U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Dpf3 double PHD fingers 3 [ Mus musculus (house mouse) ]

Gene ID: 70127, updated on 5-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
Dpf3provided by MGI
Official Full Name
double PHD fingers 3provided by MGI
Primary source
MGI:MGI:1917377
See related
Ensembl:ENSMUSG00000021221 AllianceGenome:MGI:1917377
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
CERD4; BAF45C; cer-d4; Gm18872; 2810403B03Rik; 6530402L11Rik
Summary
Predicted to enable histone binding activity and transcription coregulator activity. Involved in nervous system development. Part of nBAF complex. Is expressed in several structures, including central nervous system; gonad; heart; retina; and urinary system. Orthologous to human DPF3 (double PHD fingers 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis adult (RPKM 4.7), cerebellum adult (RPKM 3.8) and 24 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Dpf3 in Genome Data Viewer
Location:
12 D1; 12 38.64 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (83260525..83534510, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (83213751..83487736, complement)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene regulator of G-protein signaling 6 Neighboring gene predicted gene, 51988 Neighboring gene predicted gene, 53731 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:84716828-84716981 Neighboring gene STARR-positive B cell enhancer ABC_E3060 Neighboring gene STARR-positive B cell enhancer ABC_E9860 Neighboring gene STARR-seq mESC enhancer starr_32707 Neighboring gene STARR-seq mESC enhancer starr_32708 Neighboring gene STARR-seq mESC enhancer starr_32712 Neighboring gene STARR-positive B cell enhancer ABC_E1444 Neighboring gene DDB1 and CUL4 associated factor 4 Neighboring gene zinc finger, FYVE domain containing 1 Neighboring gene H2A histone family, member Z pseudogene

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. CCR7 Chemokine Receptor-Inducible lnc-Dpf3 Restrains Dendritic Cell Migration by Inhibiting HIF-1α-Mediated Glycolysis. Liu J, et al. Immunity, 2019 Mar 19. PMID 30824325
  2. EBF2 transcriptionally regulates brown adipogenesis via the histone reader DPF3 and the BAF chromatin remodeling complex. Shapira SN, et al. Genes Dev, 2017 Apr 1. PMID 28428261, Free PMC Article
  3. Cerd4, third member of the d4 gene family: expression and organization of genomic locus. Ninkina NN, et al. Mamm Genome, 2001 Nov. PMID 11845289
  4. The d4 gene family in the human genome. Chestkov AV, et al. Genomics, 1996 Aug 15. PMID 8812431
  5. HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription. Zhu X, et al. Nucleic Acids Res, 2020 Jul 9. PMID 32459350, Free PMC Article

See all (45) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription.
    Title: HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription.
  2. Lnc-Dpf3 directly bound to HIF-1alpha.
    Title: CCR7 Chemokine Receptor-Inducible lnc-Dpf3 Restrains Dendritic Cell Migration by Inhibiting HIF-1α-Mediated Glycolysis.
  3. DPF3 adds a further layer of complexity to the BAF complex by representing a tissue-specific anchor between histone acetylations as well as methylations and chromatin remodeling.
    Title: Regulation of muscle development by DPF3, a novel histone acetylation and methylation reader of the BAF chromatin remodeling complex.
Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 
  • Endonuclease-mediated (6) 

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in muscle cell differentiation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within muscle organ development IEA
Inferred from Electronic Annotation
more info
  
involved_in nervous system development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of cell differentiation NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of double-strand break repair NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in positive regulation of myoblast differentiation 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 brahma complex NAS
Non-traceable Author Statement
more info
 PubMed 
part_of chromatin NAS
Non-traceable Author Statement
more info
 PubMed 
part_of nBAF complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of nBAF complex NAS
Non-traceable Author Statement
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
zinc finger protein DPF3
Names
BRG1-associated factor 45C
D4 zinc and double PHD finger family 3
cerebellum D4
zinc finger protein cer-d4

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001267625.1 → NP_001254554.1  zinc finger protein DPF3 isoform 1

    See identical proteins and their annotated locations for NP_001254554.1

    Status: VALIDATED

    Source sequence(s)
    AK012970, AK039011
    Consensus CDS
    CCDS59574.1
    UniProtKB/Swiss-Prot
    P58269, Q80W78, Q8CAD8
    UniProtKB/TrEMBL
    F7CPB1
    Related
    ENSMUSP00000136280.2, ENSMUST00000178756.8
    Conserved Domains (4) summary
    COG5189
    Location:195 → 222
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:318 → 363
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15692
    Location:261 → 317
    PHD1_DPF3; PHD finger 1 found in D4, zinc and double PHD fingers family 3 (DPF3)
    pfam14051
    Location:13 → 84
    Requiem_N; N-terminal domain of DPF2/REQ

  2. NM_001267626.2 → NP_001254555.1  zinc finger protein DPF3 isoform 2

    See identical proteins and their annotated locations for NP_001254555.1

    Status: VALIDATED

    Source sequence(s)
    AC139382, AC205767, CT025545
    UniProtKB/TrEMBL
    B5TZD5, F7CL41
    Related
    ENSMUSP00000122004.2, ENSMUST00000144237.8
    Conserved Domains (2) summary
    pfam14051
    Location:13 → 84
    Requiem_N; N-terminal domain of DPF2/REQ
    cl22851
    Location:261 → 292
    PHD_SF; PHD finger superfamily

  3. NM_058212.3 → NP_478119.1  zinc finger protein DPF3 isoform 3

    See identical proteins and their annotated locations for NP_478119.1

    Status: VALIDATED

    Source sequence(s)
    AC139382, AC205767, CT025545
    Consensus CDS
    CCDS56846.1
    UniProtKB/TrEMBL
    F6T820
    Related
    ENSMUSP00000137477.2, ENSMUST00000177959.8
    Conserved Domains (2) summary
    pfam14051
    Location:13 → 84
    Requiem_N; N-terminal domain of DPF2/REQ
    cl22851
    Location:260 → 291
    PHD_SF; PHD finger superfamily

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_000078.7 Reference GRCm39 C57BL/6J

    Range
    83260525..83534510 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NG_018261.2: Suppressed sequence

    Description
    NG_018261.2: This RefSeq was removed because it is now thought that this gene does encode a protein.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P58269.2 GenPept UniProtKB/Swiss-Prot:P58269

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous