Atlas of Genetics and Cytogenetics in Oncology and Haematology


Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

KDM3B (lysine demethylase 3B)

Identity

Alias (NCBI)5qNCA
C5orf7
DIJOS
JMJD1B
NET22
HGNC (Hugo) KDM3B
HGNC Alias symbKIAA1082
NET22
HGNC Previous nameC5orf7
 JMJD1B
HGNC Previous namechromosome 5 open reading frame 7
 jumonji domain containing 1B
 lysine (K)-specific demethylase 3B
LocusID (NCBI) 51780
Atlas_Id 50853
Location 5q31.2  [Link to chromosome band 5q31]
Location_base_pair Starts at 138352685 and ends at 138437027 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)
KDM3B (5q31.2)::BRK1 (3p25.3)KDM3B (5q31.2)::KDM3B (5q31.2)MATR3 (5q31.2)::KDM3B (5q31.2)
NRXN3 (14q31.1)::KDM3B (5q31.2)PRLR (5p13.2)::KDM3B (5q31.2)SCFD2 (4q12)::KDM3B (5q31.2)
TAGLN3 (3q13.2)::KDM3B (5q31.2)MATR3 5q31.2::KDM3B 5q31.2PRLR 5p13.2::KDM3B 5q31.2

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)KDM3B   1337
Cards
Entrez_Gene (NCBI)KDM3B    lysine demethylase 3B
Aliases5qNCA; C5orf7; DIJOS; JMJD1B; 
NET22
GeneCards (Weizmann)KDM3B
Ensembl hg19 (Hinxton)ENSG00000120733 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000120733 [Gene_View]  ENSG00000120733 [Sequence]  chr5:138352685-138437027 [Contig_View]  KDM3B [Vega]
ICGC DataPortalENSG00000120733
TCGA cBioPortalKDM3B
AceView (NCBI)KDM3B
Genatlas (Paris)KDM3B
SOURCE (Princeton)KDM3B
Genetics Home Reference (NIH)KDM3B
Genomic and cartography
GoldenPath hg38 (UCSC)KDM3B  -     chr5:138352685-138437027 +  5q31.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)KDM3B  -     5q31.2   [Description]    (hg19-Feb_2009)
GoldenPathKDM3B - 5q31.2 [CytoView hg19]  KDM3B - 5q31.2 [CytoView hg38]
ImmunoBaseENSG00000120733
Genome Data Viewer NCBIKDM3B [Mapview hg19]  
OMIM609373   618846   
Gene and transcription
Genbank (Entrez)AB029005 AF251039 AF338242 AK025755 AK304371
RefSeq transcript (Entrez)NM_016604
Consensus coding sequences : CCDS (NCBI)KDM3B
Gene ExpressionKDM3B [ NCBI-GEO ]   KDM3B [ EBI - ARRAY_EXPRESS ]   KDM3B [ SEEK ]   KDM3B [ MEM ]
Gene Expression Viewer (FireBrowse)KDM3B [ Firebrowse - Broad ]
GenevisibleExpression of KDM3B in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)51780
GTEX Portal (Tissue expression)KDM3B
Human Protein AtlasENSG00000120733-KDM3B [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ7LBC6   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ7LBC6  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ7LBC6
PhosPhoSitePlusQ7LBC6
Domaine pattern : Prosite (Expaxy)JMJC (PS51184)   
Domains : Interpro (EBI)JmjC_dom   
Domain families : Pfam (Sanger)JmjC (PF02373)   
Domain families : Pfam (NCBI)pfam02373   
Domain families : Smart (EMBL)JmjC (SM00558)  
Conserved Domain (NCBI)KDM3B
PDB (RSDB)4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
PDB Europe4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
PDB (PDBSum)4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
PDB (IMB)4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
Structural Biology KnowledgeBase4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
SCOP (Structural Classification of Proteins)4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
CATH (Classification of proteins structures)4C8D    5R7X    5RAA    5RAB    5RAC    5RAD    5RAE    5RAF    5RAG    5RAH    5RAI    5RAJ    5RAK    5RAL    5RAM    5RAN    5RAO    5RAP    5RAQ    5RAR    5RAS    5RAU    5RAV    5RAW    5RAX    5RAY    5RAZ    5RB0    5RB1    5RB2    5RB3    5RB4    5RB5    5RB6    5RB7    6RBJ   
SuperfamilyQ7LBC6
AlphaFold pdb e-kbQ7LBC6   
Human Protein Atlas [tissue]ENSG00000120733-KDM3B [tissue]
HPRD11055
Protein Interaction databases
DIP (DOE-UCLA)Q7LBC6
IntAct (EBI)Q7LBC6
BioGRIDKDM3B
STRING (EMBL)KDM3B
ZODIACKDM3B
Ontologies - Pathways
QuickGOQ7LBC6
Ontology : AmiGOhistone deacetylase complex  chromatin  transcription coregulator activity  nucleoplasm  nucleoplasm  regulation of transcription by RNA polymerase II  antioxidant activity  chromatin DNA binding  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  metal ion binding  dioxygenase activity  response to cisplatin  cellular oxidant detoxification  
Ontology : EGO-EBIhistone deacetylase complex  chromatin  transcription coregulator activity  nucleoplasm  nucleoplasm  regulation of transcription by RNA polymerase II  antioxidant activity  chromatin DNA binding  histone demethylase activity (H3-K9 specific)  histone H3-K9 demethylation  metal ion binding  dioxygenase activity  response to cisplatin  cellular oxidant detoxification  
NDEx NetworkKDM3B
Atlas of Cancer Signalling NetworkKDM3B
Wikipedia pathwaysKDM3B
Orthology - Evolution
OrthoDB51780
GeneTree (enSembl)ENSG00000120733
Phylogenetic Trees/Animal Genes : TreeFamKDM3B
Homologs : HomoloGeneKDM3B
Homology/Alignments : Family Browser (UCSC)KDM3B
Gene fusions - Rearrangements
Fusion : MitelmanMATR3::KDM3B [5q31.2/5q31.2]  
Fusion : MitelmanPRLR::KDM3B [5p13.2/5q31.2]  
Fusion : QuiverKDM3B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerKDM3B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)KDM3B
dbVarKDM3B
ClinVarKDM3B
MonarchKDM3B
1000_GenomesKDM3B 
Exome Variant ServerKDM3B
GNOMAD BrowserENSG00000120733
Varsome BrowserKDM3B
ACMGKDM3B variants
VarityQ7LBC6
Genomic Variants (DGV)KDM3B [DGVbeta]
DECIPHERKDM3B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisKDM3B 
Mutations
ICGC Data PortalKDM3B 
TCGA Data PortalKDM3B 
Broad Tumor PortalKDM3B
OASIS PortalKDM3B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICKDM3B  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DKDM3B
Mutations and Diseases : HGMDKDM3B
LOVD (Leiden Open Variation Database)[gene] [transcripts] [variants]
BioMutaKDM3B
DgiDB (Drug Gene Interaction Database)KDM3B
DoCM (Curated mutations)KDM3B
CIViC (Clinical Interpretations of Variants in Cancer)KDM3B
Cancer3DKDM3B
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM609373    618846   
Orphanet
DisGeNETKDM3B
MedgenKDM3B
Genetic Testing Registry KDM3B
NextProtQ7LBC6 [Medical]
GENETestsKDM3B
Target ValidationKDM3B
Huge Navigator KDM3B [HugePedia]
ClinGenKDM3B
Clinical trials, drugs, therapy
MyCancerGenomeKDM3B
Protein Interactions : CTDKDM3B
Pharm GKB GenePA25918
PharosQ7LBC6
Clinical trialKDM3B
Miscellaneous
canSAR (ICR)KDM3B
HarmonizomeKDM3B
ARCHS4KDM3B
DataMed IndexKDM3B
Probes
Litterature
PubMed56 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXKDM3B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sun Jan 16 18:16:37 CET 2022

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.