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    Brpf1 bromodomain and PHD finger containing, 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 679713, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Brpf1provided by RGD
    Official Full Name
    bromodomain and PHD finger containing, 1provided by RGD
    Primary source
    RGD:1584828
    See related
    Ensembl:ENSRNOG00000008142 AllianceGenome:RGD:1584828
    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 acetyltransferase activator activity and histone binding activity. Predicted to be involved in histone H3-K14 acetylation; histone H3-K23 acetylation; and positive regulation of transcription, DNA-templated. Predicted to act upstream of or within common myeloid progenitor cell proliferation; regulation of fibroblast proliferation; and tube morphogenesis. Predicted to be located in cytosol; nucleus; and plasma membrane. Predicted to be part of MOZ/MORF histone acetyltransferase complex. Orthologous to human BRPF1 (bromodomain and PHD finger containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 110.7), Heart (RPKM 84.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Brpf1 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (148011977..148028431)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (146456325..146472781)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (145264445..145280943)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene myotubularin related protein 14 Neighboring gene copine family member 9 Neighboring gene 8-oxoguanine DNA glycosylase Neighboring gene calcium/calmodulin-dependent protein kinase I Neighboring gene chaperonin containing TCP1 subunit 3, pseudogene 6

    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. PTRF/Cavin-1 promotes efficient ribosomal RNA transcription in response to metabolic challenges. Liu L, et al. Elife, 2016 Aug 16. PMID 27528195, Free PMC Article
    2. Mutations in the Chromatin Regulator Gene BRPF1 Cause Syndromic Intellectual Disability and Deficient Histone Acetylation. Yan K, et al. Am J Hum Genet, 2017 Jan 5. PMID 27939640, Free PMC Article
    3. Exchange of associated factors directs a switch in HBO1 acetyltransferase histone tail specificity. Lalonde ME, et al. Genes Dev, 2013 Sep 15. PMID 24065767, Free PMC Article
    4. Molecular architecture of quartet MOZ/MORF histone acetyltransferase complexes. Ullah M, et al. Mol Cell Biol, 2008 Nov. PMID 18794358, Free PMC Article
    5. ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. Doyon Y, et al. Mol Cell, 2006 Jan 6. PMID 16387653

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables acetyltransferase activator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H4K12 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H4K5 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    contributes_to histone H4K8 acetyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within common myeloid progenitor cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neural tube formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of fibroblast proliferation 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
    		  
    acts_upstream_of_or_within vasculogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of MOZ/MORF histone acetyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of MOZ/MORF histone acetyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of histone acetyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    peregrin

    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_001191572.1 → NP_001178501.1  peregrin isoform 1

      See identical proteins and their annotated locations for NP_001178501.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      Conserved Domains (5) summary
      cd05839
      Location:1115 → 1230
      BR140_related; The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, ...
      cd05512
      Location:631 → 728
      Bromo_brd1_like; Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. ...
      COG5141
      Location:173 → 656
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      COG5189
      Location:20 → 50
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15701
      Location:329 → 449
      ePHD_BRPF1; Extended PHD finger found in bromodomain and PHD finger-containing protein 1 (BRPF1) and similar proteins

    2. NM_001415934.1 → NP_001402863.1  peregrin isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A6IBQ0

    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_086022.1 Reference GRCr8

      Range
      148011977..148028431
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006237055.5 → XP_006237117.1  peregrin isoform X1

      UniProtKB/TrEMBL
      D4A411
      Related
      ENSRNOP00000011246.5
      Conserved Domains (5) summary
      cd05839
      Location:1121 → 1236
      BR140_related; The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, ...
      cd05512
      Location:631 → 734
      Bromo_brd1_like; Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. ...
      cd15676
      Location:266 → 327
      PHD_BRPF1; PHD finger found in bromodomain and PHD finger-containing protein 1 (BRPF1) and similar proteins
      cd15701
      Location:329 → 449
      ePHD_BRPF1; Extended PHD finger found in bromodomain and PHD finger-containing protein 1 (BRPF1) and similar proteins
      pfam10513
      Location:106 → 254
      EPL1; Enhancer of polycomb-like

    2. XM_039108330.2 → XP_038964258.1  peregrin isoform X2

      Conserved Domains (5) summary
      cd05839
      Location:1087 → 1202
      BR140_related; The PWWP domain is found in the BR140 family, which includes peregrin and BR140-like proteins 1 and 2. BR140 is the only family to contain the PWWP domain at the C terminus, with PHD and bromo domains in the N-terminal region. In myeloid leukemias, ...
      cd05512
      Location:631 → 734
      Bromo_brd1_like; Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. ...
      COG5141
      Location:173 → 656
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      COG5189
      Location:20 → 50
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15701
      Location:329 → 449
      ePHD_BRPF1; Extended PHD finger found in bromodomain and PHD finger-containing protein 1 (BRPF1) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version

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