U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

phf2 PHD finger protein 2 [ Danio rerio (zebrafish) ]

Gene ID: 503778, updated on 9-Dec-2024

Summary

Go to the top of the page Help
Official Symbol
phf2provided by ZNC
Official Full Name
PHD finger protein 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-050302-10
See related
Ensembl:ENSDARG00000018691 AllianceGenome:ZFIN:ZDB-GENE-050302-10
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
phf8; im:4200679; wu:fa14c10
Summary
Predicted to enable several functions, including histone demethylase activity; transcription coactivator activity; and transition metal ion binding activity. Predicted to be involved in protein demethylation and regulation of gene expression. Predicted to act upstream of or within chromatin organization. Predicted to be located in kinetochore and nucleolus. Orthologous to human PHF2 (PHD finger protein 2). [provided by Alliance of Genome Resources, Dec 2024]
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 phf2 in Genome Data Viewer
Location:
chromosome: 11
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (27644474..27702835, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (27397300..27455726, complement)

Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene BARX homeobox 1 Neighboring gene uncharacterized LOC137496701 Neighboring gene family with sequence similarity 120A Neighboring gene Cas scaffold protein family member 4

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: 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

Go to the top of the pageHelp

Related articles in PubMed

  1. KDM7 is a dual demethylase for histone H3 Lys 9 and Lys 27 and functions in brain development. Tsukada Y, et al. Genes Dev, 2010 Mar 1. PMID 20194436, Free PMC Article
  2. The Kdm/Kmt gene families in the self-fertilizing mangrove rivulus fish, Kryptolebias marmoratus, suggest involvement of histone methylation machinery in development and reproduction. Fellous A, et al. Gene, 2019 Mar 1. PMID 30458291
  3. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
  4. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
  5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables 2-oxoglutarate-dependent dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables dioxygenase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K9 demethylase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables histone H4K20 demethylase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables histone demethylase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables iron ion binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables methylated histone binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
enables transcription coactivator activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion binding ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
  
involved_in chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of rDNA heterochromatin formation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein demethylation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in transcription initiation-coupled chromatin remodeling ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in chromosome IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome, centromeric region IEA
Inferred from Electronic Annotation
more info
  
located_in kinetochore IEA
Inferred from Electronic Annotation
more info
  
located_in kinetochore ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleolus ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
lysine-specific demethylase phf2
Names
PHD finger protein 8
NP_001189347.1
XP_005169348.1
XP_005169349.1

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_001202418.1 → NP_001189347.1  lysine-specific demethylase phf2

    Status: VALIDATED

    Source sequence(s)
    BX601648
    UniProtKB/Swiss-Prot
    E7EZ72, Q6P949
    Related
    ENSDARP00000111663.4, ENSDART00000125352.4
    Conserved Domains (3) summary
    smart00558
    Location:201 → 264
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15641
    Location:7 → 56
    PHD_PHF2; PHD finger found in lysine-specific demethylase PHF2
    cl21464
    Location:236 → 336
    cupin_like; Conserved domain found in cupin and related proteins

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_007122.7 Reference GRCz11 Primary Assembly

    Range
    27644474..27702835 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005169292.5 → XP_005169349.1  lysine-specific demethylase phf2 isoform X2

    UniProtKB/Swiss-Prot
    E7EZ72, Q6P949
    UniProtKB/TrEMBL
    A0A8M2BH62
    Conserved Domains (3) summary
    smart00558
    Location:201 → 264
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15641
    Location:7 → 56
    PHD_PHF2; PHD finger found in lysine-specific demethylase PHF2
    cl21464
    Location:236 → 336
    cupin_like; Conserved domain found in cupin and related proteins

  2. XM_005169291.5 → XP_005169348.1  lysine-specific demethylase phf2 isoform X1

    UniProtKB/Swiss-Prot
    E7EZ72, Q6P949
    UniProtKB/TrEMBL
    A0A8M2BGL0
    Related
    ENSDARP00000045941.6, ENSDART00000045942.8
    Conserved Domains (3) summary
    smart00558
    Location:201 → 264
    JmjC; A domain family that is part of the cupin metalloenzyme superfamily
    cd15641
    Location:7 → 56
    PHD_PHF2; PHD finger found in lysine-specific demethylase PHF2
    cl21464
    Location:236 → 336
    cupin_like; Conserved domain found in cupin and related proteins
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6P949.3 GenPept UniProtKB/Swiss-Prot:Q6P949

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.