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Brd3 bromodomain containing 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362092, updated on 11-Apr-2024

Summary

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Official Symbol
Brd3provided by RGD
Official Full Name
bromodomain containing 3provided by RGD
Primary source
RGD:1308925
See related
Ensembl:ENSRNOG00000007681 AllianceGenome:RGD:1308925
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 lysine-acetylated histone binding activity and nucleosomal histone binding activity. Predicted to be involved in chromatin remodeling and regulation of transcription by RNA polymerase II. Predicted to be active in chromatin and nucleus. Orthologous to human BRD3 (bromodomain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Adrenal (RPKM 105.2), Lung (RPKM 86.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
3p12
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (31173332..31227749, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (10773163..10829675, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (5995204..6054467, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene vav guanine nucleotide exchange factor 2 Neighboring gene BRD3 opposite strand Neighboring gene microRNA 7578 Neighboring gene small nucleolar RNA SNORA26 Neighboring gene transfer RNA alanine (anticodon AGC) 47 Neighboring gene U6atac minor spliceosomal RNA Neighboring gene WD repeat domain 5

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 double bromodomain proteins Brd2 and Brd3 couple histone acetylation to transcription. LeRoy G, et al. Mol Cell, 2008 Apr 11. PMID 18406326, Free PMC Article
  2. Molecular Coupling of Histone Crotonylation and Active Transcription by AF9 YEATS Domain. Li Y, et al. Mol Cell, 2016 Apr 21. PMID 27105114, Free PMC Article
  3. Histone recognition and large-scale structural analysis of the human bromodomain family. Filippakopoulos P, et al. Cell, 2012 Mar 30. PMID 22464331, Free PMC Article
  4. The bromodomain: from epigenome reader to druggable target. Sanchez R, et al. Biochim Biophys Acta, 2014 Aug. PMID 24686119, Free PMC Article
  5. 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

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables lncRNA binding ISO
Inferred from Sequence Orthology
more info
  
enables lysine-acetylated histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables lysine-acetylated histone binding ISO
Inferred from Sequence Orthology
more info
  
enables molecular condensate scaffold activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in endodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to chromatin ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of chromatin 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
bromodomain-containing protein 3

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_001108575.1 → NP_001102045.1  bromodomain-containing protein 3

    See identical proteins and their annotated locations for NP_001102045.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474001
    UniProtKB/TrEMBL
    A6JTL2, D3ZWU1
    Related
    ENSRNOP00000059977.2, ENSRNOT00000065867.4
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:571 → 635
    BET; Bromodomain extra-terminal - transcription regulation

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_086021.1 Reference GRCr8

    Range
    31173332..31227749 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063284059.1 → XP_063140129.1  bromodomain-containing protein 3 isoform X2

    UniProtKB/TrEMBL
    A6JTL2, D3ZWU1

  2. XM_006233826.5 → XP_006233888.1  bromodomain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006233888.1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71
    Related
    ENSRNOP00000073373.1
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:588 → 652
    BET; Bromodomain extra-terminal - transcription regulation

  3. XM_006233830.4 → XP_006233892.1  bromodomain-containing protein 3 isoform X2

    See identical proteins and their annotated locations for XP_006233892.1

    UniProtKB/TrEMBL
    A6JTL2, D3ZWU1
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:571 → 635
    BET; Bromodomain extra-terminal - transcription regulation

  4. XM_006233825.4 → XP_006233887.1  bromodomain-containing protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006233887.1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:588 → 652
    BET; Bromodomain extra-terminal - transcription regulation

  5. XM_063284060.1 → XP_063140130.1  bromodomain-containing protein 3 isoform X2

    UniProtKB/TrEMBL
    A6JTL2, D3ZWU1

  6. XM_017591876.3 → XP_017447365.1  bromodomain-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:588 → 652
    BET; Bromodomain extra-terminal - transcription regulation

  7. XM_039105364.2 → XP_038961292.1  bromodomain-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:588 → 652
    BET; Bromodomain extra-terminal - transcription regulation

  8. XM_063284062.1 → XP_063140132.1  bromodomain-containing protein 3 isoform X2

    UniProtKB/TrEMBL
    A6JTL2, D3ZWU1

  9. XM_017591877.3 → XP_017447366.1  bromodomain-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:588 → 652
    BET; Bromodomain extra-terminal - transcription regulation

  10. XM_063284058.1 → XP_063140128.1  bromodomain-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71

  11. XM_039105362.2 → XP_038961290.1  bromodomain-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5C4, B5DF71
    Conserved Domains (3) summary
    cd05497
    Location:34 → 140
    Bromo_Brdt_I_like; Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    cd05498
    Location:311 → 412
    Bromo_Brdt_II_like; Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino ...
    pfam17035
    Location:588 → 652
    BET; Bromodomain extra-terminal - transcription regulation

  12. XM_063284061.1 → XP_063140131.1  bromodomain-containing protein 3 isoform X2

    UniProtKB/TrEMBL
    A6JTL2, D3ZWU1
Nucleotide Protein Strain
Heading Accession and Version

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