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

Gene ID: 78246, updated on 2-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 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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