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    Cnot6 CCR4-NOT transcription complex, subunit 6 [ Mus musculus (house mouse) ]

    Gene ID: 104625, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Cnot6provided by MGI
    Official Full Name
    CCR4-NOT transcription complex, subunit 6provided by MGI
    Primary source
    MGI:MGI:2144529
    See related
    Ensembl:ENSMUSG00000020362 AllianceGenome:MGI:2144529
    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
    CCR4
    Summary
    Predicted to enable nuclear receptor coactivator activity and poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process; positive regulation of cell population proliferation; and positive regulation of cytoplasmic mRNA processing body assembly. Predicted to act upstream of or within gene silencing by RNA and regulation of translation. Predicted to be part of CCR4-NOT complex. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; genitourinary system; nervous system; respiratory system; and sensory organ. Orthologous to human CNOT6 (CCR4-NOT transcription complex subunit 6). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in CNS E11.5 (RPKM 21.1), limb E14.5 (RPKM 17.5) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    11 B1.2; 11 29.76 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (49562324..49604227, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (49671497..49713401, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene FMS-like tyrosine kinase 4 Neighboring gene STARR-seq mESC enhancer starr_29379 Neighboring gene secretoglobin, family 3A, member 1 Neighboring gene ribosomal protein L30 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E9822 Neighboring gene predicted gene 12192 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:49538288-49538489 Neighboring gene predicted gene, 36411 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:49578193-49578302 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:49585761-49585914 Neighboring gene STARR-seq mESC enhancer starr_29382 Neighboring gene predicted gene, 36507 Neighboring gene glutamine fructose-6-phosphate transaminase 2 Neighboring gene STARR-seq mESC enhancer starr_29384

    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. CNOT6 regulates a novel pattern of mRNA deadenylation during oocyte meiotic maturation. Vieux KF, et al. Sci Rep, 2018 May 1. PMID 29717177, Free PMC Article
    2. CNOT6/6L-mediated mRNA degradation in ovarian granulosa cells is a key mechanism of gonadotropin-triggered follicle development. Dai XX, et al. Cell Rep, 2021 Nov 16. PMID 34788619
    3. CNOT6L couples the selective degradation of maternal transcripts to meiotic cell cycle progression in mouse oocyte. Sha QQ, et al. EMBO J, 2018 Dec 14. PMID 30478191, Free PMC Article
    4. Cnot8 eliminates naïve regulation networks and is essential for naïve-to-formative pluripotency transition. Quan Y, et al. Nucleic Acids Res, 2022 May 6. PMID 35390160, Free PMC Article
    5. Essential functions of the CNOT7/8 catalytic subunits of the CCR4-NOT complex in mRNA regulation and cell viability. Mostafa D, et al. RNA Biol, 2020 Mar. PMID 31924127, Free PMC Article

    See all (38) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC98472, A230103N10Rik

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables catalytic activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nuclear receptor coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables nuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables poly(A)-specific ribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables poly(A)-specific ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables poly(A)-specific ribonuclease activity TAS
    Traceable Author Statement
    more info
    		  
    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA catabolic process, no-go decay ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA poly(A) tail shortening ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cytoplasmic mRNA processing body assembly 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
    		  
    Component Evidence Code Pubs
    part_of CCR4-NOT complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of CCR4-NOT complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    CCR4-NOT transcription complex subunit 6
    Names
    carbon catabolite repressor protein 4 homolog
    cytoplasmic deadenylase
    NP_001277670.1
    NP_001350285.1
    NP_001350286.1
    NP_997649.1
    XP_006532004.1
    XP_006532005.1
    XP_017169703.1
    XP_036012101.1
    XP_036012102.1

    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_001290741.2 → NP_001277670.1  CCR4-NOT transcription complex subunit 6 isoform 1

      See identical proteins and their annotated locations for NP_001277670.1

      Status: VALIDATED

      Source sequence(s)
      AK039164, AL606479, BB402523, BC062950, CF746424
      Consensus CDS
      CCDS70172.1
      UniProtKB/Swiss-Prot
      Q5NCL3, Q80V15, Q8K3P5
      Related
      ENSMUSP00000121239.2, ENSMUST00000145353.8
      Conserved Domains (3) summary
      cd10313
      Location:191 → 540
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      COG4886
      Location:52 → 159
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]

    2. NM_001363356.1 → NP_001350285.1  CCR4-NOT transcription complex subunit 6 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AL606479
      Conserved Domains (3) summary
      cd10313
      Location:191 → 540
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      COG4886
      Location:52 → 158
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]

    3. NM_001363357.1 → NP_001350286.1  CCR4-NOT transcription complex subunit 6 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AL606479
      Conserved Domains (3) summary
      cd10313
      Location:91 → 440
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      sd00031
      Location:4 → 26
      LRR_1; leucine-rich repeat [structural motif]
      pfam12799
      Location:3 → 44
      LRR_4; Leucine Rich repeats (2 copies)

    4. NM_212484.2 → NP_997649.1  CCR4-NOT transcription complex subunit 6 isoform 2

      See identical proteins and their annotated locations for NP_997649.1

      Status: VALIDATED

      Source sequence(s)
      AK039164, BB402523, BC062950, BY741392
      Consensus CDS
      CCDS24621.1
      UniProtKB/Swiss-Prot
      Q8K3P5
      Related
      ENSMUSP00000020624.7, ENSMUST00000020624.7
      Conserved Domains (3) summary
      COG4886
      Location:52 → 158
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]
      cl00490
      Location:186 → 535
      EEP; Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      49562324..49604227 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006531942.3 → XP_006532005.1  CCR4-NOT transcription complex subunit 6 isoform X1

      See identical proteins and their annotated locations for XP_006532005.1

      UniProtKB/Swiss-Prot
      Q5NCL3, Q80V15, Q8K3P5
      Conserved Domains (3) summary
      cd10313
      Location:191 → 540
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      COG4886
      Location:52 → 159
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]

    2. XM_017314214.3 → XP_017169703.1  CCR4-NOT transcription complex subunit 6 isoform X3

      Conserved Domains (3) summary
      cd10313
      Location:96 → 445
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      sd00031
      Location:4 → 26
      LRR_1; leucine-rich repeat [structural motif]
      pfam12799
      Location:3 → 44
      LRR_4; Leucine Rich repeats (2 copies)

    3. XM_036156209.1 → XP_036012102.1  CCR4-NOT transcription complex subunit 6 isoform X2

      Conserved Domains (3) summary
      COG4886
      Location:52 → 158
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]
      cl00490
      Location:186 → 535
      EEP; Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily

    4. XM_006531941.5 → XP_006532004.1  CCR4-NOT transcription complex subunit 6 isoform X1

      See identical proteins and their annotated locations for XP_006532004.1

      UniProtKB/Swiss-Prot
      Q5NCL3, Q80V15, Q8K3P5
      Conserved Domains (3) summary
      cd10313
      Location:191 → 540
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      COG4886
      Location:52 → 159
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]

    5. XM_036156208.1 → XP_036012101.1  CCR4-NOT transcription complex subunit 6 isoform X1

      UniProtKB/Swiss-Prot
      Q5NCL3, Q80V15, Q8K3P5
      Conserved Domains (3) summary
      cd10313
      Location:191 → 540
      Deadenylase_CCR4a; C-terminal deadenylase domain of CCR4a, also known as CCR4-NOT transcription complex subunit 6
      COG4886
      Location:52 → 159
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:53 → 75
      LRR_1; leucine-rich repeat [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K3P5.2 GenPept UniProtKB/Swiss-Prot:Q8K3P5

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