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

Gene ID: 367092, updated on 5-Mar-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
Ensembl:ENSRNOG00000019677 AllianceGenome:RGD:1306335
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 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, Apr 2022]
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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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
  • 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_001109001.1 → NP_001102471.1  AT-rich interactive domain-containing protein 3B

    See identical proteins and their annotated locations for NP_001102471.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473975
    UniProtKB/TrEMBL
    A6J4Y3, D3ZGC2
    Related
    ENSRNOP00000062477.1, ENSRNOT00000068340.4
    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

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

    See identical proteins and their annotated locations for XP_006243233.1

    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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