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Cbx6 chromobox 6 [ Mus musculus (house mouse) ]

Gene ID: 494448, updated on 2-Jul-2024

Summary

Official Symbol
Cbx6provided by MGI
Official Full Name
chromobox 6provided by MGI
Primary source
MGI:MGI:3512628
See related
Ensembl:ENSMUSG00000089715 AllianceGenome:MGI:3512628
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Enables single-stranded RNA binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin organization. Located in heterochromatin and nucleus. Is expressed in intestine smooth muscle circular layer. Orthologous to human CBX6 (chromobox 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in cortex adult (RPKM 127.2), frontal lobe adult (RPKM 59.1) and 23 other tissues See more
Orthologs
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Genomic context

See Cbx6 in Genome Data Viewer
Location:
15 E1; 15 37.85 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (79708099..79718534, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (79823898..79834333, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 30977 Neighboring gene predicted gene, 57816 Neighboring gene neuronal pentraxin receptor Neighboring gene neuronal pentraxin chromo domain Neighboring gene predicted gene 10856 Neighboring gene STARR-seq mESC enhancer starr_39199 Neighboring gene RIKEN cDNA D730005E14 gene Neighboring gene STARR-positive B cell enhancer ABC_E7391 Neighboring gene apolipoprotein B mRNA editing enzyme, catalytic polypeptide 3

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough Npcd

Readthrough gene: Npcd, Included gene: Nptxr

Gene Ontology Provided by MGI

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
 
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of transcription by RNA polymerase II 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 PcG protein complex ISO
Inferred from Sequence Orthology
more info
 
part_of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
part_of heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
chromobox protein homolog 6
Names
chromobox homolog 6

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_028763.3NP_083039.2  chromobox protein homolog 6

    See identical proteins and their annotated locations for NP_083039.2

    Status: VALIDATED

    Source sequence(s)
    AC113595, AK004679, AK035250, BY237361
    Consensus CDS
    CCDS37142.1
    UniProtKB/Swiss-Prot
    Q8BZH5, Q9DBY5
    UniProtKB/TrEMBL
    Q3UK98
    Related
    ENSMUSP00000105255.2, ENSMUST00000109627.8
    Conserved Domains (1) summary
    smart00298
    Location:1062
    CHROMO; Chromatin organization modifier domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    79708099..79718534 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)