Cbx6 chromobox 6 [Mus musculus (house mouse)] - Gene

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. Located in heterochromatin and nucleus. Is expressed in cerebral cortex subventricular zone; cerebral cortex ventricular layer; cortical plate; and intestine smooth muscle circular layer. Orthologous to human CBX6 (chromobox 6). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in cortex adult (RPKM 127.2), frontal lobe adult (RPKM 59.1) and 23 other tissues See more
Orthologs: human all
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Genomic context

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_000081.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Findings indicate that chromobox 6 (CBX6) is an essential component of embryonic stem cells (ESCs) biology that contributes to the structural and functional complexity of the polycomb repressive complex 1 (PRC1) complex.
Title: The Polycomb group protein CBX6 is an essential regulator of embryonic stem cell identity.
different CBX proteins are recruited to distinct chromatin regions through nonconserved interactions. Metaphase spreads revealed reciprocal patterns of chromosome association by CBX2 and CBX6
Title: Different polycomb group CBX family proteins associate with distinct regions of chromatin using nonhomologous protein sequences.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH125232 (e-PCR)
- UniSTS:162054

NoName (e-PCR)
- UniSTS:237350

AI785356 (e-PCR)
- UniSTS:180782

D15Bwg0580e (e-PCR), detects polymorphism
- UniSTS:142004

AI452369 (e-PCR)
- UniSTS:160472

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
involved_in 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	IEA Inferred from Electronic Annotation 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 PcG protein complex	ISS Inferred from Sequence or Structural Similarity more info
located_in chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear body	IEA Inferred from Electronic Annotation 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	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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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.