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

Gene ID: 679713, updated on 2-Nov-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
EnsemblRapid: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. Predicted to contribute to histone H4K12 acetyltransferase activity; histone H4K5 acetyltransferase activity; and histone H4K8 acetyltransferase activity. Predicted to be involved in chromatin remodeling; positive regulation of DNA-templated transcription; and regulation of transcription by RNA polymerase II. 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, Nov 2024]
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 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
    Related
    ENSRNOP00000011246.6, ENSRNOT00000011246.7

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
    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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