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Aliases for ARID3A Gene

Aliases for ARID3A Gene

  • AT-Rich Interaction Domain 3A 2 3 5
  • AT Rich Interactive Domain 3A (BRIGHT-Like) 2 3
  • B-Cell Regulator Of IgH Transcription 3 4
  • ARID Domain-Containing Protein 3A 3 4
  • Dead Ringer-Like Protein 1 3 4
  • E2F-Binding Protein 1 3 4
  • E2FBP1 3 4
  • DRIL1 3 4
  • DRIL3 3 4
  • AT Rich Interactive Domain 3A (BRIGHT- Like) Protein 3
  • AT-Rich Interactive Domain-Containing Protein 3A 3
  • AT Rich Interactive Domain 3A (BRIGHT- Like) 2
  • Dead Ringer-Like 1 (Drosophila) 2
  • ARID Domain-Containing 3A 3
  • Dead Ringer-Like 1 3
  • BRIGHT 3
  • Bright 4
  • DRX 4

External Ids for ARID3A Gene

Previous HGNC Symbols for ARID3A Gene

  • DRIL1

Previous GeneCards Identifiers for ARID3A Gene

  • GC19P000880
  • GC19P000877
  • GC19P000699

Summaries for ARID3A Gene

Entrez Gene Summary for ARID3A Gene

  • This gene encodes a member of the ARID (AT-rich interaction domain) family of DNA binding proteins. It was found by homology to the Drosophila dead ringer gene, which is important for normal embryogenesis. Other ARID family members have roles in embryonic patterning, cell lineage gene regulation, cell cycle control, transcriptional regulation, and possibly in chromatin structure modification. [provided by RefSeq, Jul 2008]

GeneCards Summary for ARID3A Gene

ARID3A (AT-Rich Interaction Domain 3A) is a Protein Coding gene. Among its related pathways are Gene Expression and Direct p53 effectors. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and chromatin binding. An important paralog of this gene is ARID3B.

UniProtKB/Swiss-Prot for ARID3A Gene

  • Transcription factor which may be involved in the control of cell cycle progression by the RB1/E2F1 pathway and in B-cell differentiation.

Gene Wiki entry for ARID3A Gene

Additional gene information for ARID3A Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ARID3A Gene

Genomics for ARID3A Gene

GeneHancer (GH) Regulatory Elements for ARID3A Gene

Promoters and enhancers for ARID3A Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J000923 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 657.9 +1.1 1116 7.3 HDGF PKNOX1 FOXA2 ARID4B SIN3A ZNF2 CBX5 ZNF143 SP3 NFYC ARID3A ENSG00000267159 DAZAP1 TCF3 TMEM259 PTBP1 LOC100288123 ENSG00000267317 MIER2 MED16
GH19J000569 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.9 -352.5 -352457 7.4 HDGF PKNOX1 SMAD1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 LOC105372233 BSG GC19P000572 GC19P000573 TMEM259 GRIN3B DAZAP1 PTBP1 ENSG00000267317 CIRBP
GH19J000795 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 11 -126.5 -126475 8.6 HDGF PKNOX1 CLOCK FOXA2 SMAD1 MLX ARNT ARID4B SIN3A FEZF1 PTBP1 DAZAP1 TCF3 TMEM259 STK11 MED16 CIRBP ENSG00000267317 RNF126 POLRMT
GH19J001872 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 10.9 +948.9 948934 5 HDGF PKNOX1 CLOCK SMAD1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ENSG00000261526 ENSG00000267232 GC19M001875 KLF16 SF3A2 TMEM259 LOC100288123 DAZAP1 GRIN3B TCF3
GH19J000942 Enhancer 1.8 FANTOM5 Ensembl ENCODE dbSUPER 9.7 +27.6 27561 21.8 MLX DMAP1 IRF4 ZNF143 PPARGC1A MEF2D SSRP1 GLIS1 RCOR2 NBN WDR18 DAZAP1 ARHGAP45 STK11 MIER2 ARID3A KISS1R SBNO2 ENSG00000267159 PALM
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ARID3A on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ARID3A gene promoter:
  • p53
  • AP-2beta
  • AP-2alpha
  • AP-2alphaA
  • AP-2gamma

Genomic Locations for ARID3A Gene

Genomic Locations for ARID3A Gene
50,154 bases
Plus strand
50,159 bases
Plus strand

Genomic View for ARID3A Gene

Genes around ARID3A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ARID3A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ARID3A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ARID3A Gene

Proteins for ARID3A Gene

  • Protein details for ARID3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    AT-rich interactive domain-containing protein 3A
    Protein Accession:
    Secondary Accessions:
    • Q5I858
    • Q6P9C6
    • Q8IZA7
    • Q8N4Z3

    Protein attributes for ARID3A Gene

    593 amino acids
    Molecular mass:
    62889 Da
    Quaternary structure:
    • Homodimer. Heterodimer with ARID3B. Interacts with E2F1. Interacts with GTF2I and BTK.
    • Sequence=AAW30734.1; Type=Frameshift; Positions=498; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ARID3A Gene

neXtProt entry for ARID3A Gene

Post-translational modifications for ARID3A Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ARID3A Gene

No data available for DME Specific Peptides for ARID3A Gene

Domains & Families for ARID3A Gene

Gene Families for ARID3A Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for ARID3A Gene

Suggested Antigen Peptide Sequences for ARID3A Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ARID3A: view

No data available for UniProtKB/Swiss-Prot for ARID3A Gene

Function for ARID3A Gene

Molecular function for ARID3A Gene

UniProtKB/Swiss-Prot Function:
Transcription factor which may be involved in the control of cell cycle progression by the RB1/E2F1 pathway and in B-cell differentiation.
UniProtKB/Swiss-Prot Induction:
By p53/TP53 following DNA damage.

Phenotypes From GWAS Catalog for ARID3A Gene

Gene Ontology (GO) - Molecular Function for ARID3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IBA --
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding ISA --
GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA,IEA --
GO:0003677 DNA binding IEA --
GO:0003682 chromatin binding IEA --
genes like me logo Genes that share ontologies with ARID3A: view
genes like me logo Genes that share phenotypes with ARID3A: view

Animal Models for ARID3A Gene

MGI Knock Outs for ARID3A:

Animal Model Products

miRNA for ARID3A Gene

miRTarBase miRNAs that target ARID3A

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ARID3A Gene

Localization for ARID3A Gene

Subcellular locations from UniProtKB/Swiss-Prot for ARID3A Gene

Nucleus. Cytoplasm. Note=Shuttles between nucleus and cytoplasm.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for ARID3A gene
Compartment Confidence
nucleus 5
cytosol 5
golgi apparatus 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (3)
  • Nucleoplasm (3)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ARID3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IBA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IDA --
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with ARID3A: view

Pathways & Interactions for ARID3A Gene

genes like me logo Genes that share pathways with ARID3A: view

Gene Ontology (GO) - Biological Process for ARID3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription by RNA polymerase II IEA --
GO:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest TAS --
GO:0045944 positive regulation of transcription by RNA polymerase II IEA --
genes like me logo Genes that share ontologies with ARID3A: view

No data available for SIGNOR curated interactions for ARID3A Gene

Drugs & Compounds for ARID3A Gene

No Compound Related Data Available

Transcripts for ARID3A Gene

Unigene Clusters for ARID3A Gene

AT rich interactive domain 3A (BRIGHT-like):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ARID3A Gene

No ASD Table

Relevant External Links for ARID3A Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ARID3A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ARID3A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for ARID3A Gene

This gene is overexpressed in Whole Blood (x9.8).

Protein differential expression in normal tissues from HIPED for ARID3A Gene

This gene is overexpressed in Fetal gut (28.0), Placenta (19.2), and Monocytes (8.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ARID3A Gene

NURSA nuclear receptor signaling pathways regulating expression of ARID3A Gene:


SOURCE GeneReport for Unigene cluster for ARID3A Gene:


mRNA Expression by UniProt/SwissProt for ARID3A Gene:

Tissue specificity: Widely expressed, with highest expression in skeletal muscle, thalamus, and colon.
genes like me logo Genes that share expression patterns with ARID3A: view

No data available for Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for ARID3A Gene

Orthologs for ARID3A Gene

This gene was present in the common ancestor of animals.

Orthologs for ARID3A Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ARID3A 34
  • 99 (a)
(Canis familiaris)
Mammalia ARID3A 34 33
  • 84.58 (n)
(Ornithorhynchus anatinus)
Mammalia ARID3A 34
  • 84 (a)
(Bos Taurus)
Mammalia ARID3A 34 33
  • 81.7 (n)
(Mus musculus)
Mammalia Arid3a 16 34 33
  • 78.89 (n)
(Rattus norvegicus)
Mammalia Arid3a 33
  • 78.16 (n)
(Monodelphis domestica)
Mammalia ARID3A 34
  • 62 (a)
(Gallus gallus)
Aves ARID3A 34 33
  • 73.54 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia arid3a 33
  • 68.3 (n)
Str.11240 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.26694 33
(Danio rerio)
Actinopterygii LOC562799 33
  • 71 (n)
  • 59 (a)
fruit fly
(Drosophila melanogaster)
Insecta retn 34
  • 20 (a)
(Caenorhabditis elegans)
Secernentea cfi-1 34
  • 35 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.6971 34
  • 38 (a)
Species where no ortholog for ARID3A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for ARID3A Gene

Gene Tree for ARID3A (if available)
Gene Tree for ARID3A (if available)
Evolutionary constrained regions (ECRs) for ARID3A: view image

Paralogs for ARID3A Gene

Paralogs for ARID3A Gene

(3) SIMAP similar genes for ARID3A Gene using alignment to 2 proteins:

  • K7EJ04_HUMAN
genes like me logo Genes that share paralogs with ARID3A: view

Variants for ARID3A Gene

Sequence variations from dbSNP and Humsavar for ARID3A Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000019167 -- 942,412(+) G/C intron_variant
rs1000081243 -- 965,294(+) A/C intron_variant
rs1000116738 -- 938,420(+) G/A intron_variant
rs1000139678 -- 973,155(+) C/T 3_prime_UTR_variant, downstream_transcript_variant, genic_downstream_transcript_variant
rs1000193009 -- 953,598(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ARID3A Gene

Variant ID Type Subtype PubMed ID
dgv134n111 CNV deletion 26073780
esv1501734 CNV deletion 17803354
esv2665746 CNV deletion 23128226
esv2673891 CNV deletion 23128226
esv2717811 CNV deletion 23290073
esv2717812 CNV deletion 23290073
esv2717813 CNV deletion 23290073
esv2758743 CNV gain+loss 17122850
esv3453 CNV loss 18987735
esv3643377 CNV loss 21293372
esv3643378 CNV loss 21293372
esv3643379 CNV gain 21293372
nsv1072834 CNV deletion 25765185
nsv1072835 CNV deletion 25765185
nsv1127642 CNV deletion 24896259
nsv1160555 CNV deletion 26073780
nsv469845 CNV loss 16826518
nsv470101 CNV loss 18288195
nsv578188 CNV loss 21841781
nsv833704 CNV gain 17160897
nsv953938 CNV deletion 24416366
nsv9662 CNV gain 18304495

Variation tolerance for ARID3A Gene

Residual Variation Intolerance Score: 29.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.28; 40.88% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ARID3A Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ARID3A Gene

Disorders for ARID3A Gene

Additional Disease Information for ARID3A

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for ARID3A Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ARID3A Gene

Publications for ARID3A Gene

  1. The human dead ringer/bright homolog, DRIL1: cDNA cloning, gene structure, and mapping to D19S886, a marker on 19p13.3 that is strictly linked to the Peutz-Jeghers syndrome. (PMID: 9722953) Kortschak RD … Jenne DE (Genomics 1998) 2 3 4 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. Solution NMR structure of the ARID domain of human AT-rich interactive domain-containing protein 3A: a human cancer protein interaction network target. (PMID: 20455271) Liu G … Montelione GT (Proteins 2010) 3 4 58
  4. A genome-wide association study of optic disc parameters. (PMID: 20548946) Ramdas WD … van Duijn CM (PLoS genetics 2010) 3 44 58
  5. Induction of immunoglobulin heavy-chain transcription through the transcription factor Bright requires TFII-I. (PMID: 16738337) Rajaiya J … Webb CF (Molecular and cellular biology 2006) 3 4 58

Products for ARID3A Gene

Sources for ARID3A Gene

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