000225Armadillo
HMMPfamPF04564U-box 256 329 4.5e-30IPR003613U box domain
Coilcoilcoiled-coil 620 648 NANot foundNot found
superfamilySSF57850RING/U-box 239 325 8.9e-17Not foundNot found
superfamilySSF48371ARM repeat 296 629 7.3e-69IPR016024Armadillo-type fold
Segsegseg 631 648 NANot foundNot found
Segsegseg 330 344 NANot foundNot found
Gene3DG3DSA:1.25.10.10no description 349 636 1.3e-61IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 252 329 3.3e-28Not foundNot found
ProfileScanPS50176ARM_REPEAT 517 559 9.152IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 394 436 13.177IPR000225Armadillo
HMMSmartSM00185no description 589 629 96IPR000225Armadillo
HMMSmartSM00185no description 506 546 9.7IPR000225Armadillo
HMMSmartSM00185no description 547 587 17IPR000225Armadillo
HMMSmartSM00185no description 465 505 0.8IPR000225Armadillo
HMMSmartSM00185no description 383 423 4.7e-06IPR000225Armadillo
HMMSmartSM00185no description 424 464 0.064IPR000225Armadillo
HMMSmartSM00504no description 259 322 8.1e-35IPR003613U box domain
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_415285e-20K08332VAC8vacuolar 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.oleraceaC01:15023523..15625145 (+)A.thalianaChr3:17103173..17316566 (+)14
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC01:15023523..17947490 (+)B.rapaA06:9835441..10990807 (+)22
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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