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ARID4A (AT-rich interaction domain 4A)

Identity

Alias_namesRBBP1
retinoblastoma-binding protein 1
AT rich interactive domain 4A (RBP1-like)
Alias_symbol (synonym)RBP1
RBP-1
Other aliasRBBP-1
HGNC (Hugo) ARID4A
LocusID (NCBI) 5926
Atlas_Id 703
Location 14q23.1  [Link to chromosome band 14q23]
Location_base_pair Starts at 58765222 and ends at 58840451 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
ARID4A (14q23.1) / ARID4A (14q23.1)ARID4A (14q23.1) / AVEN (15q14)ARID4A (14q23.1) / C14orf37 (14q23.1)
ARID4A (14q23.1) / L3HYPDH (14q23.1)ARID4A (14q23.1) / NCOA5 (20q13.12)ARID4A (14q23.1) / NPAS3 (14q13.1)
PSTPIP2 (18q21.1) / ARID4A (14q23.1)ARID4A 14q23.1 C14orf149ARID4A 14q23.1 / NPAS3 14q13.1

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)ARID4A   9885
Cards
Entrez_Gene (NCBI)ARID4A  5926  AT-rich interaction domain 4A
AliasesRBBP-1; RBBP1; RBP-1; RBP1
GeneCards (Weizmann)ARID4A
Ensembl hg19 (Hinxton)ENSG00000032219 [Gene_View]  chr14:58765222-58840451 [Contig_View]  ARID4A [Vega]
Ensembl hg38 (Hinxton)ENSG00000032219 [Gene_View]  chr14:58765222-58840451 [Contig_View]  ARID4A [Vega]
ICGC DataPortalENSG00000032219
TCGA cBioPortalARID4A
AceView (NCBI)ARID4A
Genatlas (Paris)ARID4A
WikiGenes5926
SOURCE (Princeton)ARID4A
Genetics Home Reference (NIH)ARID4A
Genomic and cartography
GoldenPath hg19 (UCSC)ARID4A  -     chr14:58765222-58840451 +  14q23.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)ARID4A  -     14q23.1   [Description]    (hg38-Dec_2013)
EnsemblARID4A - 14q23.1 [CytoView hg19]  ARID4A - 14q23.1 [CytoView hg38]
Mapping of homologs : NCBIARID4A [Mapview hg19]  ARID4A [Mapview hg38]
OMIM180201   
Gene and transcription
Genbank (Entrez)AF086075 AK307520 AK307972 BC026230 BC172363
RefSeq transcript (Entrez)NM_002892 NM_023000 NM_023001
RefSeq genomic (Entrez)NC_000014 NC_018925 NT_026437 NW_004929393
Consensus coding sequences : CCDS (NCBI)ARID4A
Cluster EST : UnigeneHs.161000 [ NCBI ]
CGAP (NCI)Hs.161000
Alternative Splicing GalleryENSG00000032219
Gene ExpressionARID4A [ NCBI-GEO ]   ARID4A [ EBI - ARRAY_EXPRESS ]   ARID4A [ SEEK ]   ARID4A [ MEM ]
Gene Expression Viewer (FireBrowse)ARID4A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5926
GTEX Portal (Tissue expression)ARID4A
Protein : pattern, domain, 3D structure
UniProt/SwissProtP29374   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP29374  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP29374
Splice isoforms : SwissVarP29374
PhosPhoSitePlusP29374
Domaine pattern : Prosite (Expaxy)ARID (PS51011)   
Domains : Interpro (EBI)ARID_dom    Chromo/shadow_dom    Chromodomain-like    RBB1NT    Tudor    Tudor-knot   
Domain families : Pfam (Sanger)ARID (PF01388)    RBB1NT (PF08169)    Tudor-knot (PF11717)   
Domain families : Pfam (NCBI)pfam01388    pfam08169    pfam11717   
Domain families : Smart (EMBL)BRIGHT (SM00501)  CHROMO (SM00298)  TUDOR (SM00333)  
Conserved Domain (NCBI)ARID4A
DMDM Disease mutations5926
Blocks (Seattle)ARID4A
PDB (SRS)2LCC    2MAM    2YRV   
PDB (PDBSum)2LCC    2MAM    2YRV   
PDB (IMB)2LCC    2MAM    2YRV   
PDB (RSDB)2LCC    2MAM    2YRV   
Structural Biology KnowledgeBase2LCC    2MAM    2YRV   
SCOP (Structural Classification of Proteins)2LCC    2MAM    2YRV   
CATH (Classification of proteins structures)2LCC    2MAM    2YRV   
SuperfamilyP29374
Human Protein AtlasENSG00000032219
Peptide AtlasP29374
HPRD01575
IPIIPI00296069   IPI00328418   IPI00218648   IPI00879884   IPI00879032   IPI00880162   IPI00879477   
Protein Interaction databases
DIP (DOE-UCLA)P29374
IntAct (EBI)P29374
FunCoupENSG00000032219
BioGRIDARID4A
STRING (EMBL)ARID4A
ZODIACARID4A
Ontologies - Pathways
QuickGOP29374
Ontology : AmiGODNA binding  transcription factor activity, sequence-specific DNA binding  histone deacetylase activity  nucleus  nucleus  nucleoplasm  regulation of gene expression by genetic imprinting  regulation of transcription from RNA polymerase II promoter  transcription from RNA polymerase II promoter  spermatogenesis  histone deacetylation  transcriptional repressor complex  histone H4-K20 trimethylation  histone H3-K9 trimethylation  transcription regulatory region DNA binding  negative regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  erythrocyte development  histone H3-K4 trimethylation  establishment of Sertoli cell barrier  
Ontology : EGO-EBIDNA binding  transcription factor activity, sequence-specific DNA binding  histone deacetylase activity  nucleus  nucleus  nucleoplasm  regulation of gene expression by genetic imprinting  regulation of transcription from RNA polymerase II promoter  transcription from RNA polymerase II promoter  spermatogenesis  histone deacetylation  transcriptional repressor complex  histone H4-K20 trimethylation  histone H3-K9 trimethylation  transcription regulatory region DNA binding  negative regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  erythrocyte development  histone H3-K4 trimethylation  establishment of Sertoli cell barrier  
NDEx NetworkARID4A
Atlas of Cancer Signalling NetworkARID4A
Wikipedia pathwaysARID4A
Orthology - Evolution
OrthoDB5926
GeneTree (enSembl)ENSG00000032219
Phylogenetic Trees/Animal Genes : TreeFamARID4A
HOVERGENP29374
HOGENOMP29374
Homologs : HomoloGeneARID4A
Homology/Alignments : Family Browser (UCSC)ARID4A
Gene fusions - Rearrangements
Fusion : MitelmanARID4A/L3HYPDH [14q23.1/14q23.1]  
Fusion : MitelmanARID4A/NPAS3 [14q23.1/14q13.1]  [t(14;14)(q13;q23)]  
Fusion: TCGAARID4A 14q23.1 C14orf149 BLCA
Fusion: TCGAARID4A 14q23.1 NPAS3 14q13.1 LUAD
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerARID4A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)ARID4A
dbVarARID4A
ClinVarARID4A
1000_GenomesARID4A 
Exome Variant ServerARID4A
ExAC (Exome Aggregation Consortium)ARID4A (select the gene name)
Genetic variants : HAPMAP5926
Genomic Variants (DGV)ARID4A [DGVbeta]
DECIPHER (Syndromes)14:58765222-58840451  ENSG00000032219
CONAN: Copy Number AnalysisARID4A 
Mutations
ICGC Data PortalARID4A 
TCGA Data PortalARID4A 
Broad Tumor PortalARID4A
OASIS PortalARID4A [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICARID4A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDARID4A
intOGen PortalARID4A
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 ARID4A
DgiDB (Drug Gene Interaction Database)ARID4A
DoCM (Curated mutations)ARID4A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)ARID4A (select a term)
intoGenARID4A
Cancer3DARID4A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM180201   
Orphanet
MedgenARID4A
Genetic Testing Registry ARID4A
NextProtP29374 [Medical]
TSGene5926
GENETestsARID4A
Huge Navigator ARID4A [HugePedia]
snp3D : Map Gene to Disease5926
BioCentury BCIQARID4A
ClinGenARID4A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5926
Chemical/Pharm GKB GenePA34249
Clinical trialARID4A
Miscellaneous
canSAR (ICR)ARID4A (select the gene name)
Probes
Litterature
PubMed29 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineARID4A
EVEXARID4A
GoPubMedARID4A
iHOPARID4A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Mar 14 12:56:30 CET 2017

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