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

Gene ID: 309647, updated on 5-Mar-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
Ensembl: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 histone binding activity. Predicted to be involved in histone H3-K14 acetylation and positive regulation of DNA replication. 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, Apr 2022]
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
  • 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
    Related
    ENSRNOP00000075843.1, ENSRNOT00000092629.2
    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
    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

    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
    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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