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    Phf23 PHD finger protein 23 [ Mus musculus (house mouse) ]

    Gene ID: 78246, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Phf23provided by MGI
    Official Full Name
    PHD finger protein 23provided by MGI
    Primary source
    MGI:MGI:1925496
    See related
    Ensembl:ENSMUSG00000018572 AllianceGenome:MGI:1925496
    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
    JUNE-1
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in negative regulation of autophagosome assembly; negative regulation of autophagosome maturation; and positive regulation of protein ubiquitination. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in central nervous system; early conceptus; genitourinary system; and limb. Orthologous to human PHF23 (PHD finger protein 23). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 16.3), limb E14.5 (RPKM 10.2) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Phf23 in Genome Data Viewer
    Location:
    11 B3; 11 42.95 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (69886592..69890837)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (69995766..70000011)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene elongator acetyltransferase complex subunit 5 Neighboring gene CTD nuclear envelope phosphatase 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:69804503-69804686 Neighboring gene STARR-positive B cell enhancer ABC_E2997 Neighboring gene gamma-aminobutyric acid receptor associated protein Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:69808904-69809245 Neighboring gene dishevelled segment polarity protein 2 Neighboring gene acyl-Coenzyme A dehydrogenase, very long chain Neighboring gene microRNA 324

    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
    • 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. An Epigenetic Mechanism Underlying Chromosome 17p Deletion-Driven Tumorigenesis. Chen M, et al. Cancer Discov, 2021 Jan. PMID 32978226, Free PMC Article
    2. NUP98-PHF23 is a chromatin-modifying oncoprotein that causes a wide array of leukemias sensitive to inhibition of PHD histone reader function. Gough SM, et al. Cancer Discov, 2014 May. PMID 24535671, Free PMC Article
    3. The sperm-associated antigen 6 interactome and its role in spermatogenesis. Liu Y, et al. Reproduction, 2019 Aug. PMID 31146259, Free PMC Article
    4. Cracking the egg: molecular dynamics and evolutionary aspects of the transition from the fully grown oocyte to embryo. Evsikov AV, et al. Genes Dev, 2006 Oct 1. PMID 17015433, Free PMC Article
    5. Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst. Guo G, et al. Dev Cell, 2010 Apr 20. PMID 20412781

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data show that NP23 and NJL belong to a subset of chromatin-modifying fusion oncoproteins causing leukemia.
      Title: NUP98-PHF23 is a chromatin-modifying oncoprotein that causes a wide array of leukemias sensitive to inhibition of PHD histone reader function.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • 2410141M05Rik

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of autophagosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of autophagosome maturation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of autophagosome maturation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of protein ubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm 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 23
    Names
    PHD zinc finger containing protein JUNE1
    novel PHD-finger protein JUNE1

    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_001291125.1 → NP_001278054.1  PHD finger protein 23 isoform b

      See identical proteins and their annotated locations for NP_001278054.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (b) is shorter, compared to isoform a.
      Source sequence(s)
      AK031159, AL596185, AY099327, BY632579, CA750740
      Consensus CDS
      CCDS70223.1
      UniProtKB/Swiss-Prot
      Q8BSN5
      Related
      ENSMUSP00000099064.3, ENSMUST00000101526.9
      Conserved Domains (1) summary
      cd15631
      Location:272 → 315
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    2. NM_001291126.1 → NP_001278055.1  PHD finger protein 23 isoform c

      See identical proteins and their annotated locations for NP_001278055.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in its 5' UTR and uses a downstream start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a. Both variants 3 and 4 encode the same isoform.
      Source sequence(s)
      AK029376, BY262829, BY632579
      Consensus CDS
      CCDS78976.1
      UniProtKB/Swiss-Prot
      Q8BSN5
      Related
      ENSMUSP00000121780.2, ENSMUST00000153684.8
      Conserved Domains (1) summary
      cd15631
      Location:209 → 252
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    3. NM_001291127.1 → NP_001278056.1  PHD finger protein 23 isoform c

      See identical proteins and their annotated locations for NP_001278056.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in its 5' UTR and uses a downstream start codon, compared to variant 1. The encoded isoform (c) has a shorter N-terminus, compared to isoform a. Both variants 3 and 4 encode the same isoform.
      Source sequence(s)
      AK029376, AL596185, BM947867, BY632579
      Consensus CDS
      CCDS78976.1
      UniProtKB/Swiss-Prot
      Q8BSN5
      Related
      ENSMUSP00000120665.2, ENSMUST00000135814.2
      Conserved Domains (1) summary
      cd15631
      Location:209 → 252
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    4. NM_030064.4 → NP_084340.2  PHD finger protein 23 isoform a

      See identical proteins and their annotated locations for NP_084340.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AK031159, AL596185, AY099326, BY632579, CA750740
      Consensus CDS
      CCDS24929.1
      UniProtKB/Swiss-Prot
      Q3TCH1, Q8BSN5, Q8BT31, Q8CDY2, Q8CIA4, Q8CIU8, Q8CIU9, Q9CWC8
      Related
      ENSMUSP00000018716.4, ENSMUST00000018716.10
      Conserved Domains (1) summary
      cd15631
      Location:339 → 382
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      69886592..69890837
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006534501.2 → XP_006534564.1  PHD finger protein 23 isoform X1

      See identical proteins and their annotated locations for XP_006534564.1

      Conserved Domains (1) summary
      cd15631
      Location:369 → 412
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    2. XM_006534502.4 → XP_006534565.3  PHD finger protein 23 isoform X2

      Conserved Domains (1) summary
      cd15631
      Location:302 → 345
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    3. XM_030246428.2 → XP_030102288.1  PHD finger protein 23 isoform X3

      Conserved Domains (1) summary
      cd15631
      Location:209 → 252
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    4. XM_036157091.1 → XP_036012984.1  PHD finger protein 23 isoform X3

      Conserved Domains (1) summary
      cd15631
      Location:209 → 252
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    5. XM_030246427.2 → XP_030102287.1  PHD finger protein 23 isoform X3

      Conserved Domains (1) summary
      cd15631
      Location:209 → 252
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)

    6. XM_030246429.1 → XP_030102289.1  PHD finger protein 23 isoform X3

      Conserved Domains (1) summary
      cd15631
      Location:209 → 252
      PHD_PHF23; PHD finger found in PHD finger protein 23 (PHF23)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BSN5.2 GenPept UniProtKB/Swiss-Prot:Q8BSN5

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