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

    Gene ID: 232791, updated on 12-May-2024

    Summary

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    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 AllianceGenome:MGI:2385261
    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
    Summary
    Involved in positive regulation of cold-induced thermogenesis; regulation of stem cell population maintenance; and trophectodermal cell differentiation. Located in P-body. Is expressed in several structures, including alimentary system; brain; gonad; hemolymphoid system gland; and white fat. Orthologous to human CNOT3 (CCR4-NOT transcription complex subunit 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thymus adult (RPKM 10.9), limb E14.5 (RPKM 9.5) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cnot3 in Genome Data Viewer
    Location:
    7 A1; 7 2.1 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (3646717..3664108)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (3645247..3661109)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene TCF3 (E2A) fusion partner Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:3581200-3581309 Neighboring gene STARR-positive B cell enhancer ABC_E2811 Neighboring gene pre-mRNA processing factor 31 Neighboring gene predicted gene 15927 Neighboring gene STARR-seq mESC enhancer starr_17914 Neighboring gene microRNA 3572 Neighboring gene STARR-positive B cell enhancer ABC_E1077 Neighboring gene leukocyte receptor cluster (LRC) member 1 Neighboring gene transmembrane channel-like gene family 4 Neighboring gene membrane bound O-acyltransferase domain containing 7

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Stability of mRNA influences osteoporotic bone mass via CNOT3. Watanabe C, et al. Proc Natl Acad Sci U S A, 2014 Feb 18. PMID 24550297, Free PMC Article
    2. Interaction of CCR4-NOT with EBF1 regulates gene-specific transcription and mRNA stability in B lymphopoiesis. Yang CY, et al. Genes Dev, 2016 Oct 15. PMID 27807034, Free PMC Article
    3. CNOT3 contributes to early B cell development by controlling Igh rearrangement and p53 mRNA stability. Inoue T, et al. J Exp Med, 2015 Aug 24. PMID 26238124, Free PMC Article
    4. CNOT3 interacts with the Aurora B and MAPK/ERK kinases to promote survival of differentiating mesendodermal progenitor cells. Sarkar M, et al. Mol Biol Cell, 2021 Dec 1. PMID 34613789, Free PMC Article
    5. Insufficient liver maturation affects murine early postnatal hair cycle. Suzuki T, et al. Biochem Biophys Res Commun, 2020 Jan 1. PMID 31630801

    See all (48) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. CNOT3 interacts with the Aurora B and MAPK/ERK kinases to promote survival of differentiating mesendodermal progenitor cells.
      Title: CNOT3 interacts with the Aurora B and MAPK/ERK kinases to promote survival of differentiating mesendodermal progenitor cells.
    2. Loss of beta-cell identity and diabetic phenotype in mice caused by disruption of CNOT3-dependent mRNA deadenylation.
      Title: Loss of β-cell identity and diabetic phenotype in mice caused by disruption of CNOT3-dependent mRNA deadenylation.
    3. Cnot3 plays a crucial role in liver functional maturation
      Title: Postnatal liver functional maturation requires Cnot complex-mediated decay of mRNAs encoding cell cycle and immature liver genes.
    4. Data indicate that autophagy-related protein 7 (Atg7) promotes cardiac dysfunction of CCR4-NOT complex component Cnot3 knockout (Cnot3 mKO) mice independently of the canonical autophagy pathway.
      Title: The CCR4-NOT deadenylase complex controls Atg7-dependent cell death and heart function.
    5. 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.
    6. Cnot3(ad-/-) mice exhibit lipodystrophy.
      Title: Adipocyte-specific disruption of mouse Cnot3 causes lipodystrophy.
    7. 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.
    8. 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.
    9. 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.
    10. 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.
    Submit: New GeneRIF Correction See all GeneRIFs (13)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (4)  1 citation

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC40675

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of cold-induced thermogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of stem cell population maintenance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of stem cell population maintenance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of stem cell population maintenance ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulatory ncRNA-mediated gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in trophectodermal cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCR4-NOT complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of CCR4-NOT core complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in 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)

    1. 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
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Related
      ENSMUSP00000039098.10, ENSMUST00000038913.16
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    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_000073.7 Reference GRCm39 C57BL/6J

      Range
      3646717..3664108
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036152919.1 → XP_036008812.1  CCR4-NOT transcription complex subunit 3 isoform X1

      Conserved Domains (2) summary
      COG5665
      Location:210 → 929
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:211 → 409
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    2. XM_036152920.1 → XP_036008813.1  CCR4-NOT transcription complex subunit 3 isoform X2

      Conserved Domains (2) summary
      COG5665
      Location:210 → 928
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:211 → 408
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    3. XM_036152921.1 → XP_036008814.1  CCR4-NOT transcription complex subunit 3 isoform X3

      Conserved Domains (2) summary
      COG5665
      Location:209 → 928
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:210 → 408
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    4. XM_036152922.1 → XP_036008815.1  CCR4-NOT transcription complex subunit 3 isoform X4

      Conserved Domains (3) summary
      pfam05109
      Location:477 → 744
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam04065
      Location:211 → 409
      Not3; Not1 N-terminal domain, CCR4-Not complex component
      cl02384
      Location:798 → 860
      NOT2_3_5; NOT2 / NOT3 / NOT5 family

    5. XM_006539756.5 → XP_006539819.1  CCR4-NOT transcription complex subunit 3 isoform X7

      See identical proteins and their annotated locations for XP_006539819.1

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    6. XM_030242409.2 → XP_030098269.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/Swiss-Prot
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    7. XM_036152924.1 → XP_036008817.1  CCR4-NOT transcription complex subunit 3 isoform X6

      Conserved Domains (2) summary
      COG5665
      Location:130 → 849
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:131 → 329
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    8. XM_006539752.5 → XP_006539815.1  CCR4-NOT transcription complex subunit 3 isoform X7

      See identical proteins and their annotated locations for XP_006539815.1

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    9. XM_036152927.1 → XP_036008820.1  CCR4-NOT transcription complex subunit 3 isoform X7

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    10. XM_036152930.1 → XP_036008823.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/Swiss-Prot
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    11. XM_006539753.5 → XP_006539816.1  CCR4-NOT transcription complex subunit 3 isoform X7

      See identical proteins and their annotated locations for XP_006539816.1

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    12. XM_030242407.2 → XP_030098267.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/Swiss-Prot
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    13. XM_017322146.3 → XP_017177635.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/Swiss-Prot
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    14. XM_036152928.1 → XP_036008821.1  CCR4-NOT transcription complex subunit 3 isoform X7

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    15. XM_006539755.5 → XP_006539818.1  CCR4-NOT transcription complex subunit 3 isoform X7

      See identical proteins and their annotated locations for XP_006539818.1

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    16. XM_036152923.1 → XP_036008816.1  CCR4-NOT transcription complex subunit 3 isoform X5

      Conserved Domains (2) summary
      COG5665
      Location:131 → 850
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:132 → 330
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    17. XM_030242406.2 → XP_030098266.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/Swiss-Prot
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    18. XM_036152926.1 → XP_036008819.1  CCR4-NOT transcription complex subunit 3 isoform X7

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    19. XM_030242408.2 → XP_030098268.1  CCR4-NOT transcription complex subunit 3 isoform X8

      UniProtKB/Swiss-Prot
      B2RUA7, Q8K0V4
      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 749
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 229
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    20. XM_036152931.1 → XP_036008824.1  CCR4-NOT transcription complex subunit 3 isoform X9

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (1) summary
      COG5665
      Location:1 → 663
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]

    21. XM_036152929.1 → XP_036008822.1  CCR4-NOT transcription complex subunit 3 isoform X7

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    22. XM_036152925.1 → XP_036008818.1  CCR4-NOT transcription complex subunit 3 isoform X7

      UniProtKB/TrEMBL
      Q6A015
      Conserved Domains (2) summary
      COG5665
      Location:12 → 750
      COG5665; CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
      pfam04065
      Location:3 → 230
      Not3; Not1 N-terminal domain, CCR4-Not complex component

    RNA

    1. XR_004934061.1 RNA Sequence

    2. XR_003946437.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K0V4.1 GenPept UniProtKB/Swiss-Prot:Q8K0V4

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