Basic Information
Gene Model:Bol007668
Gene Family:U-box Gene Family
Chromosome:C05
Scaffold:Scaffold000258
Sequence:
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Gene Structure
Nucleotide Length:2705 bp
Transcript Length:1146 bp
Protein Length:381 aa
Strand:+
Location:C05: 32161132 : 32163836
Gene CDSs(9): 1-129 | 224-334 | 429-582 | 681-814 | 1070-1141 | 1310-1373 | 1451-1518 | 1679-1895 | 2509-2705 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMSmartSM00028no description 181 214 0.6IPR019734Tetratricopeptide repeat
HMMSmartSM00504no description 306 369 1.6e-28IPR003613U box domain
HMMSmartSM00028no description 113 146 0.22IPR019734Tetratricopeptide repeat
HMMSmartSM00028no description 147 180 0.00034IPR019734Tetratricopeptide repeat
Gene3DG3DSA:1.25.40.10no description 111 266 6.9e-29IPR011990Tetratricopeptide-like helical
Gene3DG3DSA:3.30.40.10no description 299 376 1.5e-19Not foundNot found
HMMPfamPF04564U-box 302 376 1.3e-46IPR003613U box domain
HMMPfamPF00515TPR_1 181 209 0.00049IPR001440Tetratricopeptide TPR-1
HMMPfamPF00515TPR_1 147 180 2.2e-07IPR001440Tetratricopeptide TPR-1
HMMPfamPF00515TPR_1 113 146 0.0011IPR001440Tetratricopeptide TPR-1
BlastProDomPD003823Q8LC86_ARATH_Q8LC86; 10 36 6e-05IPR001515Ribosomal protein L32e
HMMPantherPTHR22904TPR REPEAT CONTAININ 117 375 6.8e-98Not foundNot found
HMMPantherPTHR22904:SF27CARBOXY TERMINUS OF 117 375 6.8e-98Not foundNot found
ProfileScanPS50293TPR_REGION 113 214 16.570IPR013026Tetratricopeptide region
superfamilySSF57850RING/U-box 307 362 5.5e-16Not foundNot found
superfamilySSF48452TPR-like 113 209 1.7e-25Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0000151 Cellular Component ubiquitin ligase complex
GO:0003735 Molecular Function structural constituent of ribosome
GO:0004842 Molecular Function ubiquitin-protein ligase activity
GO:0005488 Molecular Function binding
GO:0005622 Cellular Component intracellular
GO:0005840 Cellular Component ribosome
GO:0006412 Biological Process translation
GO:0016567 Biological Process protein ubiquitination
Swiss-Prot
Best HitE_value Description
Q9SRS91e-143CHIP_ARATH E3 ubiquitin-protein ligase CHIP OS=Arabidopsis thaliana GN=CHIP PE=1 SV=1
TrEMBL
Best HitE_value Description
C6TIP01e-110C6TIP0_SOYBN Putative uncharacterized protein OS=Glycine max PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT3G073701e-143K09561STUB1, CHIPSTIP1 homology and U-box containing protein 1
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL4822(11 genes,8 taxa):Arabidopsis thalianaAT3G07370.1
ORTHOMCL4822(11 genes,8 taxa):Brassica oleraceaBol007668
ORTHOMCL4822(11 genes,8 taxa):Brassica rapaBra029643
ORTHOMCL4822(11 genes,8 taxa):Vitis viniferaGSVIVT01002214001
ORTHOMCL4822(11 genes,8 taxa):Vitis viniferaGSVIVT01002276001
ORTHOMCL4822(11 genes,8 taxa):Oryza sativaOs05t0104900-01
ORTHOMCL4822(11 genes,8 taxa):Oryza sativaOs08t0113300-01
ORTHOMCL4822(11 genes,8 taxa):Populus trichocarpaPOPTR_0002s25010.1
ORTHOMCL4822(11 genes,8 taxa):Sorghum bicolorSb07g001340.1
ORTHOMCL4822(11 genes,8 taxa):Sorghum bicolorSb09g000470.1
ORTHOMCL4822(11 genes,8 taxa):Carica papayaevm.TU.supercontig_8.92
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.oleraceaC05:32019715..32710477 (-)A.thalianaChr3:1969121..2487024 (+)89
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC05:31893584..32710477 (+)B.rapaA05:670747..1309656 (-)89
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
FAT3G0737023580832360549Chr3Subgenome_III(LF)141
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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