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JARID2 (jumonji and AT-rich interaction domain containing 2)

Identity

Alias_namesJMJ
jumonji (mouse) homolog
Jumonji, AT rich interactive domain 2
jumonji, AT rich interactive domain 2
Other alias
HGNC (Hugo) JARID2
LocusID (NCBI) 3720
Atlas_Id 41035
Location 6p22.3  [Link to chromosome band 6p22]
Location_base_pair Starts at 15248855 and ends at 15522042 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
JARID2 (6p22.3) / ATM (11q22.3)JARID2 (6p22.3) / HSD3B1 (1p12)JARID2 (6p22.3) / PPP1R10 (6p21.33)
JARID2 (6p22.3) / RPL23 (17q12)JARID2 (6p22.3) / ZNF423 (16q12.1)KCTD20 (6p21.31) / JARID2 (6p22.3)
RPL23 (17q12) / JARID2 (6p22.3)STX12 (1p35.3) / JARID2 (6p22.3)JARID2 6p22.3 / ATM 11q22.3
JARID2 6p22.3 / HSD3B1 1p12JARID2 6p22.3 / PPP1R10 6p21.33KCTD20 6p21.31 / JARID2 6p22.3

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)JARID2   6196
Cards
Entrez_Gene (NCBI)JARID2  3720  jumonji and AT-rich interaction domain containing 2
AliasesJMJ
GeneCards (Weizmann)JARID2
Ensembl hg19 (Hinxton)ENSG00000008083 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000008083 [Gene_View]  chr6:15248855-15522042 [Contig_View]  JARID2 [Vega]
ICGC DataPortalENSG00000008083
TCGA cBioPortalJARID2
AceView (NCBI)JARID2
Genatlas (Paris)JARID2
WikiGenes3720
SOURCE (Princeton)JARID2
Genetics Home Reference (NIH)JARID2
Genomic and cartography
GoldenPath hg38 (UCSC)JARID2  -     chr6:15248855-15522042 +  6p22.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)JARID2  -     6p22.3   [Description]    (hg19-Feb_2009)
EnsemblJARID2 - 6p22.3 [CytoView hg19]  JARID2 - 6p22.3 [CytoView hg38]
Mapping of homologs : NCBIJARID2 [Mapview hg19]  JARID2 [Mapview hg38]
OMIM601594   
Gene and transcription
Genbank (Entrez)AF401209 AK126552 AK292861 AK299349 AK302624
RefSeq transcript (Entrez)NM_001267040 NM_004973
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)JARID2
Cluster EST : UnigeneHs.269059 [ NCBI ]
CGAP (NCI)Hs.269059
Alternative Splicing GalleryENSG00000008083
Gene ExpressionJARID2 [ NCBI-GEO ]   JARID2 [ EBI - ARRAY_EXPRESS ]   JARID2 [ SEEK ]   JARID2 [ MEM ]
Gene Expression Viewer (FireBrowse)JARID2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3720
GTEX Portal (Tissue expression)JARID2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92833   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ92833  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ92833
Splice isoforms : SwissVarQ92833
PhosPhoSitePlusQ92833
Domaine pattern : Prosite (Expaxy)ARID (PS51011)    JMJC (PS51184)    JMJN (PS51183)   
Domains : Interpro (EBI)ARID_dom    JmjC_dom    JmjN    Znf_C5HC2   
Domain families : Pfam (Sanger)ARID (PF01388)    JmjC (PF02373)    JmjN (PF02375)    zf-C5HC2 (PF02928)   
Domain families : Pfam (NCBI)pfam01388    pfam02373    pfam02375    pfam02928   
Domain families : Smart (EMBL)BRIGHT (SM00501)  JmjC (SM00558)  JmjN (SM00545)  
Conserved Domain (NCBI)JARID2
DMDM Disease mutations3720
Blocks (Seattle)JARID2
PDB (SRS)5HYN   
PDB (PDBSum)5HYN   
PDB (IMB)5HYN   
PDB (RSDB)5HYN   
Structural Biology KnowledgeBase5HYN   
SCOP (Structural Classification of Proteins)5HYN   
CATH (Classification of proteins structures)5HYN   
SuperfamilyQ92833
Human Protein AtlasENSG00000008083
Peptide AtlasQ92833
HPRD03355
IPIIPI00023756   IPI00955447   IPI00922763   IPI00871836   IPI01018952   
Protein Interaction databases
DIP (DOE-UCLA)Q92833
IntAct (EBI)Q92833
FunCoupENSG00000008083
BioGRIDJARID2
STRING (EMBL)JARID2
ZODIACJARID2
Ontologies - Pathways
QuickGOQ92833
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II regulatory region sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding  liver development  chromatin binding  nucleus  nucleoplasm  mitochondrion  transcription, DNA-templated  central nervous system development  transcription factor binding  negative regulation of cell proliferation  negative regulation of cardiac muscle hypertrophy  covalent chromatin modification  negative regulation of histone methylation  histone demethylase activity  histone methyltransferase complex  ESC/E(Z) complex  negative regulation of gene expression, epigenetic  negative regulation of transcription, DNA-templated  spleen development  thymus development  stem cell differentiation  positive regulation of histone H3-K9 methylation  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  RNA polymerase II regulatory region sequence-specific DNA binding  transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding  liver development  chromatin binding  nucleus  nucleoplasm  mitochondrion  transcription, DNA-templated  central nervous system development  transcription factor binding  negative regulation of cell proliferation  negative regulation of cardiac muscle hypertrophy  covalent chromatin modification  negative regulation of histone methylation  histone demethylase activity  histone methyltransferase complex  ESC/E(Z) complex  negative regulation of gene expression, epigenetic  negative regulation of transcription, DNA-templated  spleen development  thymus development  stem cell differentiation  positive regulation of histone H3-K9 methylation  
NDEx NetworkJARID2
Atlas of Cancer Signalling NetworkJARID2
Wikipedia pathwaysJARID2
Orthology - Evolution
OrthoDB3720
GeneTree (enSembl)ENSG00000008083
Phylogenetic Trees/Animal Genes : TreeFamJARID2
HOVERGENQ92833
HOGENOMQ92833
Homologs : HomoloGeneJARID2
Homology/Alignments : Family Browser (UCSC)JARID2
Gene fusions - Rearrangements
Fusion : MitelmanJARID2/ATM [6p22.3/11q22.3]  
Fusion : MitelmanJARID2/HSD3B1 [6p22.3/1p12]  [t(1;6)(p12;p22)]  
Fusion : MitelmanJARID2/PPP1R10 [6p22.3/6p21.33]  [t(6;6)(p21;p22)]  
Fusion : MitelmanKCTD20/JARID2 [6p21.31/6p22.3]  [t(6;6)(p21;p22)]  
Fusion: TCGAJARID2 6p22.3 ATM 11q22.3 LUAD
Fusion: TCGAJARID2 6p22.3 HSD3B1 1p12 LUAD
Fusion: TCGAJARID2 6p22.3 PPP1R10 6p21.33 BLCA
Fusion: TCGAKCTD20 6p21.31 JARID2 6p22.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerJARID2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)JARID2
dbVarJARID2
ClinVarJARID2
1000_GenomesJARID2 
Exome Variant ServerJARID2
ExAC (Exome Aggregation Consortium)JARID2 (select the gene name)
Genetic variants : HAPMAP3720
Genomic Variants (DGV)JARID2 [DGVbeta]
DECIPHERJARID2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisJARID2 
Mutations
ICGC Data PortalJARID2 
TCGA Data PortalJARID2 
Broad Tumor PortalJARID2
OASIS PortalJARID2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICJARID2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDJARID2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch JARID2
DgiDB (Drug Gene Interaction Database)JARID2
DoCM (Curated mutations)JARID2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)JARID2 (select a term)
intoGenJARID2
Cancer3DJARID2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601594   
Orphanet
MedgenJARID2
Genetic Testing Registry JARID2
NextProtQ92833 [Medical]
TSGene3720
GENETestsJARID2
Target ValidationJARID2
Huge Navigator JARID2 [HugePedia]
snp3D : Map Gene to Disease3720
BioCentury BCIQJARID2
ClinGenJARID2 (curated)
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3720
Chemical/Pharm GKB GenePA29995
Clinical trialJARID2
Miscellaneous
canSAR (ICR)JARID2 (select the gene name)
Probes
Litterature
PubMed40 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineJARID2
EVEXJARID2
GoPubMedJARID2
iHOPJARID2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Aug 1 17:04:22 CEST 2017

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