Basic Information
Gene Model:Bol044176
Gene Family:U-box Gene Family
Chromosome:C04
Scaffold:Scaffold000003_P2
Sequence:
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Gene Structure
Nucleotide Length:2402 bp
Transcript Length:2094 bp
Protein Length:697 aa
Strand:+
Location:C04: 24020183 : 24022584
Gene CDSs(3): 1-66 | 140-1910 | 2146-2402 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Segsegseg 49 61 NANot foundNot found
Segsegseg 293 314 NANot foundNot found
Segsegseg 353 371 NANot foundNot found
HMMSmartSM00185no description 604 644 0.51IPR000225Armadillo
HMMSmartSM00185no description 481 521 0.0079IPR000225Armadillo
HMMSmartSM00185no description 522 563 1.5IPR000225Armadillo
HMMSmartSM00185no description 564 603 9.9e-05IPR000225Armadillo
HMMSmartSM00504no description 198 261 6.1e-30IPR003613U box domain
HMMSmartSM00185no description 440 480 0.29IPR000225Armadillo
Gene3DG3DSA:3.30.40.10no description 191 268 1e-26Not foundNot found
Gene3DG3DSA:1.25.10.10no description 413 693 8.8e-51IPR011989Armadillo-like helical
ProfileScanPS50176ARM_REPEAT 451 493 10.027IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 534 576 9.502IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 575 616 12.477IPR000225Armadillo
superfamilySSF57850RING/U-box 178 264 6.8e-13Not foundNot found
superfamilySSF48371ARM repeat 235 686 2.1e-62IPR016024Armadillo-type fold
HMMPfamPF00514Arm 564 603 2.5e-05IPR000225Armadillo
HMMPfamPF00514Arm 604 644 9.3e-05IPR000225Armadillo
HMMPfamPF04564U-box 194 268 4.5e-51IPR003613U box domain
HMMPfamPF00514Arm 440 480 5.5e-09IPR000225Armadillo
HMMPfamPF00514Arm 481 521 1e-06IPR000225Armadillo
HMMPantherPTHR23315BETA CATENIN-RELATED 419 682 2e-14Not 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
Q8GWV50.0PUB3_ARATH U-box domain-containing protein 3 OS=Arabidopsis thaliana GN=PUB3 PE=2 SV=2
TrEMBL
Best HitE_value Description
A8MQL60.0A8MQL6_ARATH Uncharacterized protein At3g54790.2 OS=Arabidopsis thaliana GN=At3g54790 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
vcn:VOLCADRAFT_415284e-17K08332VAC8vacuolar protein 8
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL8034(9 genes,6 taxa):Arabidopsis thalianaAT3G54790.1
ORTHOMCL8034(9 genes,6 taxa):Brassica oleraceaBol008980
ORTHOMCL8034(9 genes,6 taxa):Brassica oleraceaBol044176
ORTHOMCL8034(9 genes,6 taxa):Brassica rapaBra007097
ORTHOMCL8034(9 genes,6 taxa):Brassica rapaBra014787
ORTHOMCL8034(9 genes,6 taxa):Vitis viniferaGSVIVT01028347001
ORTHOMCL8034(9 genes,6 taxa):Populus trichocarpaPOPTR_0002s03870.1
ORTHOMCL8034(9 genes,6 taxa):Populus trichocarpaPOPTR_0005s24700.1
ORTHOMCL8034(9 genes,6 taxa):Carica papayaevm.TU.supercontig_4420.1
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.oleraceaC04:23602699..24081315 (-)A.thalianaChr3:20251841..20348582 (+)10
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC04:21913265..24081315 (+)B.rapaA04:1928639..3098670 (+)87
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
NAT3G547902028153520285126Chr3Subgenome_I84
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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