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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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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