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phc2a polyhomeotic homolog 2a (Drosophila) [ Danio rerio (zebrafish) ]

Gene ID: 171465, updated on 4-Jan-2025

Summary

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Official Symbol
phc2aprovided by ZNC
Official Full Name
polyhomeotic homolog 2a (Drosophila)provided by ZNC
Primary source
ZFIN:ZDB-GENE-020312-1
See related
Ensembl:ENSDARG00000056695 AllianceGenome:ZFIN:ZDB-GENE-020312-1
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
ph2; edr2; phc2; cb218; ph2[a]; ph2[b]; ph2beta; ph2alpha
Summary
Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to be part of PRC1 complex. Predicted to be active in nucleus. Is expressed in several structures, including germ line cell; nervous system; optic vesicle; pectoral fin; and pleuroperitoneal region. Orthologous to human PHC2 (polyhomeotic homolog 2). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
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Genomic context

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See phc2a in Genome Data Viewer
Location:
chromosome: 23
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (22063484..22130800, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (22136933..22204259, complement)

Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene lactamase, beta-like 1a Neighboring gene eukaryotic translation initiation factor 4 gamma, 3b Neighboring gene solute carrier family 2 member 1a Neighboring gene uncharacterized LOC137489162

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. A central function for perlecan in skeletal muscle and cardiovascular development. Zoeller JJ, et al. J Cell Biol, 2008 Apr 21. PMID 18426981, Free PMC Article
  2. Zebrafish Polycomb group gene ph2alpha is required for epiboly and tailbud formation acting downstream of FGF signaling. Komoike Y, et al. Biochem Biophys Res Commun, 2005 Mar 25. PMID 15707958
  3. Gene expression profile of a selection of Polycomb Group genes during zebrafish embryonic and germ line development. Chrispijn ND, et al. PLoS One, 2018. PMID 29985950, Free PMC Article
  4. A histone demethylase is necessary for regeneration in zebrafish. Stewart S, et al. Proc Natl Acad Sci U S A, 2009 Nov 24. PMID 19897725, Free PMC Article
  5. The zebrafish genes encoding the Polycomb repressive complex (PRC) 1. Le Faou P, et al. Gene, 2011 Apr 1. PMID 21195142

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Collectively, the data argue that ph2alpha is required for epiboly and tailbud formation, acting downstream of the FGF signaling pathway
    Title: Zebrafish Polycomb group gene ph2alpha is required for epiboly and tailbud formation acting downstream of FGF signaling.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC123102

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of PRC1 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of PRC1 complex ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of PcG protein complex ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of protein-containing complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
polyhomeotic-like protein 2
Names
early development regulator 2 (homolog of polyhomeotic 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_001136488.2 → NP_001129960.1  polyhomeotic-like protein 2 isoform b

    See identical proteins and their annotated locations for NP_001129960.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a.
    Source sequence(s)
    BX005123
    UniProtKB/Swiss-Prot
    Q8QHL5
    Related
    ENSDARP00000054361.5, ENSDART00000054362.7
    Conserved Domains (3) summary
    cd09577
    Location:241 → 309
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:243 → 310
    SAM; Sterile alpha motif
    pfam16616
    Location:129 → 239
    PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

  2. NM_152958.2 → NP_694490.2  polyhomeotic-like protein 2 isoform a

    See identical proteins and their annotated locations for NP_694490.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AL772391, BX005123
    UniProtKB/Swiss-Prot
    Q6DGB9, Q6TGW0, Q7ZYX8, Q8QHL4, Q8QHL5
    UniProtKB/TrEMBL
    A0A0A0MPJ3, A0A8N7UZS1
    Related
    ENSDARP00000073668.4, ENSDART00000079212.6
    Conserved Domains (3) summary
    cd09577
    Location:758 → 826
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:760 → 827
    SAM; Sterile alpha motif
    pfam16616
    Location:646 → 756
    PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

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_007134.7 Reference GRCz11 Primary Assembly

    Range
    22063484..22130800 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068216661.1 → XP_068072762.1  polyhomeotic-like protein 2 isoform X1

    UniProtKB/Swiss-Prot
    Q6DGB9, Q6TGW0, Q7ZYX8, Q8QHL4, Q8QHL5
    UniProtKB/TrEMBL
    A0A0A0MPJ3, A0A8N7UZS1

  2. XM_005162144.5 → XP_005162201.1  polyhomeotic-like protein 2 isoform X1

    See identical proteins and their annotated locations for XP_005162201.1

    UniProtKB/Swiss-Prot
    Q6DGB9, Q6TGW0, Q7ZYX8, Q8QHL4, Q8QHL5
    UniProtKB/TrEMBL
    A0A0A0MPJ3, A0A8N7UZS1
    Related
    ENSDARP00000117469.1, ENSDART00000142474.3
    Conserved Domains (3) summary
    cd09577
    Location:758 → 826
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:760 → 827
    SAM; Sterile alpha motif
    pfam16616
    Location:646 → 756
    PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395362.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    224331..287249 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8QHL5.1 GenPept UniProtKB/Swiss-Prot:Q8QHL5

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