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phf-15 PHD-type domain-containing protein [ Caenorhabditis elegans ]

Gene ID: 175435, updated on 2-Nov-2024

Summary

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Official Symbol
phf-15
Official Full Name
PHD-type domain-containing protein
Primary source
WormBase:WBGene00021810
Locus tag
CELE_Y53G8AR.2
See related
AllianceGenome:WB:WBGene00021810
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Predicted to enable histone binding activity and nucleosome binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to several human genes including JADE3 (jade family PHD finger 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See phf-15 in Genome Data Viewer
Location:
chromosome: III
Exon count:
11
Sequence:
Chromosome: III; NC_003281.10 (3322853..3331727)

Chromosome III - NC_003281.10Genomic Context describing neighboring genes Neighboring gene Small monomeric GTPase Neighboring gene C3H1-type domain-containing protein Neighboring gene Secreted protein Neighboring gene tRNA

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003281.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Diverse chromatin remodeling genes antagonize the Rb-involved SynMuv pathways in C. elegans. Cui M, et al. PLoS Genet, 2006 May. PMID 16710447, Free PMC Article
  2. A transcriptional cofactor regulatory network for the C. elegans intestine. Horowitz BB, et al. G3 (Bethesda), 2023 Jul 5. PMID 37119809, Free PMC Article
  3. OrthoList: a compendium of C. elegans genes with human orthologs. Shaye DD, et al. PLoS One, 2011. PMID 21647448, Free PMC Article
  4. OrthoList 2: A New Comparative Genomic Analysis of Human and Caenorhabditis elegans Genes. Kim W, et al. Genetics, 2018 Oct. PMID 30120140, Free PMC Article
  5. Genome sequence of the nematode C. elegans: a platform for investigating biology. C. elegans Sequencing Consortium. Science, 1998 Dec 11. PMID 9851916

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleosome binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
PHD-type domain-containing protein
NP_497691.1
  • Confirmed by transcript evidence
NP_871639.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003281.10 Reference assembly

    Range
    3322853..3331727
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_065290.5 → NP_497691.1  PHD-type domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_497691.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q9N3F6
    Conserved Domains (2) summary
    cd15492
    Location:281 → 327
    PHD_BRPF_JADE_like; PHD finger found in BRPF proteins, Jade proteins, protein AF-10, AF-17, and similar proteins
    pfam13832
    Location:336 → 450
    zf-HC5HC2H_2; PHD-zinc-finger like domain

  2. NM_181910.4 → NP_871639.1  PHD-type domain-containing protein [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_871639.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q8IAA4
    Conserved Domains (2) summary
    cd15492
    Location:240 → 286
    PHD_BRPF_JADE_like; PHD finger found in BRPF proteins, Jade proteins, protein AF-10, AF-17, and similar proteins
    pfam13832
    Location:295 → 409
    zf-HC5HC2H_2; PHD-zinc-finger like domain
Nucleotide Protein
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