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    Dpf1 double PHD fingers 1 [ Mus musculus (house mouse) ]

    Gene ID: 29861, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Dpf1provided by MGI
    Official Full Name
    double PHD fingers 1provided by MGI
    Primary source
    MGI:MGI:1352748
    See related
    Ensembl:ENSMUSG00000030584 AllianceGenome:MGI:1352748
    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
    Neud4
    Summary
    Predicted to enable sequence-specific double-stranded DNA binding activity. Involved in nervous system development. Part of nBAF complex. Is expressed in several structures, including eye; genitourinary system; limb; nervous system; and submandibular gland. Orthologous to human DPF1 (double PHD fingers 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in CNS E18 (RPKM 15.1), CNS E14 (RPKM 15.0) and 8 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Dpf1 in Genome Data Viewer
    Location:
    7 B1; 7 16.94 cM
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (29003366..29017017)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (29303952..29317592)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 45977 Neighboring gene protein phosphatase 1, regulatory inhibitor subunit 14A Neighboring gene STARR-seq mESC enhancer starr_18467 Neighboring gene signal-induced proliferation-associated 1 like 3 Neighboring gene STARR-seq mESC enhancer starr_18469 Neighboring gene STARR-seq mESC enhancer starr_18470 Neighboring gene STARR-seq mESC enhancer starr_18474 Neighboring gene STARR-seq mESC enhancer starr_18476 Neighboring gene RIKEN cDNA 4932431P20 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:30303585-30303694 Neighboring gene predicted gene, 38982

    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. Structure and expression of two members of the d4 gene family in mouse. Mertsalov IB, et al. Mamm Genome, 2000 Jan. PMID 10602997
    2. Expression of Islet1 marks the sensory and neuronal lineages in the mammalian inner ear. Radde-Gallwitz K, et al. J Comp Neurol, 2004 Sep 27. PMID 15329890, Free PMC Article
    3. Gene expression in cortical interneuron precursors is prescient of their mature function. Batista-Brito R, et al. Cereb Cortex, 2008 Oct. PMID 18250082, Free PMC Article
    4. Regulation of muscle development by DPF3, a novel histone acetylation and methylation reader of the BAF chromatin remodeling complex. Lange M, et al. Genes Dev, 2008 Sep 1. PMID 18765789, Free PMC Article
    5. Eda-activated RelB recruits an SWI/SNF (BAF) chromatin-remodeling complex and initiates gene transcription in skin appendage formation. Sima J, et al. Proc Natl Acad Sci U S A, 2018 Aug 7. PMID 30037996, Free PMC Article

    See all (43) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (1) 
    • Endonuclease-mediated (1) 
    • Targeted (3) 

    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 sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in chromatin remodeling NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nervous system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nervous system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 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
    located_in chromatin NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of nBAF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein neuro-d4
    Names
    BAF45B
    BRG1-associated factor 45B
    D4, zinc and double PHD fingers family 1
    neuro-d4
    neuronal d4 domain family member

    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_001368371.2 → NP_001355300.1  zinc finger protein neuro-d4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC166079
      Consensus CDS
      CCDS90198.1
      UniProtKB/Swiss-Prot
      Q9QX65, Q9QX66, Q9QYA4
      UniProtKB/TrEMBL
      D3YYG6
      Related
      ENSMUSP00000070539.6, ENSMUST00000065181.12

    2. NM_001403205.1 → NP_001390134.1  zinc finger protein neuro-d4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC166079
      UniProtKB/TrEMBL
      D3YY44
      Related
      ENSMUSP00000103866.2, ENSMUST00000108231.8

    3. NM_001403206.1 → NP_001390135.1  zinc finger protein neuro-d4 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC166079
      Related
      ENSMUSP00000103865.2, ENSMUST00000108230.8

    4. NM_001403207.1 → NP_001390136.1  zinc finger protein neuro-d4 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC166079

    5. NM_001403208.1 → NP_001390137.1  zinc finger protein neuro-d4 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC166079

    6. NM_001403209.1 → NP_001390138.1  zinc finger protein neuro-d4 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC166079

    7. NM_001403210.1 → NP_001390139.1  zinc finger protein neuro-d4 isoform 8

      Status: VALIDATED

      Source sequence(s)
      AC166079

    8. NM_001403211.1 → NP_001390140.1  zinc finger protein neuro-d4 isoform 9

      Status: VALIDATED

      Source sequence(s)
      AC166079

    9. NM_001403212.1 → NP_001390141.1  zinc finger protein neuro-d4 isoform 10

      Status: VALIDATED

      Source sequence(s)
      AC166079

    10. NM_001403214.1 → NP_001390143.1  zinc finger protein neuro-d4 isoform 11

      Status: VALIDATED

      Source sequence(s)
      AC166079

    11. NM_001403215.1 → NP_001390144.1  zinc finger protein neuro-d4 isoform 12

      Status: VALIDATED

      Source sequence(s)
      AC166079

    12. NM_001403216.1 → NP_001390145.1  zinc finger protein neuro-d4 isoform 13

      Status: VALIDATED

      Source sequence(s)
      AC166079

    13. NM_001403217.1 → NP_001390146.1  zinc finger protein neuro-d4 isoform 14

      Status: VALIDATED

      Source sequence(s)
      AC166079

    14. NM_001403218.1 → NP_001390147.1  zinc finger protein neuro-d4 isoform 15

      Status: VALIDATED

      Source sequence(s)
      AC166079

    15. NM_001403219.1 → NP_001390148.1  zinc finger protein neuro-d4 isoform 16

      Status: VALIDATED

      Source sequence(s)
      AC166079

    16. NM_001403220.1 → NP_001390149.1  zinc finger protein neuro-d4 isoform 16

      Status: VALIDATED

      Source sequence(s)
      AC166079

    17. NM_013874.3 → NP_038902.1  zinc finger protein neuro-d4 isoform 1

      See identical proteins and their annotated locations for NP_038902.1

      Status: VALIDATED

      Source sequence(s)
      AC166079
      Consensus CDS
      CCDS21071.1
      UniProtKB/TrEMBL
      D3YYG6, Q6GTK4
      Related
      ENSMUSP00000054385.7, ENSMUST00000049977.13
      Conserved Domains (4) summary
      COG5189
      Location:186 → 220
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:328 → 373
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:270 → 327
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:13 → 84
      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_000073.7 Reference GRCm39 C57BL/6J

      Range
      29003366..29017017
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030242655.2 → XP_030098515.1  zinc finger protein neuro-d4 isoform X4

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:225 → 259
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:350 → 405
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:292 → 349
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:52 → 123
      Requiem_N; N-terminal domain of DPF2/REQ

    2. XM_036153156.1 → XP_036009049.1  zinc finger protein neuro-d4 isoform X8

      Conserved Domains (4) summary
      COG5189
      Location:195 → 229
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:337 → 392
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:279 → 336
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:52 → 118
      Requiem_N; N-terminal domain of DPF2/REQ

    3. XM_030242657.2 → XP_030098517.1  zinc finger protein neuro-d4 isoform X7

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:212 → 246
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:337 → 392
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:279 → 336
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:39 → 110
      Requiem_N; N-terminal domain of DPF2/REQ

    4. XM_036153157.1 → XP_036009050.1  zinc finger protein neuro-d4 isoform X12

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:182 → 216
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:324 → 379
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:266 → 323
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:39 → 105
      Requiem_N; N-terminal domain of DPF2/REQ

    5. XM_036153160.1 → XP_036009053.1  zinc finger protein neuro-d4 isoform X18

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:156 → 190
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:298 → 353
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:240 → 297
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:13 → 79
      Requiem_N; N-terminal domain of DPF2/REQ

    6. XM_030242653.2 → XP_030098513.2  zinc finger protein neuro-d4 isoform X9

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:186 → 220
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:328 → 383
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:270 → 327
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:13 → 79
      Requiem_N; N-terminal domain of DPF2/REQ

    7. XM_036153159.1 → XP_036009052.1  zinc finger protein neuro-d4 isoform X16

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:186 → 220
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:311 → 366
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:253 → 310
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:13 → 79
      Requiem_N; N-terminal domain of DPF2/REQ

    8. XM_036153158.1 → XP_036009051.1  zinc finger protein neuro-d4 isoform X14

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:186 → 220
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:328 → 373
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:270 → 327
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:13 → 79
      Requiem_N; N-terminal domain of DPF2/REQ

    9. XM_006540039.4 → XP_006540102.1  zinc finger protein neuro-d4 isoform X13

      UniProtKB/TrEMBL
      D3YYG6
      Conserved Domains (4) summary
      COG5189
      Location:178 → 212
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      cd15530
      Location:320 → 375
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15690
      Location:262 → 319
      PHD1_DPF1; PHD finger 1 found in D4, zinc and double PHD fingers family 1 (DPF1)
      pfam14051
      Location:5 → 76
      Requiem_N; N-terminal domain of DPF2/REQ
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9QX66.2 GenPept UniProtKB/Swiss-Prot:Q9QX66

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