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    Dpf2 double PHD fingers 2 [ Mus musculus (house mouse) ]

    Gene ID: 19708, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Dpf2provided by MGI
    Official Full Name
    double PHD fingers 2provided by MGI
    Primary source
    MGI:MGI:109529
    See related
    Ensembl:ENSMUSG00000024826 AllianceGenome:MGI:109529
    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
    Req; BAF45D; ubi-d4; 2210010M07Rik
    Summary
    Predicted to enable H3K9me3 modified histone binding activity and lysine-acetylated histone binding activity. Predicted to be involved in negative regulation of myeloid progenitor cell differentiation and nervous system development. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; integumental system; and sensory organ. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 7. Orthologous to human DPF2 (double PHD fingers 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 38.7), limb E14.5 (RPKM 38.1) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Dpf2 in Genome Data Viewer
    Location:
    19 A; 19 4.34 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (5946544..5962899, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (5896516..5912871, complement)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:5878208-5878317 Neighboring gene solute carrier family 25, member 45 Neighboring gene STARR-positive B cell enhancer ABC_E1522 Neighboring gene tigger transposable element derived 3 Neighboring gene STARR-positive B cell enhancer ABC_E7628 Neighboring gene predicted gene, 42067 Neighboring gene CDC42 effector protein 2 Neighboring gene STARR-positive B cell enhancer ABC_E8731

    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 BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation. Zhang W, et al. Cell Stem Cell, 2019 Jan 3. PMID 30609396, Free PMC Article
    2. Requiem: a novel zinc finger gene essential for apoptosis in myeloid cells. Gabig TG, et al. J Biol Chem, 1994 Nov 25. PMID 7961935
    3. Structure and expression of two members of the d4 gene family in mouse. Mertsalov IB, et al. Mamm Genome, 2000 Jan. PMID 10602997
    4. The SWI/SNF chromatin-remodeling subunit DPF2 facilitates NRF2-dependent antiinflammatory and antioxidant gene expression. Mas G, et al. J Clin Invest, 2023 Jul 3. PMID 37200093, Free PMC Article
    5. The d4 gene family in the human genome. Chestkov AV, et al. Genomics, 1996 Aug 15. PMID 8812431

    See all (53) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The SWI/SNF chromatin-remodeling subunit DPF2 facilitates NRF2-dependent antiinflammatory and antioxidant gene expression.
      Title: The SWI/SNF chromatin-remodeling subunit DPF2 facilitates NRF2-dependent antiinflammatory and antioxidant gene expression.
    2. Dpf2 Loss Affects ESC Self-Renewal and Leads to Increased Apoptosis and Cell-Cycle Defects.
      Title: The BAF and PRC2 Complex Subunits Dpf2 and Eed Antagonistically Converge on Tbx3 to Control ESC Differentiation.
    3. the role of SMARCA4 and the two SWI/SNF subunits SMARCD2/BAF60B and DPF2/BAF45D in leukaemia, was investigated.
      Title: SWI/SNF Subunits SMARCA4, SMARCD2 and DPF2 Collaborate in MLL-Rearranged Leukaemia Maintenance.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (4) 

    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 H3K9me3 modified histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables lysine-acetylated histone binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in chromatin remodeling NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in negative regulation of myeloid progenitor cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of myeloid progenitor cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of double-strand break repair NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in positive regulation of stem cell population maintenance NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of G0 to G1 transition NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of G1/S transition of mitotic cell cycle NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of mitotic metaphase/anaphase transition NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of nucleotide-excision repair NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of SWI/SNF complex NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    part_of SWI/SNF superfamily-type complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromatin NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of nBAF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein ubi-d4
    Names
    BRG1-associated factor 45D
    D4, zinc and double PHD fingers family 2
    apoptosis response zinc finger protein
    neuro-d4/requiem
    protein requiem

    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_001291078.1 → NP_001278007.1  zinc finger protein ubi-d4 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC142098, AK004812, BB839618, BY294588, CX207082
      Consensus CDS
      CCDS70920.1
      UniProtKB/TrEMBL
      D3Z5N6, Q3UKV4
      Related
      ENSMUSP00000113465.2, ENSMUST00000118623.2
      Conserved Domains (3) summary
      cd15530
      Location:343 → 388
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15691
      Location:286 → 341
      PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
      pfam14051
      Location:13 → 79
      Requiem_N; N-terminal domain of DPF2/REQ

    2. NM_011262.5 → NP_035392.1  zinc finger protein ubi-d4 isoform 2

      See identical proteins and their annotated locations for NP_035392.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC142098, AK004812, BB839618, BY294588
      Consensus CDS
      CCDS37892.1
      UniProtKB/Swiss-Prot
      Q3UNP5, Q60663, Q61103, Q9QYA3
      UniProtKB/TrEMBL
      Q3UKV4
      Related
      ENSMUSP00000120125.2, ENSMUST00000136983.8
      Conserved Domains (3) summary
      cd15530
      Location:329 → 374
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15691
      Location:272 → 327
      PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
      pfam14051
      Location:13 → 79
      Requiem_N; N-terminal domain of DPF2/REQ

    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_000085.7 Reference GRCm39 C57BL/6J

      Range
      5946544..5962899 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q61103.1 GenPept UniProtKB/Swiss-Prot:Q61103

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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