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    dpf2 double PHD fingers 2 [ Danio rerio (zebrafish) ]

    Gene ID: 474324, updated on 27-Dec-2024

    Summary

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    Official Symbol
    dpf2provided by ZNC
    Official Full Name
    double PHD fingers 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041024-2
    See related
    Ensembl:ENSDARG00000012219 AllianceGenome:ZFIN:ZDB-GENE-041024-2
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    im:7146797; zgc:101789
    Summary
    Predicted to enable metal ion binding activity. Predicted to be located in nucleus. Is expressed in brain; epiphysis; and spinal cord. Human ortholog(s) of this gene implicated in Coffin-Siris syndrome 7. Orthologous to human DPF2 (double PHD fingers 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See dpf2 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (37744635..37759853)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (37144459..37159551)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene spectrin, beta, non-erythrocytic 2 Neighboring gene CDC42 effector protein (Rho GTPase binding) 2 Neighboring gene cholinergic receptor, muscarinic 1b Neighboring gene myosin Ic, paralog a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. 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
    2. Comparative analysis of single-cell transcriptomics in human and Zebrafish oocytes. Can H, et al. BMC Genomics, 2020 Jul 8. PMID 32640983, Free PMC Article
    3. Genome-wide, whole mount in situ analysis of transcriptional regulators in zebrafish embryos. Armant O, et al. Dev Biol, 2013 Aug 15. PMID 23684812, Free PMC Article
    4. Rbfox-regulated alternative splicing is critical for zebrafish cardiac and skeletal muscle functions. Gallagher TL, et al. Dev Biol, 2011 Nov 15. PMID 21925157, Free PMC Article
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, 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 ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    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_001007152.1 → NP_001007153.1  zinc finger protein ubi-d4

      See identical proteins and their annotated locations for NP_001007153.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083281
      UniProtKB/TrEMBL
      Q5XJL8
      Related
      ENSDARP00000003264.9, ENSDART00000014031.11
      Conserved Domains (3) summary
      cd15530
      Location:336 → 381
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15691
      Location:279 → 334
      PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
      pfam14051
      Location:13 → 77
      Requiem_N; N-terminal domain of DPF2/REQ

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      37744635..37759853
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005165302.5 → XP_005165359.1  zinc finger protein ubi-d4 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BCR7
      Conserved Domains (3) summary
      cd15530
      Location:350 → 395
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15691
      Location:293 → 348
      PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
      pfam14051
      Location:13 → 77
      Requiem_N; N-terminal domain of DPF2/REQ

    2. XM_009301640.4 → XP_009299915.1  zinc finger protein ubi-d4 isoform X2

      UniProtKB/TrEMBL
      A0A8M3B9T0
      Conserved Domains (3) summary
      cd15530
      Location:346 → 391
      PHD2_d4; PHD finger 2 found in d4 gene family proteins
      cd15691
      Location:289 → 344
      PHD1_DPF2_like; PHD finger 1 found in D4, zinc and double PHD fingers family 2 (DPF2)
      pfam14051
      Location:9 → 73
      Requiem_N; N-terminal domain of DPF2/REQ
    Nucleotide Protein Strain
    Heading Accession and Version

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