Gene description for KDM6B
Gene name lysine (K)-specific demethylase 6B
Gene symbol KDM6B
Other names/aliases JMJD3
Species Homo sapiens
 Database cross references - KDM6B
ExoCarta ExoCarta_23135
Vesiclepedia VP_23135
Entrez Gene 23135
HGNC 29012
MIM 611577
UniProt O15054  
 KDM6B identified in exosomes derived from the following tissue/cell type
Neuroblastoma cells 25944692    
Thymus 23844026    
 Gene ontology annotations for KDM6B
Molecular Function
    RNA polymerase II cis-regulatory region sequence-specific DNA binding GO:0000978 IBA
    protein binding GO:0005515 IPI
    beta-catenin binding GO:0008013 IEA
    chromatin DNA binding GO:0031490 IBA
    histone demethylase activity GO:0032452 TAS
    metal ion binding GO:0046872 IEA
    histone H3K27me2/H3K27me3 demethylase activity GO:0071558 IBA
    histone H3K27me2/H3K27me3 demethylase activity GO:0071558 IMP
Biological Process
    inflammatory response to antigenic stimulus GO:0002437 IEA
    chromatin remodeling GO:0006338 ISS
    heart development GO:0007507 IBA
    regulation of gene expression GO:0010468 IBA
    response to activity GO:0014823 IEA
    hippocampus development GO:0021766 IEA
    cell fate commitment GO:0045165 IEA
    endothelial cell differentiation GO:0045446 ISS
    positive regulation of transcription by RNA polymerase II GO:0045944 ISS
    mesodermal cell differentiation GO:0048333 ISS
    cardiac muscle cell differentiation GO:0055007 ISS
    response to fungicide GO:0060992 IEA
    cellular response to hydrogen peroxide GO:0070301 IEA
    positive regulation of cold-induced thermogenesis GO:0120162 ISS
Subcellular Localization
    nucleus GO:0005634 ISS
    nucleoplasm GO:0005654 TAS
    MLL3/4 complex GO:0044666 IBA
 Experiment description of studies that identified KDM6B in exosomes
1
Experiment ID 224
MISEV standards
EM|AFM
Biophysical techniques
Alix|TSG101|CD63|CD81
Enriched markers
GOLGA2
Negative markers
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 25944692    
Organism Homo sapiens
Experiment description Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes
Authors "Keerthikumar S, Gangoda L, Liem M, Fonseka P, Atukorala I, Ozcitti C, Mechler A, Adda CG, Ang CS, Mathivanan S"
Journal name Oncotarget
Publication year 2015
Sample Neuroblastoma cells
Sample name SH-SY5Y
Isolation/purification methods Differential centrifugation
Ultracentrifugation
OptiPrep density gradient
Flotation density 1.10 g/mL
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
Western blotting
2
Experiment ID 217
MISEV standards
EM
Biophysical techniques
TSG101|CD81|CD9|CD63
Enriched markers
Negative markers
NTA
Particle analysis
Identified molecule protein
Identification method Mass spectrometry
PubMed ID 23844026    
Organism Homo sapiens
Experiment description Characterization of human thymic exosomes.
Authors "Skogberg G, Gudmundsdottir J, van der Post S, Sandstrom K, Bruhn S, Benson M, Mincheva-Nilsson L, Baranov V, Telemo E, Ekwall O."
Journal name PLoS One
Publication year 2013
Sample Thymus
Sample name Normal-Thymus
Isolation/purification methods Differential centrifugation
Filtration
Ultracentrifugation
Flotation density -
Molecules identified in the study Protein
Methods used in the study Mass spectrometry
 Protein-protein interactions for KDM6B
  Protein Interactor ExoCarta ID Identification method PubMed Species
1 SSRP1 6749
Affinity Capture-MS Homo sapiens
2 SMAD2 4087
Affinity Capture-Western Homo sapiens
3 Cbx1  
Affinity Capture-MS Mus musculus
4 SMAD1 4086
Affinity Capture-Western Homo sapiens
5 WAS 7454
Affinity Capture-Western Homo sapiens
6 PFN2 5217
Affinity Capture-MS Homo sapiens
7 WDR5 11091
Affinity Capture-Western Homo sapiens
8 TDG 6996
Affinity Capture-Western Homo sapiens
9 USP7 7874
Affinity Capture-Western Homo sapiens
10 CSNK2B 1460
Two-hybrid Homo sapiens
11 RBBP5 5929
Affinity Capture-Western Homo sapiens
12 SMAD4  
Affinity Capture-Western Homo sapiens
13 HIST1H3A 8350
Biochemical Activity Homo sapiens
14 KDM7A  
Affinity Capture-MS Homo sapiens
15 TK1 7083
Two-hybrid Homo sapiens
16 CREBBP  
Two-hybrid Homo sapiens
17 ASH2L 9070
Affinity Capture-Western Homo sapiens
18 HIST2H2BE 8349
Affinity Capture-MS Homo sapiens
19 SMAD3 4088
Affinity Capture-Western Homo sapiens
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