Basic Information
Gene Model:Bol033248
Gene Family:U-box Gene Family
Chromosome:C04
Scaffold:Scaffold000044
Sequence:
 | 
Gene Structure
Nucleotide Length:2588 bp
Transcript Length:1965 bp
Protein Length:654 aa
Strand:-
Location:C04: 32033767 : 32036354
Gene CDSs(4): 1-1146 | 1229-1663 | 2091-2207 | 2322-2588 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS50176ARM_REPEAT 523 557 8.767IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 441 483 8.627IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 398 441 10.447IPR000225Armadillo
HMMPfamPF00514Arm 512 552 0.006IPR000225Armadillo
HMMPfamPF00514Arm 553 593 8.6e-05IPR000225Armadillo
HMMPfamPF00514Arm 471 511 2.4e-08IPR000225Armadillo
HMMPfamPF00514Arm 387 428 9.8e-08IPR000225Armadillo
HMMPfamPF00514Arm 429 470 0.013IPR000225Armadillo
HMMPfamPF04564U-box 249 323 1.4e-34IPR003613U box domain
HMMSmartSM00185no description 512 552 13IPR000225Armadillo
HMMSmartSM00185no description 553 593 70IPR000225Armadillo
HMMSmartSM00185no description 471 511 0.03IPR000225Armadillo
HMMSmartSM00185no description 429 470 1.4e+02IPR000225Armadillo
HMMSmartSM00185no description 387 428 0.027IPR000225Armadillo
HMMSmartSM00504no description 253 316 1.6e-32IPR003613U box domain
Segsegseg 333 352 NANot foundNot found
Segsegseg 124 136 NANot foundNot found
Segsegseg 34 45 NANot foundNot found
HMMPantherPTHR22849WDSAM1 PROTEIN 233 331 2.6e-13Not foundNot found
Gene3DG3DSA:1.25.10.10no description 358 642 1.2e-52IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 246 323 2.2e-27Not foundNot found
superfamilySSF48371ARM repeat 290 635 7.7e-65IPR016024Armadillo-type fold
superfamilySSF57850RING/U-box 233 318 5.2e-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
Q9ZV310.0PUB12_ARATH U-box domain-containing protein 12 OS=Arabidopsis thaliana GN=PUB12 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9HPI50.0B9HPI5_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_723298 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description

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

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.oleraceaC04:30013331..32585741 (+)A.thalianaChr2:11329870..12685087 (+)118
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC04:30146190..32100648 (+)B.rapaA07:1081313..2011461 (-)54
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
IAT2G288301236674812370684Chr2Subgenome_I129
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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