Basic Information
Gene Model:Bol008579
Gene Family:U-box Gene Family
Chromosome:C03
Scaffold:Scaffold000245
Sequence:
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Gene Structure
Nucleotide Length:2160 bp
Transcript Length:2160 bp
Protein Length:719 aa
Strand:+
Location:C03: 44740354 : 44742513
Gene CDSs(1): 1-2160 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF00514Arm 426 466 4e-09IPR000225Armadillo
HMMPfamPF00514Arm 512 551 0.0018IPR000225Armadillo
HMMPfamPF00514Arm 552 590 0.009IPR000225Armadillo
HMMPfamPF04564U-box 291 365 4.3e-23IPR003613U box domain
superfamilySSF57850RING/U-box 273 358 4e-12Not foundNot found
superfamilySSF48371ARM repeat 332 676 3.3e-52IPR016024Armadillo-type fold
ProfileScanPS50176ARM_REPEAT 522 564 8.977IPR000225Armadillo
ProfileScanPS50176ARM_REPEAT 437 479 8.627IPR000225Armadillo
HMMPantherPTHR22849WDSAM1 PROTEIN 292 373 2.4e-11Not foundNot found
Gene3DG3DSA:1.25.10.10no description 396 683 7.4e-36IPR011989Armadillo-like helical
Gene3DG3DSA:3.30.40.10no description 288 365 5.7e-26Not foundNot found
Segsegseg 706 718 NANot foundNot found
Segsegseg 688 702 NANot foundNot found
Segsegseg 661 672 NANot foundNot found
Segsegseg 575 589 NANot foundNot found
Segsegseg 272 288 NANot foundNot found
Segsegseg 96 115 NANot foundNot found
Segsegseg 86 93 NANot foundNot found
Segsegseg 8 18 NANot foundNot found
HMMSmartSM00185no description 552 590 0.024IPR000225Armadillo
HMMSmartSM00185no description 469 509 39IPR000225Armadillo
HMMSmartSM00185no description 511 551 0.12IPR000225Armadillo
HMMSmartSM00185no description 426 466 0.058IPR000225Armadillo
HMMSmartSM00504no description 295 358 2.1e-29IPR003613U box domain
HMMSmartSM00185no description 382 424 2.2e+02IPR000225Armadillo
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:Pc21g033005e-08K08332VAC8vacuolar 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.oleraceaC03:43984041..45229545 (+)A.thalianaChr2:14268269..14573856 (+)24
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:43718915..44761567 (+)B.rapaA09:21725957..22850054 (+)34
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
BAT1G293401026439510266818Chr1Subgenome_II145
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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