Cnot3 CCR4-NOT transcription complex, subunit 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Cnot3provided by MGI
Official Full Name: CCR4-NOT transcription complex, subunit 3provided by MGI
Primary source: MGI:MGI:2385261
See related: Ensembl:ENSMUSG00000035632
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
Also known as: A930039N10Rik
Expression: Ubiquitous expression in thymus adult (RPKM 10.9), limb E14.5 (RPKM 9.5) and 28 other tissues See more
Orthologs: human all

Genomic context

Location:: 7; 7 A1

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
106	current	GRCm38.p4 (GCF_000001635.24)	7	NC_000073.6 (3645269..3661109)
Build 37.2	previous assembly	MGSCv37 (GCF_000001635.18)	7	NC_000073.5 (3596871..3612711)

Chromosome 7 - NC_000073.6 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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 FunctionsWhat's a GeneRIF?

we propose that CNOT3 maintains the pluripotent state by promoting differentiation gene mRNA deadenylation and degradation, and we identify poly(A) tail-length regulation as a post-transcriptional mechanism that controls pluripotency.
Title: CNOT3-Dependent mRNA Deadenylation Safeguards the Pluripotent State.
Cnot3(ad-/-) mice exhibit lipodystrophy.
Title: Adipocyte-specific disruption of mouse Cnot3 causes lipodystrophy.
increases the number of ALP-positive colonies after iPSC induction and decreases expression levels of Eomes and p21 mRNAs. Based on these observations, we propose that the CCR4-NOT deadenylase activity contributes to iPSC induction.
Title: The CCR4-NOT deadenylase activity contributes to generation of induced pluripotent stem cells.
CNOT3 suppression promotes necroptosis by stabilizing mRNAs for cell death-inducing proteins, Ripk1 and Ripk3.
Title: CNOT3 suppression promotes necroptosis by stabilizing mRNAs for cell death-inducing proteins.
data suggest that the CCR4-NOT complex regulates B cell differentiation by controlling Igh rearrangement and destabilizing p53 mRNA.
Title: CNOT3 contributes to early B cell development by controlling Igh rearrangement and p53 mRNA stability.
These data have uncovered a novel role of core components of the Ccr4-Not complex as regulators of transition from partial to genuine induced pluripotent stem cells.
Title: Identification of Ccr4-not complex components as regulators of transition from partial to genuine induced pluripotent stem cells.
CNOT3 is a critical regulator of bone mass acting on bone resorption through posttranscriptional down-regulation of RANK mRNA stability, at least in part, even in aging-induced osteoporosis.
Title: Stability of mRNA influences osteoporotic bone mass via CNOT3.
Cnot1, Cnot2, and Cnot3 represent a novel component of the core self-renewal and pluripotency circuitry conserved in mouse and human ESCs.
Title: Cnot1, Cnot2, and Cnot3 maintain mouse and human ESC identity and inhibit extraembryonic differentiation.
CNOT3 responds to feeding conditions to regulate deadenylation-specific mRNAs and energy metabolism
Title: Obesity resistance and increased hepatic expression of catabolism-related mRNAs in Cnot3+/- mice.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Targeted (4) 1 citation
Endonuclease-mediated (1)

Pathways from BioSystems

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Gene Expression, organism-specific biosystem (from REACTOME)
Gene Expression, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Generic Transcription Pathway, organism-specific biosystem (from REACTOME)
Generic Transcription Pathway, organism-specific biosystemcomputationally inferred pathway (not manually curated)
RNA degradation, organism-specific biosystem (from KEGG)
RNA degradation, organism-specific biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
RNA degradation, conserved biosystem (from KEGG)
RNA degradation, conserved biosystemThe correct processing, quality control and turnover of cellular RNA molecules are critical to many aspects in the expression of genetic information. In eukaryotes, two major pathways of mRNA decay e...
TP53 Regulates Transcription of Cell Cycle Genes, organism-specific biosystem (from REACTOME)
TP53 Regulates Transcription of Cell Cycle Genes, organism-specific biosystemcomputationally inferred pathway (not manually curated)
TP53 regulates transcription of additional cell cycle genes whose exact role in the p53 pathway remain uncertain, organism-specific biosystem (from REACTOME)
TP53 regulates transcription of additional cell cycle genes whose exact role in the p53 pathway remain uncertain, organism-specific biosystemcomputationally inferred pathway (not manually curated)
Transcriptional Regulation by TP53, organism-specific biosystem (from REACTOME)
Transcriptional Regulation by TP53, organism-specific biosystemcomputationally inferred pathway (not manually curated)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:235586 (e-PCR)
- UniSTS:235586

AW554706 (e-PCR)
- UniSTS:185690

Homology

Homologs of the Cnot3 gene: The Cnot3 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, zebrafish, and frog.
Orthologs from Annotation Pipeline: 195 organisms have orthologs with human gene Cnot3
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
gene silencing by RNA	IEA Inferred from Electronic Annotation more info
multicellular organism development	IEA Inferred from Electronic Annotation more info
negative regulation of translation	IBA Inferred from Biological aspect of Ancestor more info	PubMed
positive regulation of cold-induced thermogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
regulation of stem cell population maintenance	IBA Inferred from Biological aspect of Ancestor more info	PubMed
regulation of stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
regulation of stem cell population maintenance	ISO Inferred from Sequence Orthology more info
regulation of transcription, DNA-templated	IEA Inferred from Electronic Annotation more info
regulation of translation	IEA Inferred from Electronic Annotation more info
trophectodermal cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
CCR4-NOT complex	ISO Inferred from Sequence Orthology more info
CCR4-NOT core complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
P-body	IBA Inferred from Biological aspect of Ancestor more info	PubMed
P-body	IDA Inferred from Direct Assay more info	PubMed
cytoplasm	IEA Inferred from Electronic Annotation more info
nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: CCR4-NOT transcription complex subunit 3

Names: CCR4-associated factor 3

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_146176.3 → NP_666288.1 CCR4-NOT transcription complex subunit 3

See identical proteins and their annotated locations for NP_666288.1

Status: VALIDATED

Source sequence(s)

BC053437, BQ748712, CV783268

Consensus CDS

CCDS20721.1

UniProtKB/Swiss-Prot

Q8K0V4

Related

ENSMUSP00000039098.9, ENSMUST00000038913.15

Conserved Domains (4) summary

COG5665
Location:12 → 749

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:303 → 384

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 229

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:622 → 743

NOT2_3_5; NOT2 / NOT3 / NOT5 family

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

NC_000073.6 Reference GRCm38.p4 C57BL/6J

Range

3645269..3661109

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006539757.3 → XP_006539820.1 CCR4-NOT transcription complex subunit 3 isoform X3

Conserved Domains (2) summary

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

cl02384
Location:623 → 683

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_011250500.2 → XP_011248802.1 CCR4-NOT transcription complex subunit 3 isoform X1

See identical proteins and their annotated locations for XP_011248802.1

Conserved Domains (4) summary

COG5665
Location:12 → 750

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:304 → 385

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:623 → 744

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_011250501.2 → XP_011248803.1 CCR4-NOT transcription complex subunit 3 isoform X2

See identical proteins and their annotated locations for XP_011248803.1

UniProtKB/Swiss-Prot

Q8K0V4

Conserved Domains (4) summary

COG5665
Location:12 → 749

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:303 → 384

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 229

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:622 → 743

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_006539752.3 → XP_006539815.1 CCR4-NOT transcription complex subunit 3 isoform X1

See identical proteins and their annotated locations for XP_006539815.1

Conserved Domains (4) summary

COG5665
Location:12 → 750

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:304 → 385

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:623 → 744

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_006539755.3 → XP_006539818.1 CCR4-NOT transcription complex subunit 3 isoform X1

See identical proteins and their annotated locations for XP_006539818.1

Conserved Domains (4) summary

COG5665
Location:12 → 750

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:304 → 385

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:623 → 744

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_017322146.1 → XP_017177635.1 CCR4-NOT transcription complex subunit 3 isoform X2

UniProtKB/Swiss-Prot

Q8K0V4

Conserved Domains (4) summary

COG5665
Location:12 → 749

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:303 → 384

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 229

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:622 → 743

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_006539756.3 → XP_006539819.1 CCR4-NOT transcription complex subunit 3 isoform X1

See identical proteins and their annotated locations for XP_006539819.1

Conserved Domains (4) summary

COG5665
Location:12 → 750

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:304 → 385

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:623 → 744

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_006539753.3 → XP_006539816.1 CCR4-NOT transcription complex subunit 3 isoform X1

See identical proteins and their annotated locations for XP_006539816.1

Conserved Domains (4) summary

COG5665
Location:12 → 750

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:304 → 385

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:623 → 744

NOT2_3_5; NOT2 / NOT3 / NOT5 family
XM_017322145.1 → XP_017177634.1 CCR4-NOT transcription complex subunit 3 isoform X1

Conserved Domains (4) summary

COG5665
Location:12 → 750

COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

pfam01328
Location:304 → 385

Peroxidase_2; Peroxidase, family 2

pfam04065
Location:3 → 230

Not3; Not1 N-terminal domain, CCR4-Not complex component

pfam04153
Location:623 → 744

NOT2_3_5; NOT2 / NOT3 / NOT5 family