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    Brd9 bromodomain containing 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308067, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Brd9provided by RGD
    Official Full Name
    bromodomain containing 9provided by RGD
    Primary source
    RGD:1307359
    See related
    EnsemblRapid:ENSRNOG00000015676 AllianceGenome:RGD:1307359
    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 lysine-acetylated histone binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Orthologous to human BRD9 (bromodomain containing 9). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 86.6), Lung (RPKM 81.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Brd9 in Genome Data Viewer
    Location:
    1p11
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (31158546..31185812, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (29329981..29357285, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (31939612..31968120, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene tubulin polymerization promoting protein Neighboring gene zinc finger, DHHC-type containing 11 Neighboring gene uncharacterized LOC134484978 Neighboring gene small nucleolar RNA SNORA21 Neighboring gene thyroid hormone receptor interactor 13 Neighboring gene NKD inhibitor of WNT signaling pathway 2

    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. BRD9 Inhibition Attenuates Matrix Degradation and Pyroptosis in Nucleus Pulposus by Modulating the NOX1/ROS/NF-κB axis. Deng Z, et al. Inflammation, 2023 Jun. PMID 36801999
    2. 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
    3. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Hargreaves DC, et al. Cell Res, 2011 Mar. PMID 21358755, Free PMC Article
    4. Glioma tumor suppressor candidate region gene 1 (GLTSCR1) and its paralog GLTSCR1-like form SWI/SNF chromatin remodeling subcomplexes. Alpsoy A, et al. J Biol Chem, 2018 Mar 16. PMID 29374058, Free PMC Article
    5. 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

    What's a GeneRIF?
    1. BRD9 Inhibition Attenuates Matrix Degradation and Pyroptosis in Nucleus Pulposus by Modulating the NOX1/ROS/NF-kappaB axis.
      Title: BRD9 Inhibition Attenuates Matrix Degradation and Pyroptosis in Nucleus Pulposus by Modulating the NOX1/ROS/NF-κB axis.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    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
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of SWI/SNF complex 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
    bromodomain-containing protein 9

    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_001395085.1 → NP_001382014.1  bromodomain-containing protein 9 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6JUV9
      Conserved Domains (1) summary
      cd05513
      Location:140 → 237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...

    2. NM_001395087.1 → NP_001382016.1  bromodomain-containing protein 9 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6JUW0, D4ACF5
      Related
      ENSRNOP00000021000.9, ENSRNOT00000021000.9
      Conserved Domains (1) summary
      cd05513
      Location:140 → 237
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...

    3. NM_001395088.1 → NP_001382017.1  bromodomain-containing protein 9 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6JUV9
      Conserved Domains (1) summary
      cd05513
      Location:137 → 234
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...

    4. NM_001395089.1 → NP_001382018.1  bromodomain-containing protein 9 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      Conserved Domains (2) summary
      pfam12024
      Location:79 → 258
      DUF3512; Domain of unknown function (DUF3512)
      cl02556
      Location:1 → 30
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

    5. NM_001395090.1 → NP_001382019.1  bromodomain-containing protein 9 isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      Conserved Domains (1) summary
      cl02556
      Location:1 → 30
      Bromodomain; Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.

    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_086019.1 Reference GRCr8

      Range
      31158546..31185812 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006227787.4 → XP_006227849.1  bromodomain-containing protein 9 isoform X1

      UniProtKB/TrEMBL
      A6JUV9
      Conserved Domains (2) summary
      cd05513
      Location:246 → 343
      Bromo_brd7_like; Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene ...
      pfam12024
      Location:379 → 608
      DUF3512; Domain of unknown function (DUF3512)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107453.1: Suppressed sequence

      Description
      NM_001107453.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
    Nucleotide Protein Strain
    Heading Accession and Version

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