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    Cbx1 chromobox 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360609, updated on 9-Dec-2024

    Summary

    Official Symbol
    Cbx1provided by RGD
    Official Full Name
    chromobox 1provided by RGD
    Primary source
    RGD:1310714
    See related
    EnsemblRapid:ENSRNOG00000008689 AllianceGenome:RGD:1310714
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable several functions, including histone methyltransferase binding activity; identical protein binding activity; and methylated histone binding activity. Predicted to be involved in DNA damage response and heterochromatin formation. Predicted to act upstream of or within negative regulation of DNA-templated transcription. Predicted to be located in several cellular components, including chromocenter; chromosome; and pronucleus. Orthologous to human CBX1 (chromobox 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 331.2), Lung (RPKM 176.8) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Cbx1 in Genome Data Viewer
    Location:
    10q31
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (82266746..82286431)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (81770307..81789981)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (84656698..84677112)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene sorting nexin 11 Neighboring gene uncharacterized LOC134480860 Neighboring gene NFE2 like bZIP transcription factor 1 Neighboring gene uncharacterized LOC120095287

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables chromatin binding  
    enables enzyme binding  
    enables histone methyltransferase binding  
    enables identical protein binding  
    enables methylated histone binding  
    Component Evidence Code Pubs
    located_in chromatin  
    located_in chromocenter  
    located_in chromosome, centromeric region  
    located_in chromosome, telomeric region  
    located_in female pronucleus  
    located_in intracellular membrane-bounded organelle  
    located_in male pronucleus  
    located_in nuclear body  
    located_in nuclear body  
    located_in nucleoplasm  
    located_in nucleus  
    located_in pericentric heterochromatin  
    located_in pericentric heterochromatin  
    located_in site of DNA damage  
    located_in spindle  

    General protein information

    Preferred Names
    chromobox protein homolog 1
    Names
    chromobox homolog 1 (HP1 beta homolog Drosophila )

    NCBI Reference Sequences (RefSeq)

    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_001398806.1NP_001385735.1  chromobox protein homolog 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A6HIG4
      Conserved Domains (2) summary
      cd18650
      Location:2069
      CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
      cd18654
      Location:112169
      CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      82266746..82286431
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006247233.5XP_006247295.1  chromobox protein homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006247295.1

      UniProtKB/TrEMBL
      A0A8I5ZM96
      Related
      ENSRNOP00000078867.1, ENSRNOT00000094691.2
      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:126177
      Chromo_shadow; Chromo shadow domain
    2. XM_006247234.5XP_006247296.1  chromobox protein homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006247296.1

      UniProtKB/TrEMBL
      A0A8I5ZM96
      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:126177
      Chromo_shadow; Chromo shadow domain
    3. XM_063269417.1XP_063125487.1  chromobox protein homolog 1 isoform X2

      UniProtKB/TrEMBL
      A6HIG4
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