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    Cbx4 chromobox 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 501403, updated on 2-Nov-2024

    Summary

    Symbol
    Cbx4provided by RGD
    Full Name
    chromobox 4provided by RGD
    Primary source
    RGD:1587243
    See related
    EnsemblRapid:ENSRNOG00000063043 AllianceGenome:RGD:1587243
    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 SUMO binding activity; SUMO ligase activity; and nucleic acid binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II and protein sumoylation. Predicted to be located in nuclear body. Predicted to be part of PRC1 complex. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human CBX4 (chromobox 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 147.3), Thymus (RPKM 131.6) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Cbx4 in Genome Data Viewer
    Location:
    10q32.3
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (104835685..104841727, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (104337140..104343210, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (108190947..108196455, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134480913 Neighboring gene uncharacterized LOC134480914 Neighboring gene uncharacterized LOC103693490 Neighboring gene uncharacterized LOC120095222 Neighboring gene uncharacterized LOC102551272

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SUMO binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables SUMO binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables SUMO ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables SUMO ligase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables SUMO transferase activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables methylated histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables phosphoprotein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables single-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of PRC1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of PRC1 complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of PcG protein complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    E3 SUMO-protein ligase CBX4
    Names
    chromobox homolog 4 (Pc class 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_001427455.1NP_001414384.1  E3 SUMO-protein ligase CBX4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6ACN6
      Related
      ENSRNOP00000091742.1, ENSRNOT00000115792.2

    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
      104835685..104841727 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)