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Arid4a AT-rich interaction domain 4A [ Mus musculus (house mouse) ]

Gene ID: 238247, updated on 2-Nov-2024

Summary

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Official Symbol
Arid4aprovided by MGI
Official Full Name
AT-rich interaction domain 4Aprovided by MGI
Primary source
MGI:MGI:2444354
See related
Ensembl:ENSMUSG00000048118 AllianceGenome:MGI:2444354
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Rbbp1; A630009N03; A630067N03Rik
Summary
Predicted to enable transcription cis-regulatory region binding activity. Acts upstream of or within several processes, including erythrocyte development; establishment of Sertoli cell barrier; and regulation of gene expression. Predicted to be located in nucleoplasm and plasma membrane. Predicted to be part of transcription repressor complex. Predicted to be active in nucleus. Used to study acute myeloid leukemia. Orthologous to human ARID4A (AT-rich interaction domain 4A). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in bladder adult (RPKM 3.7), frontal lobe adult (RPKM 3.5) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Arid4a in Genome Data Viewer
Location:
12 C2; 12 29.39 cM
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (71061314..71146125)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (71015081..71099351)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E1441 Neighboring gene STARR-positive B cell enhancer ABC_E7144 Neighboring gene STARR-positive B cell enhancer ABC_E1442 Neighboring gene nuclear encoded tRNA lysine 17 (anticodon CTT) Neighboring gene proteasome subunit alpha 3 Neighboring gene RIKEN cDNA 3110056K07 gene Neighboring gene STARR-positive B cell enhancer ABC_E11778 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:72116322-72116431 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:72116588-72116697 Neighboring gene STARR-seq mESC enhancer starr_32414 Neighboring gene STARR-positive B cell enhancer ABC_E7145 Neighboring gene STARR-seq mESC enhancer starr_32415 Neighboring gene translocase of outer mitochondrial membrane 20-like Neighboring gene predicted gene, 32906 Neighboring gene translocase of inner mitochondrial membrane 9

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Identification of chromatin remodeling genes Arid4a and Arid4b as leukemia suppressor genes. Wu MY, et al. J Natl Cancer Inst, 2008 Sep 3. PMID 18728284, Free PMC Article
  2. Deficiency of Rbbp1/Arid4a and Rbbp1l1/Arid4b alters epigenetic modifications and suppresses an imprinting defect in the PWS/AS domain. Wu MY, et al. Genes Dev, 2006 Oct 15. PMID 17043311, Free PMC Article
  3. ARID4A and ARID4B regulate male fertility, a functional link to the AR and RB pathways. Wu RC, et al. Proc Natl Acad Sci U S A, 2013 Mar 19. PMID 23487765, Free PMC Article
  4. Role of the RB1 family in stabilizing histone methylation at constitutive heterochromatin. Gonzalo S, et al. Nat Cell Biol, 2005 Apr. PMID 15750587
  5. Nomenclature of the ARID family of DNA-binding proteins. Wilsker D, et al. Genomics, 2005 Aug. PMID 15922553

See all (36) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ARID4A and ARID4B function as transcriptional coactivators for AR and RB and play an integral part in the AR and RB regulatory pathways involved in the regulation of Sertoli cell function and male fertility.
    Title: ARID4A and ARID4B regulate male fertility, a functional link to the AR and RB pathways.
  2. Arid4a-deficient mice initially display ineffective hematopoiesis, followed by transition to chronic myelomonocytic leukemia (CMML)-like myelodysplastic/myeloproliferative disorder, and then transformation to AML.
    Title: Identification of chromatin remodeling genes Arid4a and Arid4b as leukemia suppressor genes.
  3. The retinoblastoma binding protein 1 shows a marked genomic instability, which is coincidental with decreased DNA methylation, increased acetylation of histone H3 and decreased tri-methylation of histone H4 at lysine 20 (H4K20).
    Title: Role of the RB1 family in stabilizing histone methylation at constitutive heterochromatin.
  4. RBP1 and the mSin3 histone deacetylase complex bind to BRMS1 and repress transcription
    Title: Breast cancer metastasis suppressor 1 (BRMS1) forms complexes with retinoblastoma-binding protein 1 (RBP1) and the mSin3 histone deacetylase complex and represses transcription.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables double-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription cis-regulatory region binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within chromatin organization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within erythrocyte development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within establishment of Sertoli cell barrier IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within genomic imprinting IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of cell migration NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in negative regulation of transforming growth factor beta receptor signaling pathway NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of stem cell population maintenance NAS
Non-traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within spermatogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
 PubMed 
Component Evidence Code Pubs
part_of Sin3-type complex NAS
Non-traceable Author Statement
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus NAS
Non-traceable Author Statement
more info
 PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
part_of transcription repressor complex IEA
Inferred from Electronic Annotation
more info
  
part_of transcription repressor complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
AT-rich interactive domain-containing protein 4A
Names
ARID domain-containing protein 4A
AT rich interactive domain 4A (RBP1-like)
AT rich interactive domain 4A (Rbp1 like)
retinoblastoma-binding protein 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001081195.1 → NP_001074664.1  AT-rich interactive domain-containing protein 4A

    See identical proteins and their annotated locations for NP_001074664.1

    Status: VALIDATED

    Source sequence(s)
    AC112794, AC132325
    Consensus CDS
    CCDS36471.1
    UniProtKB/Swiss-Prot
    B2RXT8, B2RY61, F8VPQ2, Q05CI2, Q6PE90
    Related
    ENSMUSP00000035512.6, ENSMUST00000046305.12
    Conserved Domains (4) summary
    smart00333
    Location:58 → 113
    TUDOR; Tudor domain
    cd16882
    Location:312 → 397
    ARID_ARID4A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins
    cd18641
    Location:580 → 638
    CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins
    pfam08169
    Location:170 → 262
    RBB1NT; RBB1NT (NUC162) domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    71061314..71146125
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036157396.1 → XP_036013289.1  AT-rich interactive domain-containing protein 4A isoform X1

    Conserved Domains (5) summary
    cd16882
    Location:312 → 397
    ARID_ARID4A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins
    cd18641
    Location:580 → 638
    CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins
    pfam08169
    Location:170 → 262
    RBB1NT; RBB1NT (NUC162) domain
    cd20459
    Location:4 → 61
    Tudor_ARID4A_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins
    cl02573
    Location:62 → 118
    Tudor_SF; Tudor domain superfamily

  2. XM_036157397.1 → XP_036013290.1  AT-rich interactive domain-containing protein 4A isoform X1

    Conserved Domains (5) summary
    cd16882
    Location:312 → 397
    ARID_ARID4A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins
    cd18641
    Location:580 → 638
    CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins
    pfam08169
    Location:170 → 262
    RBB1NT; RBB1NT (NUC162) domain
    cd20459
    Location:4 → 61
    Tudor_ARID4A_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4A (ARID4A) and similar proteins
    cl02573
    Location:62 → 118
    Tudor_SF; Tudor domain superfamily

  3. XM_036157398.1 → XP_036013291.1  AT-rich interactive domain-containing protein 4A isoform X2

    Conserved Domains (2) summary
    cd18641
    Location:258 → 316
    CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins
    cl28902
    Location:1 → 75
    ARID; ARID/BRIGHT DNA binding domain family

  4. XM_006515834.4 → XP_006515897.1  AT-rich interactive domain-containing protein 4A isoform X3

    Conserved Domains (2) summary
    cd18641
    Location:258 → 316
    CBD_RBP1_like; chromo barrel domain of retinoblastoma binding protein 1, and similar proteins
    cl28902
    Location:1 → 75
    ARID; ARID/BRIGHT DNA binding domain family

  5. XM_036157399.1 → XP_036013292.1  AT-rich interactive domain-containing protein 4A isoform X4

    Conserved Domains (1) summary
    cl28914
    Location:1 → 33
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

  6. XM_006515835.2 → XP_006515898.1  AT-rich interactive domain-containing protein 4A isoform X5

    Conserved Domains (1) summary
    cl28914
    Location:1 → 33
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

RNA

  1. XR_004937498.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
F8VPQ2.1 GenPept UniProtKB/Swiss-Prot:F8VPQ2

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