Basic Information
Gene Model:Bol008441
Gene Family:U-box Gene Family
Chromosome:C03
Scaffold:Scaffold000247
Sequence:
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Gene Structure
Nucleotide Length:3295 bp
Transcript Length:2301 bp
Protein Length:766 aa
Strand:-
Location:C03: 43797474 : 43800768
Gene CDSs(5): 1-51 | 330-515 | 596-703 | 885-2029 | 2485-3295 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR22849WDSAM1 PROTEIN 274 360 2.8e-12Not foundNot found
Gene3DG3DSA:3.30.40.10no description 275 352 3.4e-27Not foundNot found
Gene3DG3DSA:1.25.10.10no description 402 679 2.1e-28IPR011989Armadillo-like helical
HMMSmartSM00185no description 495 533 2.7e+02IPR000225Armadillo
HMMSmartSM00185no description 534 575 1.1e+02IPR000225Armadillo
HMMSmartSM00504no description 282 345 3.1e-34IPR003613U box domain
HMMSmartSM00185no description 449 493 0.0034IPR000225Armadillo
Segsegseg 140 149 NANot foundNot found
Segsegseg 608 619 NANot foundNot found
Segsegseg 707 719 NANot foundNot found
PatternScanPS00070ALDEHYDE_DEHYDR_CYS 16 27 NAIPR016160Aldehyde dehydrogenase, conserved site
HMMPfamPF04564U-box 280 352 1e-27IPR003613U box domain
superfamilySSF57850RING/U-box 262 348 2.1e-13Not foundNot found
superfamilySSF48371ARM repeat 319 700 5.2e-43IPR016024Armadillo-type fold
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:0008152 Biological Process metabolic process
GO:0016491 Molecular Function oxidoreductase activity
GO:0016567 Biological Process protein ubiquitination
GO:0055114 Biological Process oxidation-reduction process
Swiss-Prot
Best HitE_value Description
Q9C7G10.0PUB45_ARATH U-box domain-containing protein 45 OS=Arabidopsis thaliana GN=PUB45 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9RMH50.0B9RMH5_RICCO Ubiquitin-protein ligase, putative OS=Ricinus communis GN=RCOM_1080870 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
pif:PITG_178793e-08K09561STUB1, CHIPSTIP1 homology and U-box containing protein 1
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1103(19 genes,8 taxa):Arabidopsis thalianaAT1G24330.1
ORTHOMCL1103(19 genes,8 taxa):Arabidopsis thalianaAT1G27910.1
ORTHOMCL1103(19 genes,8 taxa):Arabidopsis thalianaAT1G67530.1
ORTHOMCL1103(19 genes,8 taxa):Brassica oleraceaBol002093
ORTHOMCL1103(19 genes,8 taxa):Brassica oleraceaBol005289
ORTHOMCL1103(19 genes,8 taxa):Brassica oleraceaBol008441
ORTHOMCL1103(19 genes,8 taxa):Brassica oleraceaBol010460
ORTHOMCL1103(19 genes,8 taxa):Brassica oleraceaBol041756
ORTHOMCL1103(19 genes,8 taxa):Brassica rapaBra010914
ORTHOMCL1103(19 genes,8 taxa):Brassica rapaBra010960
ORTHOMCL1103(19 genes,8 taxa):Brassica rapaBra030028
ORTHOMCL1103(19 genes,8 taxa):Brassica rapaBra032852
ORTHOMCL1103(19 genes,8 taxa):Brassica rapaBra033994
ORTHOMCL1103(19 genes,8 taxa):Vitis viniferaGSVIVT01010374001
ORTHOMCL1103(19 genes,8 taxa):Oryza sativaOs01t0901000-01
ORTHOMCL1103(19 genes,8 taxa):Populus trichocarpaPOPTR_0008s17710.1
ORTHOMCL1103(19 genes,8 taxa):Populus trichocarpaPOPTR_0010s06810.1
ORTHOMCL1103(19 genes,8 taxa):Sorghum bicolorSb03g042880.1
ORTHOMCL1103(19 genes,8 taxa):Carica papayaevm.TU.supercontig_43.21
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.oleraceaC03:43131775..43835034 (+)A.thalianaChr1:8600465..8935460 (+)32
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC03:43131775..43835034 (+)B.rapaA09:21046628..21542000 (-)20
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
BAT1G2791097207369724714Chr1Subgenome_II145
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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