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    cbx5 chromobox homolog 5 (HP1 alpha homolog, Drosophila) [ Danio rerio (zebrafish) ]

    Gene ID: 563396, updated on 9-Dec-2024

    Summary

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    Official Symbol
    cbx5provided by ZNC
    Official Full Name
    chromobox homolog 5 (HP1 alpha homolog, Drosophila)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-5553
    See related
    Ensembl:ENSDARG00000061187 AllianceGenome:ZFIN:ZDB-GENE-030131-5553
    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
    fc63e02; id:ibd2026; wu:fc63e02; wu:fe47g12; wu:fi03h05; zgc:158601
    Summary
    Predicted to enable chromatin binding activity and methylated histone binding activity. Predicted to be involved in heterochromatin formation. Predicted to be located in pericentric heterochromatin. Is expressed in somite. Orthologous to human CBX5 (chromobox 5). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See cbx5 in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (36298157..36306008, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (36199356..36207203, complement)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene si:dkey-81p22.11 Neighboring gene uncharacterized LOC110438326 Neighboring gene homeobox C1a Neighboring gene heterogeneous nuclear ribonucleoprotein A1b Neighboring gene nuclear factor, erythroid 2

    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. Uncovering Regulators of Heterochromatin Mediated Silencing Using a Zebrafish Transgenic Reporter. Calvird AE, et al. Front Cell Dev Biol, 2022. PMID 35356281, Free PMC Article
    2. Proteomic analysis of three gonad types of swamp eel reveals genes differentially expressed during sex reversal. Sheng Y, et al. Sci Rep, 2015 May 18. PMID 25985063, Free PMC Article
    3. Repertoire of protein kinases encoded in the genome of zebrafish shows remarkably large population of PIM kinases. Rakshambikai R, et al. J Bioinform Comput Biol, 2014 Feb. PMID 24467753
    4. Bone morphogenetic protein signaling governs biliary-driven liver regeneration in zebrafish through tbx2b and id2a. Choi TY, et al. Hepatology, 2017 Nov. PMID 28599080, Free PMC Article
    5. RNA-Seq analysis in mutant zebrafish reveals role of U1C protein in alternative splicing regulation. Rösel TD, et al. EMBO J, 2011 May 18. PMID 21468032, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC158601

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables methylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in pericentric heterochromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    chromobox protein homolog 5

    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_001080184.1 → NP_001073653.1  chromobox protein homolog 5

      See identical proteins and their annotated locations for NP_001073653.1

      Status: PROVISIONAL

      Source sequence(s)
      BC129317
      UniProtKB/TrEMBL
      A1L223, B2GPC7
      Related
      ENSDARP00000081419.3, ENSDART00000086985.6
      Conserved Domains (2) summary
      pfam00385
      Location:21 → 69
      Chromo; Chromo (CHRromatin Organisation MOdifier) domain
      pfam01393
      Location:138 → 190
      Chromo_shadow; Chromo shadow domain

    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
      36298157..36306008 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021469820.2 → XP_021325495.1  chromobox protein homolog 5 isoform X1

      UniProtKB/TrEMBL
      A1L223, B2GPC7
      Related
      ENSDARP00000120917.1, ENSDART00000142760.3
      Conserved Domains (2) summary
      pfam00385
      Location:21 → 69
      Chromo; Chromo (CHRromatin Organisation MOdifier) domain
      pfam01393
      Location:138 → 190
      Chromo_shadow; Chromo shadow domain
    Nucleotide Protein Strain
    Heading Accession and Version

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