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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

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