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Aliases for DPF1 Gene

Aliases for DPF1 Gene

  • Double PHD Fingers 1 2 3 5
  • D4, Zinc And Double PHD Fingers Family 1 2 3 4
  • BRG1-Associated Factor 45B 3 4
  • BAF45b 3 4
  • NEUD4 3 4
  • Zinc Finger Protein Neuro-D4 3
  • Neuro-D4 Homolog 3
  • Neuro-D4 3

External Ids for DPF1 Gene

Previous GeneCards Identifiers for DPF1 Gene

  • GC19M039093
  • GC19M043378
  • GC19M043394
  • GC19M038701
  • GC19M035150

Summaries for DPF1 Gene

GeneCards Summary for DPF1 Gene

DPF1 (Double PHD Fingers 1) is a Protein Coding gene. Among its related pathways are Gastric cancer. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is DPF2.

UniProtKB/Swiss-Prot for DPF1 Gene

  • May have an important role in developing neurons by participating in regulation of cell survival, possibly as a neurospecific transcription factor. Belongs to the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity).

Additional gene information for DPF1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for DPF1 Gene

Genomics for DPF1 Gene

GeneHancer (GH) Regulatory Elements for DPF1 Gene

Promoters and enhancers for DPF1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19I038223 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 562.4 +5.4 5428 1.1 HDGF PKNOX1 CLOCK ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B IRF4 DPF1 ZNF527 HKR1 ZFP30 ZNF793 HNRNPL ZNF571 ZNF781 ZNF607 ENSG00000267152
GH19I038229 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 550.8 +0.2 220 1.2 SIN3A ETS1 GLIS2 ZNF143 FOS ATF7 KLF13 SP3 YY2 NFYC DPF1 RN7SL663P
GH19I038228 Promoter/Enhancer 1.5 FANTOM5 Ensembl ENCODE 554.2 +1.1 1053 0.3 PKNOX1 KLF17 ZNF76 SIN3A ZNF335 ZNF366 ZNF398 ZEB2 ZNF843 ZNF148 DPF1 PPP1R14A ZNF573 RN7SL663P
GH19I038227 Enhancer 0.7 ENCODE 550.8 +1.6 1627 0.5 BCOR MXI1 ZMYM3 ZIC2 BCL11B ZFHX2 GLIS2 ZBTB48 ZNF143 KLF8 DPF1 LOC100631378 RN7SL663P
GH19I038647 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 12 -430.1 -430079 25.6 ZFP64 FEZF1 DMAP1 YY1 ZNF213 ZNF143 ZNF548 SP3 NFYC ZC3H11A ACTN4 HNRNPL ZFP30 ZNF607 ZNF781 ZNF573 SUPT5H ENSG00000267152 PAK4 RN7SL566P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around DPF1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the DPF1 gene promoter:

Genomic Locations for DPF1 Gene

Genomic Locations for DPF1 Gene
chr19:38,211,006-38,229,714
(GRCh38/hg38)
Size:
18,709 bases
Orientation:
Minus strand
chr19:38,701,646-38,720,354
(GRCh37/hg19)

Genomic View for DPF1 Gene

Genes around DPF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
DPF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for DPF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for DPF1 Gene

Proteins for DPF1 Gene

  • Protein details for DPF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92782-DPF1_HUMAN
    Recommended name:
    Zinc finger protein neuro-d4
    Protein Accession:
    Q92782
    Secondary Accessions:
    • B3KSY8
    • Q08AJ0

    Protein attributes for DPF1 Gene

    Size:
    380 amino acids
    Molecular mass:
    42502 Da
    Quaternary structure:
    • Component of neuron-specific chromatin remodeling complex (nBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, DPF1/BAF45B, DPF3/BAF45C, ACTL6B/BAF53B and actin.
    SequenceCaution:
    • Sequence=AAC50685.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAI25154.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=EAW56763.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for DPF1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for DPF1 Gene

Post-translational modifications for DPF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for DPF1 Gene

Domains & Families for DPF1 Gene

Gene Families for DPF1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Graphical View of Domain Structure for InterPro Entry

Q92782

UniProtKB/Swiss-Prot:

DPF1_HUMAN :
  • Belongs to the requiem/DPF family.
Family:
  • Belongs to the requiem/DPF family.
genes like me logo Genes that share domains with DPF1: view

Function for DPF1 Gene

Molecular function for DPF1 Gene

UniProtKB/Swiss-Prot Function:
May have an important role in developing neurons by participating in regulation of cell survival, possibly as a neurospecific transcription factor. Belongs to the neuron-specific chromatin remodeling complex (nBAF complex). During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth (By similarity).

Phenotypes From GWAS Catalog for DPF1 Gene

Gene Ontology (GO) - Molecular Function for DPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with DPF1: view
genes like me logo Genes that share phenotypes with DPF1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for DPF1 Gene

Localization for DPF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for DPF1 Gene

Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for DPF1 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Mitochondria (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for DPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0071565 nBAF complex ISS --
genes like me logo Genes that share ontologies with DPF1: view

Pathways & Interactions for DPF1 Gene

SuperPathway Contained pathways
1 Gastric cancer
genes like me logo Genes that share pathways with DPF1: view

Pathways by source for DPF1 Gene

1 KEGG pathway for DPF1 Gene

Gene Ontology (GO) - Biological Process for DPF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006915 apoptotic process TAS 8812431
GO:0007399 nervous system development ISS --
genes like me logo Genes that share ontologies with DPF1: view

No data available for SIGNOR curated interactions for DPF1 Gene

Drugs & Compounds for DPF1 Gene

No Compound Related Data Available

Transcripts for DPF1 Gene

Unigene Clusters for DPF1 Gene

D4, zinc and double PHD fingers family 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for DPF1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11
SP1: -
SP2: -
SP3: - -
SP4:

Relevant External Links for DPF1 Gene

GeneLoc Exon Structure for
DPF1
ECgene alternative splicing isoforms for
DPF1

Expression for DPF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for DPF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for DPF1 Gene

This gene is overexpressed in Brain - Cortex (x8.1), Brain - Frontal Cortex (BA9) (x6.3), Brain - Anterior cingulate cortex (BA24) (x6.0), Brain - Nucleus accumbens (basal ganglia) (x4.6), and Brain - Hippocampus (x4.4).

Protein differential expression in normal tissues from HIPED for DPF1 Gene

This gene is overexpressed in Fetal Brain (67.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for DPF1 Gene



Protein tissue co-expression partners for DPF1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of DPF1 Gene:

DPF1

SOURCE GeneReport for Unigene cluster for DPF1 Gene:

Hs.631576

Evidence on tissue expression from TISSUES for DPF1 Gene

  • Nervous system(4.6)
genes like me logo Genes that share expression patterns with DPF1: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for DPF1 Gene

Orthologs for DPF1 Gene

This gene was present in the common ancestor of animals.

Orthologs for DPF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia DPF1 33 34
  • 99.32 (n)
cow
(Bos Taurus)
Mammalia DPF1 33 34
  • 94.92 (n)
rat
(Rattus norvegicus)
Mammalia Dpf1 33
  • 92.76 (n)
dog
(Canis familiaris)
Mammalia DPF1 33 34
  • 92.59 (n)
mouse
(Mus musculus)
Mammalia Dpf1 33 16 34
  • 92.59 (n)
lizard
(Anolis carolinensis)
Reptilia DPF1 34
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia dpf1 33
  • 74.61 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.15372 33
zebrafish
(Danio rerio)
Actinopterygii dpf1 34
  • 80 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta d4 34
  • 30 (a)
ManyToMany
tth 34
  • 15 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea dpff-1 34
  • 32 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 37 (a)
OneToMany
Species where no ortholog for DPF1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for DPF1 Gene

ENSEMBL:
Gene Tree for DPF1 (if available)
TreeFam:
Gene Tree for DPF1 (if available)

Paralogs for DPF1 Gene

Paralogs for DPF1 Gene

genes like me logo Genes that share paralogs with DPF1: view

Variants for DPF1 Gene

Sequence variations from dbSNP and Humsavar for DPF1 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000060673 -- 38,223,813(-) C/T 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant
rs1000127529 -- 38,228,478(-) G/A genic_upstream_transcript_variant, intron_variant
rs1000158500 -- 38,210,532(-) C/T downstream_transcript_variant
rs1000431775 -- 38,223,490(-) C/G genic_upstream_transcript_variant, intron_variant
rs1000515808 -- 38,221,642(-) T/C genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for DPF1 Gene

Variant ID Type Subtype PubMed ID
nsv1071932 CNV deletion 25765185
nsv1072349 CNV deletion 25765185
nsv1136284 CNV deletion 24896259
nsv833821 CNV loss 17160897

Variation tolerance for DPF1 Gene

Residual Variation Intolerance Score: 16.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.50; 10.81% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for DPF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
DPF1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for DPF1 Gene

Disorders for DPF1 Gene

Additional Disease Information for DPF1

No disorders were found for DPF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for DPF1 Gene

Publications for DPF1 Gene

  1. The d4 gene family in the human genome. (PMID: 8812431) Chestkov AV … Buchman VL (Genomics 1996) 2 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. Agonist-specific Protein Interactomes of Glucocorticoid and Androgen Receptor as Revealed by Proximity Mapping. (PMID: 28611094) Lempiäinen JK … Palvimo JJ (Molecular & cellular proteomics : MCP 2017) 3 58
  5. Exome Sequencing Identified CCER2 as a Novel Candidate Gene for Moyamoya Disease. (PMID: 27717682) Mukawa M … Akagawa H (Journal of stroke and cerebrovascular diseases : the official journal of National Stroke Association 2017) 4 58

Products for DPF1 Gene

Sources for DPF1 Gene

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