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    Cbx1 chromobox 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360609, updated on 12-Aug-2018

    Summary

    Official Symbol
    Cbx1provided by RGD
    Official Full Name
    chromobox 1provided by RGD
    Primary source
    RGD:1310714
    See related
    Ensembl:ENSRNOG00000008689
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Expression
    Biased expression in Thymus (RPKM 331.2), Lung (RPKM 176.8) and 9 other tissues See more
    Orthologs

    Genomic context

    See Cbx1 in Genome Data Viewer
    Location:
    10q31
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (84656698..84677112)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 10 NC_005109.3 (84449614..84470027)

    Chromosome 10 - NC_005109.4Genomic Context describing neighboring genes Neighboring gene src kinase associated phosphoprotein 1 Neighboring gene uncharacterized LOC102551165 Neighboring gene sorting nexin 11 Neighboring gene nuclear factor, erythroid 2-like 1 Neighboring gene microRNA 152 Neighboring gene coatomer protein complex, subunit zeta 2

    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

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    histone methyltransferase binding IEA
    Inferred from Electronic Annotation
    more info
     
    histone methyltransferase binding ISO
    Inferred from Sequence Orthology
    more info
     
    identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein homodimerization activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    cellular response to DNA damage stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    cellular response to DNA damage stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of transcription, DNA-templated IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    chromocenter IEA
    Inferred from Electronic Annotation
    more info
     
    chromocenter ISO
    Inferred from Sequence Orthology
    more info
     
    chromosome, centromeric region ISO
    Inferred from Sequence Orthology
    more info
     
    female pronucleus IEA
    Inferred from Electronic Annotation
    more info
     
    female pronucleus ISO
    Inferred from Sequence Orthology
    more info
     
    male pronucleus IEA
    Inferred from Electronic Annotation
    more info
     
    male pronucleus ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear chromosome, telomeric region IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with nuclear chromosome, telomeric region ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    pericentric heterochromatin IEA
    Inferred from Electronic Annotation
    more info
     
    pericentric heterochromatin ISO
    Inferred from Sequence Orthology
    more info
     
    site of DNA damage IEA
    Inferred from Electronic Annotation
    more info
     
    site of DNA damage ISO
    Inferred from Sequence Orthology
    more info
     
    spindle IEA
    Inferred from Electronic Annotation
    more info
     
    spindle ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

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

    NCBI Reference Sequences (RefSeq)

    RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005109.4 Reference Rnor_6.0 Primary Assembly

      Range
      84656698..84677112
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006247233.3XP_006247295.1  chromobox protein homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006247295.1

      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:126177
      Chromo_shadow; Chromo shadow domain
    2. XM_006247235.3XP_006247297.1  chromobox protein homolog 1 isoform X2

      See identical proteins and their annotated locations for XP_006247297.1

      UniProtKB/TrEMBL
      D4A3T3
      Related
      ENSRNOP00000011665.2, ENSRNOT00000011665.4
      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:118169
      Chromo_shadow; Chromo shadow domain
    3. XM_006247234.3XP_006247296.1  chromobox protein homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006247296.1

      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:126177
      Chromo_shadow; Chromo shadow domain

    Alternate Rn_Celera

    Genomic

    1. AC_000078.1 Alternate Rn_Celera

      Range
      80531367..80552403
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006220821.3XP_006220883.1  chromobox protein homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006220883.1

      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:126177
      Chromo_shadow; Chromo shadow domain
    2. XM_006220823.3XP_006220885.1  chromobox protein homolog 1 isoform X2

      See identical proteins and their annotated locations for XP_006220885.1

      UniProtKB/TrEMBL
      D4A3T3
      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:118169
      Chromo_shadow; Chromo shadow domain
    3. XM_006220822.3XP_006220884.1  chromobox protein homolog 1 isoform X1

      See identical proteins and their annotated locations for XP_006220884.1

      Conserved Domains (2) summary
      pfam00385
      Location:2770
      Chromo; Chromo (CHRromatin Organization MOdifier) domain
      pfam01393
      Location:126177
      Chromo_shadow; Chromo shadow domain
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