Basic Information
Gene Model:Bol025462
Gene Family:U-box Gene Family
Chromosome:Cun
Scaffold:Scaffold000087_P1
Sequence:
 | 
Gene Structure
Nucleotide Length:3382 bp
Transcript Length:2406 bp
Protein Length:801 aa
Strand:+
Location:Scaffold000087_P1: 203738 : 207119
Gene CDSs(3): 1-537 | 1204-1513 | 1824-3382 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
superfamilySSF48371ARM repeat 436 787 6.5e-19IPR016024Armadillo-type fold
superfamilySSF57850RING/U-box 4 94 6.6e-10Not foundNot found
superfamilySSF48371ARM repeat 68 521 5.2e-52IPR016024Armadillo-type fold
Segsegseg 691 700 NANot foundNot found
Segsegseg 726 737 NANot foundNot found
Segsegseg 507 519 NANot foundNot found
Segsegseg 614 625 NANot foundNot found
Segsegseg 3 14 NANot foundNot found
Segsegseg 481 493 NANot foundNot found
HMMSmartSM00185no description 705 747 1.1e+02IPR000225Armadillo
HMMSmartSM00185no description 577 619 74IPR000225Armadillo
HMMSmartSM00185no description 660 701 25IPR000225Armadillo
HMMSmartSM00185no description 341 386 3e+02IPR000225Armadillo
HMMSmartSM00185no description 433 475 3.1e+02IPR000225Armadillo
HMMSmartSM00185no description 175 215 33IPR000225Armadillo
HMMSmartSM00185no description 301 340 32IPR000225Armadillo
HMMSmartSM00504no description 26 94 2.5e-25IPR003613U box domain
HMMSmartSM00185no description 133 173 72IPR000225Armadillo
HMMPfamPF04564U-box 27 101 9.8e-17IPR003613U box domain
HMMPfamPF02985HEAT 138 175 0.085IPR000357HEAT
HMMPfamPF00514Arm 175 215 0.034IPR000225Armadillo
Coilcoilcoiled-coil 247 268 NANot foundNot found
HMMPantherPTHR22849WDSAM1 PROTEIN 23 109 1e-06Not foundNot found
Gene3DG3DSA:1.25.10.10no description 438 787 5.3e-11IPR011989Armadillo-like helical
Gene3DG3DSA:1.25.10.10no description 110 436 1.7e-36IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 19 101 3.8e-17Not 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
Q9LM760.0PUB44_ARATH U-box domain-containing protein 44 OS=Arabidopsis thaliana GN=PUB44 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9NDM50.0B9NDM5_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_593178 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
pan:PODANSg83153e-07K08332VAC8vacuolar protein 8
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1098(19 genes,8 taxa):Arabidopsis thalianaAT1G20780.1
ORTHOMCL1098(19 genes,8 taxa):Arabidopsis thalianaAT1G76390.1
ORTHOMCL1098(19 genes,8 taxa):Brassica oleraceaBol007008
ORTHOMCL1098(19 genes,8 taxa):Brassica oleraceaBol025462
ORTHOMCL1098(19 genes,8 taxa):Brassica oleraceaBol027639
ORTHOMCL1098(19 genes,8 taxa):Brassica rapaBra012249
ORTHOMCL1098(19 genes,8 taxa):Brassica rapaBra015754
ORTHOMCL1098(19 genes,8 taxa):Brassica rapaBra016453
ORTHOMCL1098(19 genes,8 taxa):Vitis viniferaGSVIVT01013395001
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs03t0657100-01
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs12t0277000-01
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs12t0277000-02
ORTHOMCL1098(19 genes,8 taxa):Oryza sativaOs12t0277400-01
ORTHOMCL1098(19 genes,8 taxa):Populus trichocarpaPOPTR_0002s00910.1
ORTHOMCL1098(19 genes,8 taxa):Populus trichocarpaPOPTR_0005s27480.1
ORTHOMCL1098(19 genes,8 taxa):Sorghum bicolorSb02g032190.1
ORTHOMCL1098(19 genes,8 taxa):Sorghum bicolorSb04g038540.1
ORTHOMCL1098(19 genes,8 taxa):Sorghum bicolorSb08g010420.1
ORTHOMCL1098(19 genes,8 taxa):Carica papayaevm.TU.supercontig_26.166
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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