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    Phf20 PHD finger protein 20 [ Mus musculus (house mouse) ]

    Gene ID: 228829, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Phf20provided by MGI
    Official Full Name
    PHD finger protein 20provided by MGI
    Primary source
    MGI:MGI:2444148
    See related
    Ensembl:ENSMUSG00000038116 AllianceGenome:MGI:2444148
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    6820402O20Rik
    Summary
    Predicted to enable DNA binding activity and metal ion binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; nuclear membrane; and nucleoplasm. Predicted to be part of MLL1 complex and NSL complex. Is expressed in central nervous system; early conceptus; and genitourinary system. Orthologous to human PHF20 (PHD finger protein 20). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in cerebellum adult (RPKM 9.8), CNS E18 (RPKM 9.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Phf20 in Genome Data Viewer
    Location:
    2 H1; 2 77.38 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (156038567..156151873)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (156196647..156309953)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene nitrogen fixation gene 1 (S. cerevisiae) Neighboring gene reactive oxygen species modulator 1 Neighboring gene RNA binding motif protein 39 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:156005117-156005304 Neighboring gene STARR-positive B cell enhancer ABC_E817 Neighboring gene STARR-seq mESC enhancer starr_06156 Neighboring gene STARR-positive B cell enhancer ABC_E9537 Neighboring gene STARR-seq mESC enhancer starr_06157 Neighboring gene STARR-seq mESC enhancer starr_06159 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:156104477-156104678 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:156113998-156114107 Neighboring gene SCAN domain-containing 1 Neighboring gene cyclic nucleotide binding domain containing 2 Neighboring gene predicted gene 14251

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. PHF20 is crucial for epigenetic control of starvation-induced autophagy through enhancer activation. Park SW, et al. Nucleic Acids Res, 2022 Aug 12. PMID 35821310, Free PMC Article
    2. Yin Yang 1 is required for PHD finger protein 20-mediated myogenic differentiation in vitro and in vivo. Lee H, et al. Cell Death Differ, 2020 Dec. PMID 32555448, Free PMC Article
    3. PHF20 positively regulates osteoblast differentiation via increasing the expression and activation of Runx2 with enrichment of H3K4me3. Yang JW, et al. Sci Rep, 2017 Aug 14. PMID 28808306, Free PMC Article
    4. PHF20 is an effector protein of p53 double lysine methylation that stabilizes and activates p53. Cui G, et al. Nat Struct Mol Biol, 2012 Sep. PMID 22864287, Free PMC Article
    5. Loss of the methyl lysine effector protein PHF20 impacts the expression of genes regulated by the lysine acetyltransferase MOF. Badeaux AI, et al. J Biol Chem, 2012 Jan 2. PMID 22072714, Free PMC Article

    See all (37) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Yin Yang 1 is required for PHD finger protein 20-mediated myogenic differentiation in vitro and in vivo.
      Title: Yin Yang 1 is required for PHD finger protein 20-mediated myogenic differentiation in vitro and in vivo.
    2. PHF20 increased the enrichment of H3K4me3 on the promoter of Runx2 followed by increased Runx2 promoter activity.
      Title: PHF20 positively regulates osteoblast differentiation via increasing the expression and activation of Runx2 with enrichment of H3K4me3.
    3. PHF20 is not required for maintaining the global H4K16 acetylation levels or locus specific histone acetylation but instead works downstream in transcriptional regulation of MOF target genes
      Title: Loss of the methyl lysine effector protein PHF20 impacts the expression of genes regulated by the lysine acetyltransferase MOF.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Gene trapped (2) 
    • Targeted (2)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of MLL1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of MLL1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of MLL1 complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of NSL complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of NSL complex 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
    		  
    part_of histone acetyltransferase complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nuclear membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    PHD finger protein 20
    Names
    hepatocellular carcinoma-associated antigen 58 homolog

    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_172674.2 → NP_766262.2  PHD finger protein 20

      See identical proteins and their annotated locations for NP_766262.2

      Status: VALIDATED

      Source sequence(s)
      AK033017, AK035209, AK045309, BC086753, CJ176261
      Consensus CDS
      CCDS38297.1
      UniProtKB/Swiss-Prot
      Q8BLG0, Q8BMA2, Q8BYR4, Q921N1
      UniProtKB/TrEMBL
      Q6PAR7
      Related
      ENSMUSP00000043138.9, ENSMUST00000037401.10
      Conserved Domains (5) summary
      cd04508
      Location:90 → 135
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      cd15634
      Location:657 → 700
      PHD_PHF20; PHD finger found in PHD finger protein 20 (PHF20)
      pfam12618
      Location:176 → 259
      DUF3776; Protein of unknown function (DUF3776)
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22934
      Location:215 → 313
      DUF1699; Protein of unknown function (DUF1699)

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      156038567..156151873
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006499338.4 → XP_006499401.1  PHD finger protein 20 isoform X4

      UniProtKB/TrEMBL
      Q6PAR7
      Conserved Domains (2) summary
      cl17705
      Location:3 → 68
      MBT; mbt repeat
      cl22851
      Location:501 → 544
      PHD_SF; PHD finger superfamily

    2. XM_006499339.2 → XP_006499402.1  PHD finger protein 20 isoform X5

      Conserved Domains (1) summary
      cl22851
      Location:251 → 294
      PHD_SF; PHD finger superfamily

    3. XM_036161523.1 → XP_036017416.1  PHD finger protein 20 isoform X5

      Conserved Domains (1) summary
      cl22851
      Location:251 → 294
      PHD_SF; PHD finger superfamily

    4. XM_036161511.1 → XP_036017404.1  PHD finger protein 20 isoform X2

      UniProtKB/TrEMBL
      Q6PAR7
      Conserved Domains (2) summary
      pfam12618
      Location:40 → 114
      DUF3776; Protein of unknown function (DUF3776)
      cl22851
      Location:519 → 562
      PHD_SF; PHD finger superfamily

    5. XM_017317827.2 → XP_017173316.1  PHD finger protein 20 isoform X1

      UniProtKB/TrEMBL
      Q6PAR7
      Conserved Domains (4) summary
      cd15634
      Location:602 → 645
      PHD_PHF20; PHD finger found in PHD finger protein 20 (PHF20)
      pfam05793
      Location:74 → 259
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      pfam12618
      Location:123 → 197
      DUF3776; Protein of unknown function (DUF3776)
      cl17705
      Location:3 → 68
      MBT; mbt repeat

    6. XM_036161524.1 → XP_036017417.1  PHD finger protein 20 isoform X5

      Conserved Domains (1) summary
      cl22851
      Location:251 → 294
      PHD_SF; PHD finger superfamily

    7. XM_036161513.1 → XP_036017406.1  PHD finger protein 20 isoform X2

      UniProtKB/TrEMBL
      Q6PAR7
      Related
      ENSMUST00000152617.8
      Conserved Domains (2) summary
      pfam12618
      Location:40 → 114
      DUF3776; Protein of unknown function (DUF3776)
      cl22851
      Location:519 → 562
      PHD_SF; PHD finger superfamily

    8. XM_036161514.1 → XP_036017407.1  PHD finger protein 20 isoform X2

      UniProtKB/TrEMBL
      Q6PAR7
      Conserved Domains (2) summary
      pfam12618
      Location:40 → 114
      DUF3776; Protein of unknown function (DUF3776)
      cl22851
      Location:519 → 562
      PHD_SF; PHD finger superfamily

    9. XM_036161515.1 → XP_036017408.1  PHD finger protein 20 isoform X3

      UniProtKB/TrEMBL
      Q6PAR7
      Conserved Domains (2) summary
      pfam12618
      Location:39 → 113
      DUF3776; Protein of unknown function (DUF3776)
      cl22851
      Location:518 → 561
      PHD_SF; PHD finger superfamily
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BLG0.2 GenPept UniProtKB/Swiss-Prot:Q8BLG0

    Gene LinkOut

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