U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Dpf3 double PHD fingers 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 299186, updated on 26-Oct-2024

Summary

Go to the top of the page Help
Official Symbol
Dpf3provided by RGD
Official Full Name
double PHD fingers 3provided by RGD
Primary source
RGD:1309052
See related
EnsemblRapid:ENSRNOG00000008086 AllianceGenome:RGD:1309052
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable histone binding activity and transcription coregulator activity. Predicted to be involved in negative regulation of transcription, DNA-templated; nervous system development; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of nBAF complex. Orthologous to human DPF3 (double PHD fingers 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Muscle (RPKM 30.7), Brain (RPKM 29.3) and 9 other tissues See more
Orthologs
human mouse 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:
6q31
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (108577792..108856724, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (102841403..103125558, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (106660569..106971310, complement)

Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene regulator of G-protein signaling 6 Neighboring gene uncharacterized LOC120093216 Neighboring gene uncharacterized LOC120093217 Neighboring gene uncharacterized LOC134479225 Neighboring gene uncharacterized LOC134479227 Neighboring gene uncharacterized LOC134479226 Neighboring gene DDB1 and CUL4 associated factor 4 Neighboring gene zinc finger FYVE-type containing 1

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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. The spectrum of SWI/SNF mutations, ubiquitous in human cancers. Shain AH, et al. PLoS One, 2013. PMID 23355908, Free PMC Article
  2. Phosphorylation of the chromatin remodeling factor DPF3a induces cardiac hypertrophy through releasing HEY repressors from DNA. Cui H, et al. Nucleic Acids Res, 2016 Apr 7. PMID 26582913, Free PMC Article
  3. Readout of epigenetic modifications. Patel DJ, et al. Annu Rev Biochem, 2013. PMID 23642229, Free PMC Article
  4. Kinetic analysis of npBAF to nBAF switching reveals exchange of SS18 with CREST and integration with neural developmental pathways. Staahl BT, et al. J Neurosci, 2013 Jun 19. PMID 23785148, Free PMC Article
  5. An essential switch in subunit composition of a chromatin remodeling complex during neural development. Lessard J, et al. Neuron, 2007 Jul 19. PMID 17640523, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Activation of DPF3a upon hypertrophic stimuli in cardiac hypertrophy switches cardiac fetal gene expression from being silenced by HEY to being activated by BRG1.
    Title: Phosphorylation of the chromatin remodeling factor DPF3a induces cardiac hypertrophy through releasing HEY repressors from DNA.
Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in nervous system development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of nBAF complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
zinc finger protein DPF3
Names
D4, zinc and double PHD fingers, family 3
RGD1563913
zinc finger protein DPF3-like

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_001191818.1 → NP_001178747.1  zinc finger protein DPF3 isoform 1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000006
    UniProtKB/TrEMBL
    D3Z9E7
    Conserved Domains (3) summary
    COG5189
    Location:195 → 222
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    pfam14051
    Location:13 → 79
    Requiem_N; N-terminal domain of DPF2/REQ
    cl22851
    Location:261 → 292
    PHD_SF; PHD finger superfamily

  2. NM_001434286.1 → NP_001421215.1  zinc finger protein DPF3 isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006

  3. NM_001434287.1 → NP_001421216.1  zinc finger protein DPF3 isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000006

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086024.1 Reference GRCr8

    Range
    108577792..108856724 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008764749.4 → XP_008762971.1  zinc finger protein DPF3 isoform X2

    See identical proteins and their annotated locations for XP_008762971.1

    UniProtKB/TrEMBL
    A0A8I6AL27
    Related
    ENSRNOP00000093966.1, ENSRNOT00000097275.2
    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 → 79
    Requiem_N; N-terminal domain of DPF2/REQ

  2. XM_008764747.3 → XP_008762969.1  zinc finger protein DPF3 isoform X1

    See identical proteins and their annotated locations for XP_008762969.1

    Conserved Domains (3) summary
    cd15530
    Location:341 → 386
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15692
    Location:284 → 340
    PHD1_DPF3; PHD finger 1 found in D4, zinc and double PHD fingers family 3 (DPF3)
    pfam14051
    Location:36 → 107
    Requiem_N; N-terminal domain of DPF2/REQ

  3. XM_039112021.2 → XP_038967949.1  zinc finger protein DPF3 isoform X4

    Conserved Domains (4) summary
    COG5189
    Location:139 → 166
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:262 → 307
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15692
    Location:205 → 261
    PHD1_DPF3; PHD finger 1 found in D4, zinc and double PHD fingers family 3 (DPF3)
    pfam14051
    Location:1 → 23
    Requiem_N; N-terminal domain of DPF2/REQ

  4. XM_008764751.4 → XP_008762973.1  zinc finger protein DPF3 isoform X4

    See identical proteins and their annotated locations for XP_008762973.1

    Conserved Domains (4) summary
    COG5189
    Location:139 → 166
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:262 → 307
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15692
    Location:205 → 261
    PHD1_DPF3; PHD finger 1 found in D4, zinc and double PHD fingers family 3 (DPF3)
    pfam14051
    Location:1 → 23
    Requiem_N; N-terminal domain of DPF2/REQ

  5. XM_063261728.1 → XP_063117798.1  zinc finger protein DPF3 isoform X6

  6. XM_039112020.2 → XP_038967948.1  zinc finger protein DPF3 isoform X3

    Conserved Domains (3) summary
    COG5189
    Location:218 → 245
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    pfam14051
    Location:36 → 102
    Requiem_N; N-terminal domain of DPF2/REQ
    cl22851
    Location:284 → 315
    PHD_SF; PHD finger superfamily

  7. XM_039112022.2 → XP_038967950.1  zinc finger protein DPF3 isoform X5

    Related
    ENSRNOP00000099978.1, ENSRNOT00000153738.1
    Conserved Domains (3) summary
    COG5189
    Location:218 → 245
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    pfam14051
    Location:36 → 102
    Requiem_N; N-terminal domain of DPF2/REQ
    cl22851
    Location:284 → 314
    PHD_SF; PHD finger superfamily

RNA

  1. XR_010052069.1 RNA Sequence

  2. XR_010052068.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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