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    Cnot6l CCR4-NOT transcription complex, subunit 6-like [ Mus musculus (house mouse) ]

    Gene ID: 231464, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Cnot6lprovided by MGI
    Official Full Name
    CCR4-NOT transcription complex, subunit 6-likeprovided by MGI
    Primary source
    MGI:MGI:2443154
    See related
    Ensembl:ENSMUSG00000034724 AllianceGenome:MGI:2443154
    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
    4932442K20Rik
    Summary
    Enables poly(A)-specific ribonuclease activity. Acts upstream of or within nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay and positive regulation of cell population proliferation. Located in cytoplasm. Is expressed in several structures, including brain; genitourinary system; gut; hemolymphoid system gland; and musculature. Orthologous to human CNOT6L (CCR4-NOT transcription complex subunit 6 like). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 4.5), bladder adult (RPKM 3.7) and 27 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cnot6l in Genome Data Viewer
    Location:
    5 E3; 5 47.29 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (96218192..96312044, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (96070333..96164198, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene C-X-C motif chemokine ligand 13 Neighboring gene STARR-seq mESC enhancer starr_13673 Neighboring gene ornithine decarboxylase, structural 1 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:96589986-96590095 Neighboring gene STARR-positive B cell enhancer mm9_chr5:96592485-96592786 Neighboring gene STARR-positive B cell enhancer ABC_E2159 Neighboring gene STARR-positive B cell enhancer mm9_chr5:96638970-96639271 Neighboring gene STARR-positive B cell enhancer ABC_E10331 Neighboring gene STARR-positive B cell enhancer ABC_E6348 Neighboring gene STARR-seq mESC enhancer starr_13674 Neighboring gene STARR-seq mESC enhancer starr_13675 Neighboring gene mitochondrial ribosomal protein L1 Neighboring gene Fraser extracellular matrix complex subunit 1 Neighboring gene predicted gene, 33050

    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. Role of Cnot6l in maternal mRNA turnover. Horvat F, et al. Life Sci Alliance, 2018 Aug. PMID 30456367, Free PMC Article
    2. High expression of CNOT6L contributes to the negative development of type 2 diabetes. Zhang Y, et al. Sci Rep, 2024 Oct 21. PMID 39433858, Free PMC Article
    3. 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
    4. Loss of Cnot6l Impairs Inosine RNA Modifications in Mouse Oocytes. Brachova P, et al. Int J Mol Sci, 2021 Jan 26. PMID 33530472, Free PMC Article
    5. A combinatorial code for mRNA 3'-UTR-mediated translational control in the mouse oocyte. Dai XX, et al. Nucleic Acids Res, 2019 Jan 10. PMID 30335155, Free PMC Article

    See all (44) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. High expression of CNOT6L contributes to the negative development of type 2 diabetes.
      Title: High expression of CNOT6L contributes to the negative development of type 2 diabetes.
    2. Deadenylase-dependent mRNA decay of GDF15 and FGF21 orchestrates food intake and energy expenditure.
      Title: Deadenylase-dependent mRNA decay of GDF15 and FGF21 orchestrates food intake and energy expenditure.
    3. CNOT6/6L-mediated mRNA degradation in ovarian granulosa cells is a key mechanism of gonadotropin-triggered follicle development.
      Title: CNOT6/6L-mediated mRNA degradation in ovarian granulosa cells is a key mechanism of gonadotropin-triggered follicle development.
    4. FUS driven circCNOT6L biogenesis in mouse and human spermatozoa supports zygote development.
      Title: FUS driven circCNOT6L biogenesis in mouse and human spermatozoa supports zygote development.
    5. Loss of Cnot6l Impairs Inosine RNA Modifications in Mouse Oocytes.
      Title: Loss of Cnot6l Impairs Inosine RNA Modifications in Mouse Oocytes.
    6. This study provides the first direct genetic evidence that CCR4-NOT-dependent and particularly CNOT6L-dependent decay of selective maternal mRNAs is a prerequisite for meiotic maturation of oocytes.
      Title: CNOT6L couples the selective degradation of maternal transcripts to meiotic cell cycle progression in mouse oocyte.
    7. Using the 3'-UTRs of mouse Cpeb1, Btg4 and Cnot6l mRNAs, we deciphered the combinatorial code that controls developmental stage-specific translation during meiotic maturation
      Title: A combinatorial code for mRNA 3'-UTR-mediated translational control in the mouse oocyte.
    8. This initial screen isolated two potential Emx2-binding partner proteins, Cnot6l and QkI-7. These novel Emx2-binding proteins are involved in multiple levels of mRNA metabolism that including splicing, mRNA export, translation, and destruction
      Title: Identification of Novel Binding Partners for Transcription Factor Emx2.
    9. CCR4b may be involved in various cellular events that include cell proliferation.
      Title: Depletion of mammalian CCR4b deadenylase triggers elevation of the p27Kip1 mRNA level and impairs cell growth.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC29037, DKFZp434K098

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables 3'-5'-RNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables poly(A)-specific ribonuclease activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables poly(A)-specific ribonuclease activity TAS
    Traceable Author Statement
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within mRNA destabilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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
    		  
    involved_in positive regulation of cytoplasmic mRNA processing body assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulatory ncRNA-mediated gene silencing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of CCR4-NOT complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of CCR4-NOT complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    CCR4-NOT transcription complex subunit 6-like
    NP_001272440.1
    NP_001272443.1
    NP_659159.1
    NP_849185.2
    XP_006534933.1
    XP_006534934.1
    XP_006534935.1
    XP_030110258.1
    XP_030110259.1

    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_001285511.1 → NP_001272440.1  CCR4-NOT transcription complex subunit 6-like isoform 1

      See identical proteins and their annotated locations for NP_001272440.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and the 5' coding region and initiates translation at a downstream start codon, compared to variant 2. Variants 1 and 3 encode the same isoform (1), which is shorter and has a distinct N-terminus, compared to isoform 2.
      Source sequence(s)
      AC129600, AK030112, AK151728
      Consensus CDS
      CCDS19448.1
      UniProtKB/Swiss-Prot
      Q8VEG6
      Conserved Domains (3) summary
      cd10312
      Location:186 → 533
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:52 → 178
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:33 → 52
      LRR_1; leucine-rich repeat [structural motif]

    2. NM_001285514.1 → NP_001272443.1  CCR4-NOT transcription complex subunit 6-like isoform 3

      See identical proteins and their annotated locations for NP_001272443.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate splice site in the 5' coding region and initiates translation at a downstream start codon, compared to variant 2. It encodes isoform 3, which is shorter at the N-terminus, compared to isoform 2.
      Source sequence(s)
      AC129600, AK030112, AK151728
      UniProtKB/Swiss-Prot
      Q8VEG6
      Conserved Domains (2) summary
      cd10312
      Location:91 → 438
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:3 → 83
      LRR; Leucine-rich repeat (LRR) protein [Transcription]

    3. NM_144910.2 → NP_659159.1  CCR4-NOT transcription complex subunit 6-like isoform 1

      See identical proteins and their annotated locations for NP_659159.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and the 5' coding region and initiates translation at a downstream start codon, compared to variant 2. Variants 1 and 3 encode the same isoform (1), which is shorter and has a distinct N-terminus, compared to isoform 2.
      Source sequence(s)
      AC129600, AK030112, AK151728, BC018506, CF173938
      Consensus CDS
      CCDS19448.1
      UniProtKB/Swiss-Prot
      Q8VEG6
      Related
      ENSMUSP00000119415.2, ENSMUST00000155901.8
      Conserved Domains (3) summary
      cd10312
      Location:186 → 533
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:52 → 178
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:33 → 52
      LRR_1; leucine-rich repeat [structural motif]

    4. NM_178854.4 → NP_849185.2  CCR4-NOT transcription complex subunit 6-like isoform 2

      See identical proteins and their annotated locations for NP_849185.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) encodes the longest isoform (2).
      Source sequence(s)
      AC129600, AK030112, AK151728
      Consensus CDS
      CCDS51566.1
      UniProtKB/Swiss-Prot
      Q3U9M0, Q8C0P4, Q8VEG6
      Related
      ENSMUSP00000108629.3, ENSMUST00000113005.9
      Conserved Domains (3) summary
      cd10312
      Location:191 → 538
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:57 → 183
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:38 → 57
      LRR_1; leucine-rich repeat [structural motif]

    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_000071.7 Reference GRCm39 C57BL/6J

      Range
      96218192..96312044 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006534870.5 → XP_006534933.1  CCR4-NOT transcription complex subunit 6-like isoform X1

      See identical proteins and their annotated locations for XP_006534933.1

      UniProtKB/Swiss-Prot
      Q8VEG6
      Conserved Domains (3) summary
      cd10312
      Location:186 → 533
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:52 → 178
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:33 → 52
      LRR_1; leucine-rich repeat [structural motif]

    2. XM_030254398.1 → XP_030110258.1  CCR4-NOT transcription complex subunit 6-like isoform X2

      Conserved Domains (2) summary
      cd10312
      Location:91 → 438
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:3 → 83
      LRR; Leucine-rich repeat (LRR) protein [Transcription]

    3. XM_006534871.3 → XP_006534934.1  CCR4-NOT transcription complex subunit 6-like isoform X1

      See identical proteins and their annotated locations for XP_006534934.1

      UniProtKB/Swiss-Prot
      Q8VEG6
      Conserved Domains (3) summary
      cd10312
      Location:186 → 533
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:52 → 178
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:33 → 52
      LRR_1; leucine-rich repeat [structural motif]

    4. XM_030254399.2 → XP_030110259.1  CCR4-NOT transcription complex subunit 6-like isoform X2

      Conserved Domains (2) summary
      cd10312
      Location:91 → 438
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
      COG4886
      Location:3 → 83
      LRR; Leucine-rich repeat (LRR) protein [Transcription]

    5. XM_006534872.4 → XP_006534935.1  CCR4-NOT transcription complex subunit 6-like isoform X3

      Conserved Domains (1) summary
      cd10312
      Location:50 → 397
      Deadenylase_CCR4b; C-terminal deadenylase domain of CCR4b, also known as CCR4-NOT transcription complex subunit 6-like
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8VEG6.2 GenPept UniProtKB/Swiss-Prot:Q8VEG6

    Gene LinkOut

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