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Arid3a AT-rich interaction domain 3A [ Rattus norvegicus (Norway rat) ]

Gene ID: 314616, updated on 2-Nov-2024

Summary

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Official Symbol
Arid3aprovided by RGD
Official Full Name
AT-rich interaction domain 3Aprovided by RGD
Primary source
RGD:1305299
See related
EnsemblRapid:ENSRNOG00000026435 AllianceGenome:RGD:1305299
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including chromatin binding activity; identical protein binding activity; and transcription coregulator activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; membrane raft; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human ARID3A (AT-rich interaction domain 3A). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 36.6), Kidney (RPKM 35.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Arid3a in Genome Data Viewer
Location:
7q11
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (10403161..10431551, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (9755291..9781260, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (12573604..12602407, complement)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene transmembrane protein 259 Neighboring gene glutamate ionotropic receptor NMDA type subunit 3B Neighboring gene WD repeat domain 18 Neighboring gene KISS1 receptor Neighboring gene R3H domain containing 4

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
  • 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. Mutations in the DNA-binding domain of the transcription factor Bright act as dominant negative proteins and interfere with immunoglobulin transactivation. Nixon JC, et al. J Biol Chem, 2004 Dec 10. PMID 15456761
  2. Characterization of a new ARID family transcription factor (Brightlike/ARID3C) that co-activates Bright/ARID3A-mediated immunoglobulin gene transcription. Tidwell JA, et al. Mol Immunol, 2011 Oct. PMID 21955986, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. 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

Clone Names

  • MGC189073

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription coregulator activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription 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 cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in membrane raft ISO
Inferred from Sequence Orthology
more info
  
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
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
AT-rich interactive domain-containing protein 3A
Names
AT rich interactive domain 3A (Bright like)
dead ringer homolog 1

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_001108066.2 → NP_001101536.2  AT-rich interactive domain-containing protein 3A

    See identical proteins and their annotated locations for NP_001101536.2

    Status: PROVISIONAL

    Source sequence(s)
    BC168846
    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Related
    ENSRNOP00000026708.6, ENSRNOT00000026708.9
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

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_086025.1 Reference GRCr8

    Range
    10403161..10431551 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006240905.5 → XP_006240967.1  AT-rich interactive domain-containing protein 3A isoform X1

    See identical proteins and their annotated locations for XP_006240967.1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

  2. XM_017594812.3 → XP_017450301.1  AT-rich interactive domain-containing protein 3A isoform X1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

  3. XM_006240904.5 → XP_006240966.1  AT-rich interactive domain-containing protein 3A isoform X1

    See identical proteins and their annotated locations for XP_006240966.1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

  4. XM_008765169.4 → XP_008763391.1  AT-rich interactive domain-containing protein 3A isoform X1

    See identical proteins and their annotated locations for XP_008763391.1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

  5. XM_039078974.2 → XP_038934902.1  AT-rich interactive domain-containing protein 3A isoform X1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

  6. XM_039078976.2 → XP_038934904.1  AT-rich interactive domain-containing protein 3A isoform X1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins

  7. XM_006240902.5 → XP_006240964.1  AT-rich interactive domain-containing protein 3A isoform X1

    See identical proteins and their annotated locations for XP_006240964.1

    UniProtKB/TrEMBL
    B5DEX9, E9PTY2
    Conserved Domains (1) summary
    cd16878
    Location:217 → 349
    ARID_ARID3A; ARID/BRIGHT DNA binding domain of AT-rich interactive domain-containing protein 3A (ARID3A) and similar proteins
Nucleotide Protein Strain
Heading Accession and Version

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