Cbx2 chromobox 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cbx2provided by RGD
Official Full Name: chromobox 2provided by RGD
Primary source: RGD:1588561
See related: Ensembl:ENSRNOG00000049215 AllianceGenome:RGD:1588561
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable chromatin binding activity and methylated histone binding activity. Predicted to be involved in development of primary sexual characteristics and negative regulation of transcription by RNA polymerase II. Predicted to be located in euchromatin and nucleoplasm. Predicted to be part of PRC1 complex. Predicted to be active in heterochromatin. Human ortholog(s) of this gene implicated in 46,XY sex reversal 5. Orthologous to human CBX2 (chromobox 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 78.1), Spleen (RPKM 20.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q32.3

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (104777054..104785922)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (104278517..104287384)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (108132105..108140935)

Chromosome 10 - NC_086028.1 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: 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables methylated histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables methylated histone binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in development of primary sexual characteristics	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology 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 PRC1 complex	ISO Inferred from Sequence Orthology more info
part_of PcG protein complex	ISO Inferred from Sequence Orthology more info
part_of euchromatin	ISO Inferred from Sequence Orthology more info
part_of heterochromatin	IBA Inferred from Biological aspect of Ancestor more info
part_of heterochromatin	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation 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

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Preferred Names: chromobox protein homolog 2

Names: chromobox homolog 2 (Pc class homolog, Drosophila)

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)

NM_001107071.3 → NP_001100541.1 chromobox protein homolog 2

See identical proteins and their annotated locations for NP_001100541.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A6HL66, M0RE14

Related

ENSRNOP00000067878.1, ENSRNOT00000072534.2

Conserved Domains (2) summary

cd18647
Location:9 → 61

CD_Cbx2; chromodomain of chromobox homolog 2

pfam17218
Location:482 → 514

CBX7_C; CBX family C-terminal motif

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

NC_086028.1 Reference GRCr8

Range

104777054..104785922

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039086214.2 → XP_038942142.1 chromobox protein homolog 2 isoform X1

Conserved Domains (2) summary

cd18647
Location:9 → 61

CD_Cbx2; chromodomain of chromobox homolog 2

pfam17218
Location:315 → 347

CBX7_C; CBX family C-terminal motif