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    Brpf3 bromodomain and PHD finger containing, 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309647, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Brpf3provided by RGD
    Official Full Name
    bromodomain and PHD finger containing, 3provided by RGD
    Primary source
    RGD:1306868
    See related
    EnsemblRapid:ENSRNOG00000028641 AllianceGenome:RGD:1306868
    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 metal ion binding activity. Predicted to contribute to histone acetyltransferase activity. Predicted to be involved in positive regulation of DNA replication and regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of MOZ/MORF histone acetyltransferase complex. Orthologous to human BRPF3 (bromodomain and PHD finger containing 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 51.9), Testes (RPKM 29.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Brpf3 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (6866378..6904456)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (6864684..6902760)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (6047800..6086099)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483779 Neighboring gene mitogen activated protein kinase 13 Neighboring gene uncharacterized LOC134483867 Neighboring gene uncharacterized LOC120098863 Neighboring gene patatin-like phospholipase domain containing 1 Neighboring gene uncharacterized LOC120098864

    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. BRPF3-HBO1 regulates replication origin activation and histone H3K14 acetylation. Feng Y, et al. EMBO J, 2016 Jan 18. PMID 26620551, Free PMC Article
    2. Molecular architecture of quartet MOZ/MORF histone acetyltransferase complexes. Ullah M, et al. Mol Cell Biol, 2008 Nov. PMID 18794358, Free PMC Article
    3. 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
    4. 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
    contributes_to histone H3K14 acetyltransferase 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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA replication 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
    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
    		  
    part_of histone acetyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    bromodomain and PHD finger-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_001107615.1 → NP_001101085.1  bromodomain and PHD finger-containing protein 3

      See identical proteins and their annotated locations for NP_001101085.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473988
      UniProtKB/TrEMBL
      A0A0U1RRW8, A6JJS3, D3ZMD3
      Conserved Domains (6) summary
      cd05839
      Location:1068 → 1183
      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:592 → 689
      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. ...
      cd15572
      Location:212 → 265
      PHD_BRPF; PHD finger found in bromodomain and PHD finger-containing (BRPF) proteins
      cd15703
      Location:269 → 386
      ePHD_BRPF3; Extended PHD finger found in bromodomain and PHD finger-containing protein 3 (BRPF3) and similar proteins
      pfam10513
      Location:48 → 194
      EPL1; Enhancer of polycomb-like
      pfam11081
      Location:780 → 875
      DUF2890; Protein of unknown function (DUF2890)

    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_086038.1 Reference GRCr8

      Range
      6866378..6904456
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006256132.5 → XP_006256194.1  bromodomain and PHD finger-containing protein 3 isoform X4

      See identical proteins and their annotated locations for XP_006256194.1

      UniProtKB/TrEMBL
      A0A0U1RRW8, A6JJS3, D3ZMD3
      Related
      ENSRNOP00000041680.5, ENSRNOT00000042143.6
      Conserved Domains (6) summary
      cd05839
      Location:1068 → 1183
      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:592 → 689
      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. ...
      cd15572
      Location:212 → 265
      PHD_BRPF; PHD finger found in bromodomain and PHD finger-containing (BRPF) proteins
      cd15703
      Location:269 → 386
      ePHD_BRPF3; Extended PHD finger found in bromodomain and PHD finger-containing protein 3 (BRPF3) and similar proteins
      pfam10513
      Location:48 → 194
      EPL1; Enhancer of polycomb-like
      pfam11081
      Location:780 → 875
      DUF2890; Protein of unknown function (DUF2890)

    2. XM_006256129.4 → XP_006256191.1  bromodomain and PHD finger-containing protein 3 isoform X1

      Related
      ENSRNOP00000088316.2, ENSRNOT00000112955.2
      Conserved Domains (6) summary
      cd05839
      Location:1197 → 1312
      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:721 → 818
      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. ...
      cd15572
      Location:341 → 394
      PHD_BRPF; PHD finger found in bromodomain and PHD finger-containing (BRPF) proteins
      cd15703
      Location:398 → 515
      ePHD_BRPF3; Extended PHD finger found in bromodomain and PHD finger-containing protein 3 (BRPF3) and similar proteins
      pfam10513
      Location:177 → 323
      EPL1; Enhancer of polycomb-like
      pfam11081
      Location:909 → 1004
      DUF2890; Protein of unknown function (DUF2890)

    3. XM_039098703.2 → XP_038954631.1  bromodomain and PHD finger-containing protein 3 isoform X2

      UniProtKB/TrEMBL
      D3ZMD3
      Conserved Domains (4) summary
      cd05512
      Location:721 → 818
      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:246 → 732
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15703
      Location:398 → 515
      ePHD_BRPF3; Extended PHD finger found in bromodomain and PHD finger-containing protein 3 (BRPF3) and similar proteins
      cl02554
      Location:1197 → 1268
      PWWP; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins ...

    4. XM_039098704.2 → XP_038954632.1  bromodomain and PHD finger-containing protein 3 isoform X3

      UniProtKB/TrEMBL
      D3ZMD3
      Related
      ENSRNOP00000075843.2, ENSRNOT00000092629.3
      Conserved Domains (4) summary
      cd05512
      Location:721 → 818
      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. ...
      PHA03307
      Location:812 → 1225
      PHA03307; transcriptional regulator ICP4; Provisional
      COG5141
      Location:246 → 732
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15703
      Location:398 → 515
      ePHD_BRPF3; Extended PHD finger found in bromodomain and PHD finger-containing protein 3 (BRPF3) and similar proteins

    5. XM_039098705.2 → XP_038954633.1  bromodomain and PHD finger-containing protein 3 isoform X5

      Conserved Domains (3) summary
      cd05512
      Location:721 → 818
      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:246 → 732
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15703
      Location:398 → 515
      ePHD_BRPF3; Extended PHD finger found in bromodomain and PHD finger-containing protein 3 (BRPF3) and similar proteins

    6. XM_039098706.2 → XP_038954634.1  bromodomain and PHD finger-containing protein 3 isoform X6

      Conserved Domains (2) summary
      COG5141
      Location:246 → 758
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cl22851
      Location:398 → 515
      PHD_SF; PHD finger superfamily

    7. XM_039098707.2 → XP_038954635.1  bromodomain and PHD finger-containing protein 3 isoform X7

      Conserved Domains (2) summary
      COG5141
      Location:246 → 751
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cl22851
      Location:398 → 515
      PHD_SF; PHD finger superfamily

    8. XM_039098708.2 → XP_038954636.1  bromodomain and PHD finger-containing protein 3 isoform X8

      Conserved Domains (3) summary
      cd05839
      Location:570 → 685
      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:94 → 191
      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. ...
      PHA03307
      Location:185 → 542
      PHA03307; transcriptional regulator ICP4; Provisional

    RNA

    1. XR_005497245.2 RNA Sequence

    2. XR_005497244.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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