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

Gene ID: 563396, updated on 11-Apr-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 chromatin organization and negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be active in pericentric heterochromatin. Is expressed in somite. Orthologous to human CBX5 (chromobox 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 23
Exon count:
6
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (36297221..36306332, 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
  
part_of 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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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
    36297221..36306332 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021469820.1 → 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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