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

Gene ID: 56380, updated on 21-Apr-2024

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, Apr 2022]
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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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 Is Critical for B Lymphocyte Development. Kurkewich JL, et al. PLoS One, 2016. PMID 27537840, Free PMC Article
  2. 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
  3. Differential expression of ARID3B in normal adult tissue and carcinomas. Samyesudhas SJ, et al. Gene, 2014 Jun 10. PMID 24704276
  4. 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
  5. 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

See all (40) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. critical for B lymphocyte development
    Title: Arid3b Is Critical for B Lymphocyte Development.
  2. 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.
  3. Epigenetic regulation of the neuroblastoma genes, Arid3b and Mycn.
    Title: Epigenetic regulation of the neuroblastoma genes, Arid3b and Mycn.
  4. 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.
  5. 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.
  6. 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)
  • Gene trapped (1) 
  • Targeted (3)  1 citation
  • Endonuclease-mediated (1) 

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
  
Process Evidence Code Pubs
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
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 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

    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_019689.2 → NP_062663.1  AT-rich interactive domain-containing protein 3B

    See identical proteins and their annotated locations for NP_062663.1

    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

    See identical proteins and their annotated locations for XP_011241078.1

    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

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