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    Phf19 PHD finger protein 19 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 296653, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Phf19provided by RGD
    Official Full Name
    PHD finger protein 19provided by RGD
    Primary source
    RGD:1310390
    See related
    EnsemblRapid:ENSRNOG00000018874 AllianceGenome:RGD:1310390
    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 DNA binding activity; chromatin binding activity; and methylated histone binding activity. Predicted to be involved in negative regulation of macromolecule biosynthetic process; stem cell differentiation; and stem cell population maintenance. Predicted to be part of ESC/E(Z) complex. Predicted to be active in nucleus. Orthologous to human PHF19 (PHD finger protein 19). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 28.2), Spleen (RPKM 18.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Phf19 in Genome Data Viewer
    Location:
    3p11
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (38572766..38604950, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (18175281..18197289, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (13957136..13978283, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene beta-1,3-galactosyltransferase 9 Neighboring gene proteasome 26S subunit, non-ATPase 5 Neighboring gene cutA divalent cation tolerance homolog-like Neighboring gene RNA, U6 small nuclear 1256 Neighboring gene TNF receptor-associated factor 1 Neighboring gene complement C5

    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. PHD Finger Protein 19 Promotes Cardiac Hypertrophy via Epigenetically Regulating SIRT2. Gu W, et al. Cardiovasc Toxicol, 2021 Jun. PMID 33611744, Free PMC Article
    2. Polycomb PHF19 binds H3K36me3 and recruits PRC2 and demethylase NO66 to embryonic stem cell genes during differentiation. Brien GL, et al. Nat Struct Mol Biol, 2012 Dec. PMID 23160351
    3. Tudor: a versatile family of histone methylation 'readers'. Lu R, et al. Trends Biochem Sci, 2013 Nov. PMID 24035451, Free PMC Article
    4. SET for life: biochemical activities and biological functions of SET domain-containing proteins. Herz HM, et al. Trends Biochem Sci, 2013 Dec. PMID 24148750, Free PMC Article
    5. Polycomb-like 3 promotes polycomb repressive complex 2 binding to CpG islands and embryonic stem cell self-renewal. Hunkapiller J, et al. PLoS Genet, 2012. PMID 22438827, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PHD Finger Protein 19 Promotes Cardiac Hypertrophy via Epigenetically Regulating SIRT2.
      Title: PHD Finger Protein 19 Promotes Cardiac Hypertrophy via Epigenetically Regulating SIRT2.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables methylated 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 epigenetic regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of gene expression, epigenetic IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of gene expression, epigenetic ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in stem cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of ESC/E(Z) complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    PHD finger protein 19

    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_001106570.1 → NP_001100040.1  PHD finger protein 19

      See identical proteins and their annotated locations for NP_001100040.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474001
      UniProtKB/TrEMBL
      A6JUD9, F1M1Y4
      Related
      ENSRNOP00000025528.5, ENSRNOT00000025528.8
      Conserved Domains (4) summary
      cd15581
      Location:195 → 246
      PHD2_PHF19; PHD finger 2 found in PHD finger protein 19 (PHF19)
      pfam14061
      Location:529 → 576
      Mtf2_C; Polycomb-like MTF2 factor 2
      cd20451
      Location:37 → 93
      Tudor_PHF19; Tudor domain found in PHD finger protein1 (PHF19) and similar proteins
      cl22851
      Location:96 → 148
      PHD_SF; PHD finger superfamily

    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_086021.1 Reference GRCr8

      Range
      38572766..38604950 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006233971.4 → XP_006234033.1  PHD finger protein 19 isoform X1

      See identical proteins and their annotated locations for XP_006234033.1

      UniProtKB/TrEMBL
      A6JUD9, F1M1Y4
      Conserved Domains (4) summary
      cd15581
      Location:195 → 246
      PHD2_PHF19; PHD finger 2 found in PHD finger protein 19 (PHF19)
      pfam14061
      Location:529 → 576
      Mtf2_C; Polycomb-like MTF2 factor 2
      cd20451
      Location:37 → 93
      Tudor_PHF19; Tudor domain found in PHD finger protein1 (PHF19) and similar proteins
      cl22851
      Location:96 → 148
      PHD_SF; PHD finger superfamily

    2. XM_063283522.1 → XP_063139592.1  PHD finger protein 19 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
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