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    Arid3b AT-rich interaction domain 3B [ Mus musculus (house mouse) ]

    Gene ID: 56380, updated on 13-Jan-2025

    Summary

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    Official Symbol
    Arid3bprovided by MGI
    Official Full Name
    AT-rich interaction domain 3Bprovided by MGI
    Primary source
    MGI:MGI:1930768
    See related
    Ensembl:ENSMUSG00000004661 AllianceGenome:MGI:1930768
    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
    Bdp; Dri2
    Summary
    Predicted to enable DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; early conceptus; genitourinary system; limb; and sensory organ. Orthologous to human ARID3B (AT-rich interaction domain 3B). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Broad expression in thymus adult (RPKM 15.4), testis adult (RPKM 14.5) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Arid3b in Genome Data Viewer
    Location:
    9 B; 9 31.56 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (57697636..57744130, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (57790353..57836847, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene enhancer of mRNA decapping 3 Neighboring gene STARR-positive B cell enhancer ABC_E11409 Neighboring gene CDC-like kinase 3 Neighboring gene CapStarr-seq enhancers MGSCv37_chr9:57617333-57617516 and MGSCv37_chr9:57617555-57617846 Neighboring gene predicted gene, 32510 Neighboring gene STARR-seq mESC enhancer starr_24247 Neighboring gene STARR-positive B cell enhancer ABC_E2889 Neighboring gene STARR-positive B cell enhancer ABC_E6741 Neighboring gene STARR-seq mESC enhancer starr_24248 Neighboring gene predicted gene 7547 Neighboring gene meiotic nuclear divisions 1 homolog pseudogene

    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. ARID3B induces malignant transformation of mouse embryonic fibroblasts and is strongly associated with malignant neuroblastoma. Kobayashi K, et al. Cancer Res, 2006 Sep 1. PMID 16951138
    2. Differential expression of ARID3B in normal adult tissue and carcinomas. Samyesudhas SJ, et al. Gene, 2014 Jun 10. PMID 24704276
    3. The immunoglobulin heavy-chain matrix-associating regions are bound by Bright: a B cell-specific trans-activator that describes a new DNA-binding protein family. Herrscher RF, et al. Genes Dev, 1995 Dec 15. PMID 8543152
    4. Microarray analysis of PDGFR alpha+ populations in ES cell differentiation culture identifies genes involved in differentiation of mesoderm and mesenchyme including ARID3b that is essential for development of embryonic mesenchymal cells. Takebe A, et al. Dev Biol, 2006 May 1. PMID 16530748
    5. The ARID family transcription factor bright is required for both hematopoietic stem cell and B lineage development. Webb CF, et al. Mol Cell Biol, 2011 Mar. PMID 21199920, Free PMC Article

    See all (41) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The different patterns of ARID3B in normal tissues translate into different roles for ARID3B in carcinomas.
      Title: Differential expression of ARID3B in normal adult tissue and carcinomas.
    2. Epigenetic regulation of the neuroblastoma genes, Arid3b and Mycn.
      Title: Epigenetic regulation of the neuroblastoma genes, Arid3b and Mycn.
    3. Arid3b is involved in the regulation of cell motility and rearrangements that lead to apical ectodermal ridge maturation.
      Title: Apical ectodermal ridge morphogenesis in limb development is controlled by Arid3b-mediated regulation of cell movements.
    4. ARID3B seems to play a key role in the malignant transformation of neuroblastoma and may serve as a marker of malignancy and also as a potential target for cancer therapy of stage IV neuroblastoma.
      Title: ARID3B induces malignant transformation of mouse embryonic fibroblasts and is strongly associated with malignant neuroblastoma.
    5. indispensable for production of cranial mesenchymal tissues
      Title: Microarray analysis of PDGFR alpha+ populations in ES cell differentiation culture identifies genes involved in differentiation of mesoderm and mesenchyme including ARID3b that is essential for development of embryonic mesenchymal cells.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Gene trapped (1) 
    • Targeted (3)  1 citation

    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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    Homology

    Clone Names

    • MGC59291

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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
    		  

    General protein information

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    Preferred Names
    AT-rich interactive domain-containing protein 3B
    Names
    ARID domain-containing protein 3B
    AT rich interactive domain 3B (BRIGHT-like)
    AT rich interactive domain 3B (Bright like)
    bright and dead ringer gene product homologous protein Bdp
    bright and dead ringer protein
    bright-like protein
    dead ringer homolog 2

    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_001379353.1 → NP_001366282.1  AT-rich interactive domain-containing protein 3B isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC122534
      UniProtKB/Swiss-Prot
      Q3UTG1, Q810L9, Q9Z1N7
      UniProtKB/TrEMBL
      B2RWY2
      Conserved Domains (1) summary
      cd16879
      Location:202 → 327
      ARID_ARID3B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3B (ARID3B) and similar proteins

    2. NM_001433913.1 → NP_001420842.1  AT-rich interactive domain-containing protein 3B isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC122534
      UniProtKB/TrEMBL
      E9PW42

    3. NM_019689.3 → NP_062663.1  AT-rich interactive domain-containing protein 3B isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC122534
      Consensus CDS
      CCDS23233.1
      UniProtKB/Swiss-Prot
      Q3UTG1, Q810L9, Q9Z1N7
      UniProtKB/TrEMBL
      B2RWY2
      Related
      ENSMUSP00000130173.2, ENSMUST00000171444.8
      Conserved Domains (1) summary
      cd16879
      Location:202 → 327
      ARID_ARID3B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3B (ARID3B) and similar proteins

    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_000075.7 Reference GRCm39 C57BL/6J

      Range
      57697636..57744130 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030244462.1 → XP_030100322.1  AT-rich interactive domain-containing protein 3B isoform X3

      Conserved Domains (1) summary
      cl28902
      Location:1 → 88
      ARID; ARID/BRIGHT DNA binding domain family

    2. XM_011242774.1 → XP_011241076.1  AT-rich interactive domain-containing protein 3B isoform X2

      Conserved Domains (1) summary
      cl28902
      Location:1 → 101
      ARID; ARID/BRIGHT DNA binding domain family

    3. XM_011242776.2 → XP_011241078.1  AT-rich interactive domain-containing protein 3B isoform X3

      Conserved Domains (1) summary
      cl28902
      Location:1 → 88
      ARID; ARID/BRIGHT DNA binding domain family

    4. XM_006511292.5 → XP_006511355.1  AT-rich interactive domain-containing protein 3B isoform X1

      UniProtKB/TrEMBL
      F8WIN2
      Related
      ENSMUSP00000096283.4, ENSMUST00000098686.4
      Conserved Domains (1) summary
      cd16879
      Location:202 → 327
      ARID_ARID3B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3B (ARID3B) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9Z1N7.1 GenPept UniProtKB/Swiss-Prot:Q9Z1N7

    Gene LinkOut

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

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