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Phf12 PHD finger protein 12 [ Mus musculus (house mouse) ]

Gene ID: 268448, updated on 27-Nov-2024

Summary

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Official Symbol
Phf12provided by MGI
Official Full Name
PHD finger protein 12provided by MGI
Primary source
MGI:MGI:1924057
See related
Ensembl:ENSMUSG00000037791 AllianceGenome:MGI:1924057
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
PF1; mKIAA1523; F630045O13; 2410142K10Rik
Summary
Enables transcription corepressor binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of Sin3-type complex and transcription repressor complex. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; embryo mesenchyme; genitourinary system; and maxillary process. Orthologous to human PHF12 (PHD finger protein 12). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in thymus adult (RPKM 26.0), spleen adult (RPKM 20.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Phf12 in Genome Data Viewer
Location:
11 B5; 11 46.74 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (77873515..77921365)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (77982733..78030539)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene predicted gene 11190 Neighboring gene seizure related gene 6 Neighboring gene STARR-seq mESC enhancer starr_30082 Neighboring gene predicted gene, 53689 Neighboring gene predicted gene, 51908 Neighboring gene STARR-positive B cell enhancer ABC_E10693 Neighboring gene dehydrogenase/reductase 13, opposite strand Neighboring gene dehydrogenase/reductase 13 Neighboring gene flotillin 2

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. The Chromatin-Associated Phf12 Protein Maintains Nucleolar Integrity and Prevents Premature Cellular Senescence. Graveline R, et al. Mol Cell Biol, 2017 Mar 1. PMID 27956701, Free PMC Article
  2. Structural basis for molecular interactions involving MRG domains: implications in chromatin biology. Xie T, et al. Structure, 2012 Jan 11. PMID 22244764, Free PMC Article
  3. A novel mammalian complex containing Sin3B mitigates histone acetylation and RNA polymerase II progression within transcribed loci. Jelinic P, et al. Mol Cell Biol, 2011 Jan. PMID 21041482, Free PMC Article
  4. Pf1, a novel PHD zinc finger protein that links the TLE corepressor to the mSin3A-histone deacetylase complex. Yochum GS, et al. Mol Cell Biol, 2001 Jul. PMID 11390640, Free PMC Article
  5. Evidence Implicating CCNB1IP1, a RING Domain-Containing Protein Required for Meiotic Crossing Over in Mice, as an E3 SUMO Ligase. Strong ER, et al. Genes (Basel), 2010 Dec 2. PMID 21779533, Free PMC Article

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. These data reveal an unsuspected function for the Pf1-associated chromatin complex in the ribosomal biogenesis and senescence pathways.
    Title: The Chromatin-Associated Phf12 Protein Maintains Nucleolar Integrity and Prevents Premature Cellular Senescence.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

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 metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatidylinositol binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatidylinositol binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
 PubMed 
enables transcription corepressor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of DNA-templated transcription ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 PubMed 
Component Evidence Code Pubs
part_of Sin3-type complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Sin3-type complex ISO
Inferred from Sequence Orthology
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 PubMed 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of transcription repressor complex ISO
Inferred from Sequence Orthology
more info
  
part_of transcription repressor complex ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
PHD finger protein 12
Names
PHD factor 1
PHD zinc finger transcription factor

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_174852.3 → NP_777277.2  PHD finger protein 12

    See identical proteins and their annotated locations for NP_777277.2

    Status: VALIDATED

    Source sequence(s)
    AK053787, BC043080
    Consensus CDS
    CCDS48855.1
    UniProtKB/Swiss-Prot
    Q5SPL2, Q5SPL3, Q6ZPN8, Q80W50
    UniProtKB/TrEMBL
    Q3U2C9
    Related
    ENSMUSP00000044990.8, ENSMUST00000049167.14
    Conserved Domains (4) summary
    cd00060
    Location:812 → 867
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15533
    Location:58 → 102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273 → 318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203 → 241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

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
    77873515..77921365
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006533400.3 → XP_006533463.1  PHD finger protein 12 isoform X1

    Conserved Domains (5) summary
    PHA03247
    Location:507 → 721
    PHA03247; large tegument protein UL36; Provisional
    cd00060
    Location:764 → 819
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15533
    Location:58 → 102
    PHD1_PHF12; PHD finger 1 found in PHD finger protein 12 (PHF12)
    cd15534
    Location:273 → 318
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:203 → 241
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

  2. XM_030246034.1 → XP_030101894.1  PHD finger protein 12 isoform X3

    Conserved Domains (4) summary
    PHA03247
    Location:290 → 504
    PHA03247; large tegument protein UL36; Provisional
    cd00060
    Location:595 → 650
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:56 → 101
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:1 → 24
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

  3. XM_036156716.1 → XP_036012609.1  PHD finger protein 12 isoform X2

    Conserved Domains (4) summary
    PHA03247
    Location:417 → 631
    PHA03247; large tegument protein UL36; Provisional
    cd00060
    Location:722 → 777
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:183 → 228
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:113 → 151
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

  4. XM_017314564.3 → XP_017170053.1  PHD finger protein 12 isoform X2

    Conserved Domains (4) summary
    PHA03247
    Location:417 → 631
    PHA03247; large tegument protein UL36; Provisional
    cd00060
    Location:722 → 777
    FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...
    cd15534
    Location:183 → 228
    PHD2_PHF12_Rco1; PHD finger 2 found in PHD finger protein 12 (PHF12), yeast Rco1, and similar proteins
    pfam16737
    Location:113 → 151
    PHF12_MRG_bd; PHD finger protein 12 MRG binding domain

RNA

  1. XR_388469.3 RNA Sequence

  2. XR_003949453.2 RNA Sequence

  3. XR_004936972.1 RNA Sequence

  4. XR_004936973.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5SPL2.1 GenPept UniProtKB/Swiss-Prot:Q5SPL2

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