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

    Gene ID: 171465, updated on 9-Dec-2024

    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, Dec 2024]
    Orthologs
    all
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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

    Gene LinkOut

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

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