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

Gene ID: 29861, updated on 2-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 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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