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    Arid3b AT-rich interaction domain 3B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 367092, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Arid3bprovided by RGD
    Official Full Name
    AT-rich interaction domain 3Bprovided by RGD
    Primary source
    RGD:1306335
    See related
    EnsemblRapid:ENSRNOG00000019677 AllianceGenome:RGD:1306335
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human ARID3B (AT-rich interaction domain 3B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 49.4), Spleen (RPKM 49.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Arid3b in Genome Data Viewer
    Location:
    8q24
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (67089141..67136764, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (58193268..58240901, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (62569601..62616837, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene CDC-like kinase 3 Neighboring gene single stranded DNA binding protein 1, pseudogene 4 Neighboring gene uncharacterized LOC134480188 Neighboring gene ubiquitin-like 7

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. 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
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    AT rich interactive domain 3B (Bright like)

    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_001109001.2 → NP_001102471.1  AT-rich interactive domain-containing protein 3B

      See identical proteins and their annotated locations for NP_001102471.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A6J4Y3, D3ZGC2
      Related
      ENSRNOP00000062477.2, ENSRNOT00000068340.5
      Conserved Domains (1) summary
      cd16879
      Location:196 → 321
      ARID_ARID3B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3B (ARID3B) and similar proteins

    2. NM_001433914.1 → NP_001420843.1  AT-rich interactive domain-containing protein 3B

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      67089141..67136764 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006243171.3 → XP_006243233.1  AT-rich interactive domain-containing protein 3B isoform X1

      UniProtKB/TrEMBL
      A6J4Y3, D3ZGC2
      Conserved Domains (1) summary
      cd16879
      Location:196 → 321
      ARID_ARID3B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3B (ARID3B) and similar proteins

    2. XM_039081878.2 → XP_038937806.1  AT-rich interactive domain-containing protein 3B isoform X3

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

    3. XM_039081877.2 → XP_038937805.1  AT-rich interactive domain-containing protein 3B isoform X2

      Conserved Domains (1) summary
      cd16879
      Location:23 → 148
      ARID_ARID3B; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3B (ARID3B) and similar proteins

    4. XM_039081876.2 → XP_038937804.1  AT-rich interactive domain-containing protein 3B isoform X1

      UniProtKB/TrEMBL
      A6J4Y3, D3ZGC2
      Conserved Domains (1) summary
      cd16879
      Location:196 → 321
      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

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