Basic Information
Gene Model:Bol041877
Gene Family:U-box Gene Family
Chromosome:C07
Scaffold:Scaffold000009_P2
Sequence:
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Gene Structure
Nucleotide Length:2136 bp
Transcript Length:2136 bp
Protein Length:711 aa
Strand:+
Location:C07: 17530961 : 17533096
Gene CDSs(1): 1-2136 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS50176ARM_REPEAT 429 471 10.692IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 514 556 8.697IPR000225Armadillo
superfamilySSF57850RING/U-box 266 351 5.1e-12Not foundNot found
superfamilySSF48371ARM repeat 325 668 4.9e-54IPR016024Armadillo-type fold
HMMPfamPF00514Arm 504 543 0.00087IPR000225Armadillo
HMMPfamPF00514Arm 418 458 1.9e-08IPR000225Armadillo
HMMPfamPF04564U-box 284 351 2.6e-24IPR003613U box domain
Segsegseg 698 710 NANot foundNot found
Segsegseg 653 664 NANot foundNot found
Segsegseg 677 687 NANot foundNot found
Segsegseg 91 110 NANot foundNot found
Segsegseg 161 171 NANot foundNot found
Segsegseg 567 580 NANot foundNot found
Segsegseg 83 88 NANot foundNot found
HMMSmartSM00185no description 459 501 37IPR000225Armadillo
HMMSmartSM00185no description 504 543 0.7IPR000225Armadillo
HMMSmartSM00185no description 544 582 0.14IPR000225Armadillo
HMMSmartSM00185no description 418 458 0.052IPR000225Armadillo
HMMSmartSM00185no description 374 416 68IPR000225Armadillo
HMMSmartSM00504no description 288 351 1.1e-28IPR003613U box domain
Gene3DG3DSA:3.30.40.10no description 281 358 3.7e-25Not foundNot found
Gene3DG3DSA:1.25.10.10no description 388 675 1.6e-35IPR011989Armadillo-like helical
HMMPantherPTHR22849WDSAM1 PROTEIN 285 366 2.9e-10Not 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
Q9C7R60.0PUB17_ARATH U-box domain-containing protein 17 OS=Arabidopsis thaliana GN=PUB17 PE=1 SV=1
TrEMBL
Best HitE_value Description
B9S8E70.0B9S8E7_RICCO Ubiquitin-protein ligase, putative OS=Ricinus communis GN=RCOM_1251990 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
pcs:Pc21g033003e-06K08332VAC8vacuolar protein 8
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL2341(14 genes,8 taxa):Arabidopsis thalianaAT1G29340.1
ORTHOMCL2341(14 genes,8 taxa):Brassica oleraceaBol001099
ORTHOMCL2341(14 genes,8 taxa):Brassica oleraceaBol008579
ORTHOMCL2341(14 genes,8 taxa):Brassica oleraceaBol037877
ORTHOMCL2341(14 genes,8 taxa):Brassica oleraceaBol041877
ORTHOMCL2341(14 genes,8 taxa):Brassica rapaBra010834
ORTHOMCL2341(14 genes,8 taxa):Brassica rapaBra021899
ORTHOMCL2341(14 genes,8 taxa):Brassica rapaBra032309
ORTHOMCL2341(14 genes,8 taxa):Vitis viniferaGSVIVT01021265001
ORTHOMCL2341(14 genes,8 taxa):Oryza sativaOs02t0234300-01
ORTHOMCL2341(14 genes,8 taxa):Populus trichocarpaPOPTR_0004s06040.1
ORTHOMCL2341(14 genes,8 taxa):Populus trichocarpaPOPTR_0011s06840.1
ORTHOMCL2341(14 genes,8 taxa):Sorghum bicolorSb04g008430.1
ORTHOMCL2341(14 genes,8 taxa):Carica papayaevm.TU.supercontig_124.4
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.oleraceaC07:16414492..18130108 (+)A.thalianaChr2:14265450..14558697 (+)18
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC07:17304914..18389706 (+)B.rapaA09:33625351..34380807 (+)27
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
BAT1G293401026439510266818Chr1Subgenome_I118
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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