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KDM5B (lysine demethylase 5B)

Identity

Alias (NCBI)CT31
JARID1B
MRT65
PLU-1
PLU1
PPP1R98
PUT1
RBBP2H1A
RBP2-H1
HGNC (Hugo) KDM5B
HGNC Alias symbRBBP2H1A
PLU-1
CT31
PPP1R98
HGNC Alias namecancer/testis antigen 31
 protein phosphatase 1, regulatory subunit 98
HGNC Previous nameJARID1B
HGNC Previous nameJumonji, AT rich interactive domain 1B (RBP2-like)
 jumonji, AT rich interactive domain 1B
 lysine (K)-specific demethylase 5B
LocusID (NCBI) 10765
Atlas_Id 50846
Location 1q32.1  [Link to chromosome band 1q32]
Location_base_pair Starts at 202724497 and ends at 202808421 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
CANX (5q35.3) / KDM5B (1q32.1)HSPB8 (12q24.23) / KDM5B (1q32.1)KDM5B (1q32.1) / KDM5B (1q32.1)
KDM5B (1q32.1) / OXR1 (8q23.1)KDM5B (1q32.1) / RABGAP1L (1q25.1)KDM5B (1q32.1) / UAP1 (1q23.3)
LIN9 (1q42.12) / KDM5B (1q32.1)KDM5B 1q32.1 / RABGAP1L 1q25.1KDM5B 1q32.1 / UAP1 1q23.3
LIN9 1q42.12 / KDM5B 1q32.1

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 



External links

 

Nomenclature
HGNC (Hugo)KDM5B   18039
Cards
Entrez_Gene (NCBI)KDM5B    lysine demethylase 5B
AliasesCT31; JARID1B; MRT65; PLU-1; 
PLU1; PPP1R98; PUT1; RBBP2H1A; RBP2-H1
GeneCards (Weizmann)KDM5B
Ensembl hg19 (Hinxton)ENSG00000117139 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000117139 [Gene_View]  ENSG00000117139 [Sequence]  chr1:202724497-202808421 [Contig_View]  KDM5B [Vega]
ICGC DataPortalENSG00000117139
TCGA cBioPortalKDM5B
AceView (NCBI)KDM5B
Genatlas (Paris)KDM5B
SOURCE (Princeton)KDM5B
Genetics Home Reference (NIH)KDM5B
Genomic and cartography
GoldenPath hg38 (UCSC)KDM5B  -     chr1:202724497-202808421 -  1q32.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)KDM5B  -     1q32.1   [Description]    (hg19-Feb_2009)
GoldenPathKDM5B - 1q32.1 [CytoView hg19]  KDM5B - 1q32.1 [CytoView hg38]
ImmunoBaseENSG00000117139
Genome Data Viewer NCBIKDM5B [Mapview hg19]  
OMIM605393   618109   
Gene and transcription
Genbank (Entrez)AB015348 AF087481 AI262935 AJ132440 AJ243706
RefSeq transcript (Entrez)NM_001314042 NM_001347591 NM_006618
Consensus coding sequences : CCDS (NCBI)KDM5B
Gene ExpressionKDM5B [ NCBI-GEO ]   KDM5B [ EBI - ARRAY_EXPRESS ]   KDM5B [ SEEK ]   KDM5B [ MEM ]
Gene Expression Viewer (FireBrowse)KDM5B [ Firebrowse - Broad ]
GenevisibleExpression of KDM5B in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10765
GTEX Portal (Tissue expression)KDM5B
Human Protein AtlasENSG00000117139-KDM5B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UGL1   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UGL1  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UGL1
PhosPhoSitePlusQ9UGL1
Domaine pattern : Prosite (Expaxy)ARID (PS51011)    JMJC (PS51184)    JMJN (PS51183)    ZF_PHD_1 (PS01359)    ZF_PHD_2 (PS50016)   
Domains : Interpro (EBI)ARID_dom    ARID_dom_sf    JmjC_dom    JmjN    Lys_sp_deMease-like_dom    Zinc_finger_PHD-type_CS    Znf_C5HC2    Znf_FYVE_PHD    Znf_PHD    Znf_PHD-finger    Znf_RING/FYVE/PHD   
Domain families : Pfam (Sanger)ARID (PF01388)    JmjC (PF02373)    JmjN (PF02375)    PHD (PF00628)    PLU-1 (PF08429)    zf-C5HC2 (PF02928)   
Domain families : Pfam (NCBI)pfam01388    pfam02373    pfam02375    pfam00628    pfam08429    pfam02928   
Domain families : Smart (EMBL)BRIGHT (SM00501)  JmjC (SM00558)  JmjN (SM00545)  PHD (SM00249)  
Conserved Domain (NCBI)KDM5B
PDB (RSDB)2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
PDB Europe2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
PDB (PDBSum)2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
PDB (IMB)2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
Structural Biology KnowledgeBase2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
SCOP (Structural Classification of Proteins)2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
CATH (Classification of proteins structures)2MA5    2MNY    2MNZ    5A1F    5A3N    5A3P    5A3T    5A3W    5FPL    5FPU    5FUN    5FUP    5FV3    5FY4    5FY5    5FY9    5FYB    5FYS    5FYT    5FYU    5FYV    5FYY    5FYZ    5FZ0    5FZ1    5FZ3    5FZ4    5FZ6    5FZ7    5FZ8    5FZ9    5FZA    5FZB    5FZC    5FZD    5FZE    5FZF    5FZG    5FZH    5FZI    5FZK    5FZL    5FZM    5LW9    5LWB    6EIN    6EIU    6EIY    6EJ0    6EJ1    6EK6    6H4Z    6H50    6H51    6H52    6RBI   
SuperfamilyQ9UGL1
AlphaFold pdb e-kbQ9UGL1   
Human Protein Atlas [tissue]ENSG00000117139-KDM5B [tissue]
HPRD09251
Protein Interaction databases
DIP (DOE-UCLA)Q9UGL1
IntAct (EBI)Q9UGL1
BioGRIDKDM5B
STRING (EMBL)KDM5B
ZODIACKDM5B
Ontologies - Pathways
QuickGOQ9UGL1
Ontology : AmiGODNA binding  transcription corepressor activity  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  cytosol  chromatin remodeling  regulation of transcription by RNA polymerase II  single fertilization  zinc ion binding  zinc ion binding  post-embryonic development  positive regulation of gene expression  histone demethylase activity  histone demethylase activity (H3-K4 specific)  histone demethylase activity (H3-K4 specific)  positive regulation of mammary gland epithelial cell proliferation  histone demethylase activity (H3-trimethyl-K4 specific)  histone demethylase activity (H3-trimethyl-K4 specific)  histone demethylase activity (H3-trimethyl-K4 specific)  histone demethylase activity (H3-dimethyl-K4 specific)  histone H3-K4 demethylation  histone H3-K4 demethylation  histone H3-K4 demethylation, trimethyl-H3-K4-specific  histone binding  cellular response to fibroblast growth factor stimulus  negative regulation of transcription, DNA-templated  rhythmic process  dioxygenase activity  branching involved in mammary gland duct morphogenesis  mammary duct terminal end bud growth  response to fungicide  uterus morphogenesis  lens fiber cell differentiation  cellular response to leukemia inhibitory factor  sequence-specific double-stranded DNA binding  regulation of estradiol secretion  
Ontology : EGO-EBIDNA binding  transcription corepressor activity  protein binding  nucleus  nucleus  nucleoplasm  nucleoplasm  cytosol  chromatin remodeling  regulation of transcription by RNA polymerase II  single fertilization  zinc ion binding  zinc ion binding  post-embryonic development  positive regulation of gene expression  histone demethylase activity  histone demethylase activity (H3-K4 specific)  histone demethylase activity (H3-K4 specific)  positive regulation of mammary gland epithelial cell proliferation  histone demethylase activity (H3-trimethyl-K4 specific)  histone demethylase activity (H3-trimethyl-K4 specific)  histone demethylase activity (H3-trimethyl-K4 specific)  histone demethylase activity (H3-dimethyl-K4 specific)  histone H3-K4 demethylation  histone H3-K4 demethylation  histone H3-K4 demethylation, trimethyl-H3-K4-specific  histone binding  cellular response to fibroblast growth factor stimulus  negative regulation of transcription, DNA-templated  rhythmic process  dioxygenase activity  branching involved in mammary gland duct morphogenesis  mammary duct terminal end bud growth  response to fungicide  uterus morphogenesis  lens fiber cell differentiation  cellular response to leukemia inhibitory factor  sequence-specific double-stranded DNA binding  regulation of estradiol secretion  
NDEx NetworkKDM5B
Atlas of Cancer Signalling NetworkKDM5B
Wikipedia pathwaysKDM5B
Orthology - Evolution
OrthoDB10765
GeneTree (enSembl)ENSG00000117139
Phylogenetic Trees/Animal Genes : TreeFamKDM5B
Homologs : HomoloGeneKDM5B
Homology/Alignments : Family Browser (UCSC)KDM5B
Gene fusions - Rearrangements
Fusion : MitelmanKDM5B/RABGAP1L [1q32.1/1q25.1]  
Fusion : MitelmanKDM5B/UAP1 [1q32.1/1q23.3]  
Fusion : MitelmanLIN9/KDM5B [1q42.12/1q32.1]  
Fusion : QuiverKDM5B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerKDM5B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)KDM5B
dbVarKDM5B
ClinVarKDM5B
MonarchKDM5B
1000_GenomesKDM5B 
Exome Variant ServerKDM5B
GNOMAD BrowserENSG00000117139
Varsome BrowserKDM5B
ACMGKDM5B variants
VarityQ9UGL1
Genomic Variants (DGV)KDM5B [DGVbeta]
DECIPHERKDM5B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisKDM5B 
Mutations
ICGC Data PortalKDM5B 
TCGA Data PortalKDM5B 
Broad Tumor PortalKDM5B
OASIS PortalKDM5B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICKDM5B  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DKDM5B
Mutations and Diseases : HGMDKDM5B
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaKDM5B
DgiDB (Drug Gene Interaction Database)KDM5B
DoCM (Curated mutations)KDM5B
CIViC (Clinical Interpretations of Variants in Cancer)KDM5B
Cancer3DKDM5B
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605393    618109   
Orphanet
DisGeNETKDM5B
MedgenKDM5B
Genetic Testing Registry KDM5B
NextProtQ9UGL1 [Medical]
GENETestsKDM5B
Target ValidationKDM5B
Huge Navigator KDM5B [HugePedia]
ClinGenKDM5B
Clinical trials, drugs, therapy
MyCancerGenomeKDM5B
Protein Interactions : CTDKDM5B
Pharm GKB GenePA164721626
PharosQ9UGL1
Clinical trialKDM5B
Miscellaneous
canSAR (ICR)KDM5B
HarmonizomeKDM5B
DataMed IndexKDM5B
Probes
Litterature
PubMed123 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXKDM5B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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