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Dpf2 double PHD fingers 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 361711, updated on 5-Mar-2024

Summary

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Official Symbol
Dpf2provided by RGD
Official Full Name
double PHD fingers 2provided by RGD
Primary source
RGD:1311699
See related
AllianceGenome:RGD:1311699
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable H3K9me3 modified histone binding activity; lysine-acetylated histone binding activity; and transcription coregulator activity. Predicted to be involved in negative regulation of myeloid progenitor cell differentiation; nervous system development; and regulation of transcription, DNA-templated. Predicted to be located in several cellular components, including centrosome; chromatin; and nucleoplasm. Predicted to be part of nBAF complex. Orthologous to human DPF2 (double PHD fingers 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 180.1), Lung (RPKM 152.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
1q43
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (212612986..212628376, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (203183674..203199037, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (221253764..221269043, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 25, member 45 Neighboring gene U2 spliceosomal RNA Neighboring gene tigger transposable element derived 3 Neighboring gene CDC42 effector protein 2 Neighboring gene 40S ribosomal protein S27-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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

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Related articles in PubMed

  1. Mutations in the BAF-Complex Subunit DPF2 Are Associated with Coffin-Siris Syndrome. Vasileiou G, et al. Am J Hum Genet, 2018 Mar 1. PMID 29429572, Free PMC Article
  2. Expression and chromosomal localization of the Requiem gene. Gabig TG, et al. Mamm Genome, 1998 Aug. PMID 9680388
  3. The spectrum of SWI/SNF mutations, ubiquitous in human cancers. Shain AH, et al. PLoS One, 2013. PMID 23355908, Free PMC Article
  4. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Hargreaves DC, et al. Cell Res, 2011 Mar. PMID 21358755, Free PMC Article
  5. Heterogeneous nuclear ribonucleoprotein C1/C2, MeCP1, and SWI/SNF form a chromatin remodeling complex at the beta-globin locus control region. Mahajan MC, et al. Proc Natl Acad Sci U S A, 2005 Oct 18. PMID 16217013, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables H3K9me3 modified histone binding ISO
Inferred from Sequence Orthology
more info
  
enables lysine-acetylated histone binding ISO
Inferred from Sequence Orthology
more info
  
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 negative regulation of myeloid progenitor cell differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
part_of chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
part_of nBAF complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger protein ubi-d4
Names
D4, zinc and double PHD fingers family 2

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_001108516.1 → NP_001101986.1  zinc finger protein ubi-d4

    See identical proteins and their annotated locations for NP_001101986.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473953
    UniProtKB/TrEMBL
    A6HZB0, B2RYI3
    Conserved Domains (4) summary
    COG5189
    Location:201 → 233
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:329 → 374
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15691
    Location:272 → 327
    PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
    pfam14051
    Location:13 → 75
    Requiem_N; N-terminal domain of DPF2/REQ

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_086019.1 Reference GRCr8

    Range
    212612986..212628376 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006230850.4 → XP_006230912.1  zinc finger protein ubi-d4 isoform X1

    UniProtKB/TrEMBL
    B2RYI3
    Conserved Domains (4) summary
    COG5189
    Location:201 → 247
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:343 → 388
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15691
    Location:286 → 341
    PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
    pfam14051
    Location:13 → 75
    Requiem_N; N-terminal domain of DPF2/REQ

  2. XM_039083942.2 → XP_038939870.1  zinc finger protein ubi-d4 isoform X2

    UniProtKB/TrEMBL
    B2RYI3
    Conserved Domains (4) summary
    COG5189
    Location:181 → 227
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    cd15530
    Location:323 → 368
    PHD2_d4; PHD finger 2 found in d4 gene family proteins
    cd15691
    Location:266 → 321
    PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
    pfam14051
    Location:1 → 55
    Requiem_N; N-terminal domain of DPF2/REQ
Nucleotide Protein Strain
Heading Accession and Version

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