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Arid4b AT-rich interaction domain 4B [ Mus musculus (house mouse) ]

Gene ID: 94246, updated on 21-Apr-2024

Summary

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Official Symbol
Arid4bprovided by MGI
Official Full Name
AT-rich interaction domain 4Bprovided by MGI
Primary source
MGI:MGI:2137512
See related
Ensembl:ENSMUSG00000039219 AllianceGenome:MGI:2137512
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
BCAA; BRCAA1; Rbp1l1; SAP180; RBBP1L1
Summary
Predicted to enable transcription cis-regulatory region binding activity. Acts upstream of or within several processes, including establishment of Sertoli cell barrier; peptidyl-lysine trimethylation; and regulation of gene expression. Predicted to be located in cytosol; mitochondrion; and nucleoplasm. Predicted to be active in nucleus. Is expressed in testis. Orthologous to human ARID4B (AT-rich interaction domain 4B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 10.1), CNS E14 (RPKM 7.3) and 26 other tissues See more
Orthologs
human all
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Genomic context

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Location:
13 A1; 13 5.29 cM
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (14238334..14374188)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (14063609..14199603)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene UDP-GalNAc:betaGlcNAc beta 1,3-galactosaminyltransferase, polypeptide 2 Neighboring gene STARR-seq mESC enhancer starr_33708 Neighboring gene STARR-positive B cell enhancer ABC_E5369 Neighboring gene tubulin-specific chaperone E Neighboring gene STARR-positive B cell enhancer ABC_E9866 Neighboring gene STARR-positive B cell enhancer ABC_E32 Neighboring gene STARR-seq mESC enhancer starr_33710 Neighboring gene geranylgeranyl diphosphate synthase 1 Neighboring gene predicted gene, 26129 Neighboring gene zinc finger and SCAN domain containing 5B pseudogene Neighboring gene HECT, C2 and WW domain containing E3 ubiquitin protein ligase 1 Neighboring gene STARR-seq mESC enhancer starr_33711 Neighboring gene STARR-seq mESC enhancer starr_33713 Neighboring gene STARR-seq mESC enhancer starr_33714 Neighboring gene STARR-seq mESC enhancer starr_33715 Neighboring gene predicted gene, 30893

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
  • 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. ARID4B is critical for mouse embryonic stem cell differentiation towards mesoderm and endoderm, linking epigenetics to pluripotency exit. Terzi Cizmecioglu N, et al. J Biol Chem, 2020 Dec 18. PMID 33454011, Free PMC Article
  2. Identification of the PTEN-ARID4B-PI3K pathway reveals the dependency on ARID4B by PTEN-deficient prostate cancer. Wu RC, et al. Nat Commun, 2019 Sep 24. PMID 31551414, Free PMC Article
  3. Inherited variation in miR-290 expression suppresses breast cancer progression by targeting the metastasis susceptibility gene Arid4b. Goldberger N, et al. Cancer Res, 2013 Apr 15. PMID 23447578, Free PMC Article
  4. Allelic variation and differential expression of the mSIN3A histone deacetylase complex gene Arid4b promote mammary tumor growth and metastasis. Winter SF, et al. PLoS Genet, 2012 May. PMID 22693453, Free PMC Article
  5. 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

See all (41) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Differentiation of fetal hematopoietic stem cells requires ARID4B to restrict autocrine KITLG/KIT-Src signaling.
    Title: Differentiation of fetal hematopoietic stem cells requires ARID4B to restrict autocrine KITLG/KIT-Src signaling.
  2. ARID4B is critical for mouse embryonic stem cell differentiation towards mesoderm and endoderm, linking epigenetics to pluripotency exit.
    Title: ARID4B is critical for mouse embryonic stem cell differentiation towards mesoderm and endoderm, linking epigenetics to pluripotency exit.
  3. These results identified ARID4B as a master regulator of a signaling network that governs the establishment of a niche during the critical gonocyte-to-spermatogonial stem cells (SSC) transition phase to control the fate of gonocytes and SSCs.
    Title: Temporal-Spatial Establishment of Initial Niche for the Primary Spermatogonial Stem Cell Formation Is Determined by an ARID4B Regulatory Network.
  4. The study identified ARID4B to be a key regulator of Sertoli cell function important for male germ cell development.
    Title: Androgen Receptor Coactivator ARID4B Is Required for the Function of Sertoli Cells in Spermatogenesis.
  5. 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.
  6. These studies support a causative role of ARID4B in metastatic progression of breast cancer.
    Title: Allelic variation and differential expression of the mSIN3A histone deacetylase complex gene Arid4b promote mammary tumor growth and metastasis.
  7. 10 of 12 Arid4a(-/-)Arid4b(+/-) mice progressed to acute myeloid leukemia (AML) and had rapid further increases of leukocyte counts.
    Title: Identification of chromatin remodeling genes Arid4a and Arid4b as leukemia suppressor genes.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (5)  1 citation
  • Endonuclease-mediated (4) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • 5930400I17, 6330417L24Rik, 6720480E17Rik

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
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 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 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
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
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 

General protein information

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Preferred Names
AT-rich interactive domain-containing protein 4B
Names
180 kDa Sin3-associated polypeptide
ARID domain-containing protein 4B
AT rich interactive domain 4B (RBP1-like)
breast cancer-associated antigen
histone deacetylase complex subunit SAP180
retinoblastoma binding protein 1-like 1
sin3-associated polypeptide p180

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_194262.2 → NP_919238.1  AT-rich interactive domain-containing protein 4B isoform 1

    See identical proteins and their annotated locations for NP_919238.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK034400, AK041414, BC137783, BY720039
    Consensus CDS
    CCDS36599.1
    UniProtKB/Swiss-Prot
    A2CG61, A2CG62, A2CG63, A2CG64, B2RQ67, Q8BMI8, Q8BYA5
    Related
    ENSMUSP00000106163.2, ENSMUST00000110534.8
    Conserved Domains (4) summary
    smart00333
    Location:58 → 113
    TUDOR; Tudor domain
    cd16883
    Location:308 → 399
    ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    pfam08169
    Location:168 → 263
    RBB1NT; RBB1NT (NUC162) domain
    cl28914
    Location:573 → 630
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

  2. NM_198122.2 → NP_937755.1  AT-rich interactive domain-containing protein 4B isoform 2

    See identical proteins and their annotated locations for NP_937755.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
    Source sequence(s)
    AK034400, AK041414, BC137783, BY720039
    Consensus CDS
    CCDS36600.1
    UniProtKB/Swiss-Prot
    A2CG63
    Related
    ENSMUSP00000043889.9, ENSMUST00000039538.15
    Conserved Domains (3) summary
    smart00333
    Location:58 → 113
    TUDOR; Tudor domain
    smart01014
    Location:311 → 394
    ARID; ARID/BRIGHT DNA binding domain
    pfam08169
    Location:169 → 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_000079.7 Reference GRCm39 C57BL/6J

    Range
    14238334..14374188
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006516808.4 → XP_006516871.1  AT-rich interactive domain-containing protein 4B isoform X2

    Conserved Domains (4) summary
    cd16883
    Location:308 → 399
    ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    pfam08169
    Location:168 → 263
    RBB1NT; RBB1NT (NUC162) domain
    cd20460
    Location:1 → 61
    Tudor_ARID4B_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    cd20462
    Location:62 → 118
    Tudor_ARID4B_rpt2; second Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

  2. XM_006516806.4 → XP_006516869.1  AT-rich interactive domain-containing protein 4B isoform X1

    See identical proteins and their annotated locations for XP_006516869.1

    UniProtKB/Swiss-Prot
    A2CG61, A2CG62, A2CG63, A2CG64, B2RQ67, Q8BMI8, Q8BYA5
    Conserved Domains (4) summary
    smart00333
    Location:58 → 113
    TUDOR; Tudor domain
    cd16883
    Location:308 → 399
    ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    pfam08169
    Location:168 → 263
    RBB1NT; RBB1NT (NUC162) domain
    cl28914
    Location:573 → 630
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

  3. XM_036158231.1 → XP_036014124.1  AT-rich interactive domain-containing protein 4B isoform X2

    Conserved Domains (4) summary
    cd16883
    Location:308 → 399
    ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    pfam08169
    Location:168 → 263
    RBB1NT; RBB1NT (NUC162) domain
    cd20460
    Location:1 → 61
    Tudor_ARID4B_rpt1; first Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    cd20462
    Location:62 → 118
    Tudor_ARID4B_rpt2; second Tudor domain found in AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins

  4. XM_006516807.4 → XP_006516870.1  AT-rich interactive domain-containing protein 4B isoform X1

    See identical proteins and their annotated locations for XP_006516870.1

    UniProtKB/Swiss-Prot
    A2CG61, A2CG62, A2CG63, A2CG64, B2RQ67, Q8BMI8, Q8BYA5
    Conserved Domains (4) summary
    smart00333
    Location:58 → 113
    TUDOR; Tudor domain
    cd16883
    Location:308 → 399
    ARID_ARID4B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 4B (ARID4B) and similar proteins
    pfam08169
    Location:168 → 263
    RBB1NT; RBB1NT (NUC162) domain
    cl28914
    Location:573 → 630
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

  5. XM_030247479.2 → XP_030103339.1  AT-rich interactive domain-containing protein 4B isoform X3

    Conserved Domains (2) summary
    cl28902
    Location:1 → 80
    ARID; ARID/BRIGHT DNA binding domain family
    cl28914
    Location:254 → 311
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

  6. XM_030247480.2 → XP_030103340.1  AT-rich interactive domain-containing protein 4B isoform X4

    Conserved Domains (1) summary
    cl28902
    Location:1 → 80
    ARID; ARID/BRIGHT DNA binding domain family

RNA

  1. XR_003950495.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A2CG63.1 GenPept UniProtKB/Swiss-Prot:A2CG63

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