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    Cnot6l CCR4-NOT transcription complex, subunit 6-like [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360917, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Cnot6lprovided by RGD
    Official Full Name
    CCR4-NOT transcription complex, subunit 6-likeprovided by RGD
    Primary source
    RGD:1309128
    See related
    Ensembl:ENSRNOG00000002075 AllianceGenome:RGD:1309128
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable poly(A)-specific ribonuclease activity. Predicted to be involved in nuclear-transcribed mRNA poly(A) tail shortening and positive regulation of cytoplasmic mRNA processing body assembly. Predicted to act upstream of or within nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay and positive regulation of cell population proliferation. Predicted to be located in cytosol. Predicted to be part of CCR4-NOT complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human CNOT6L (CCR4-NOT transcription complex subunit 6 like). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 122.5), Lung (RPKM 120.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cnot6l in Genome Data Viewer
    Location:
    14p22
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (13714475..13806481)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (13410499..13502511)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (15059101..15148255)

    Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120096573 Neighboring gene mitochondrial ribosomal protein L1 Neighboring gene U2 spliceosomal RNA Neighboring gene C-X-C motif chemokine ligand 13 Neighboring gene PRAME family member 20, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. The Ccr4a (CNOT6) and Ccr4b (CNOT6L) deadenylase subunits of the human Ccr4-Not complex contribute to the prevention of cell death and senescence. Mittal S, et al. Mol Biol Cell, 2011 Mar 15. PMID 21233283, Free PMC Article
    2. RNA decay machines: deadenylation by the Ccr4-not and Pan2-Pan3 complexes. Wahle E, et al. Biochim Biophys Acta, 2013 Jun-Jul. PMID 23337855
    3. Depletion of mammalian CCR4b deadenylase triggers elevation of the p27Kip1 mRNA level and impairs cell growth. Morita M, et al. Mol Cell Biol, 2007 Jul. PMID 17452450, Free PMC Article
    4. Human Ccr4-Not complexes contain variable deadenylase subunits. Lau NC, et al. Biochem J, 2009 Aug 27. PMID 19558367
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding 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
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within mRNA destabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nuclear-transcribed mRNA catabolic process, deadenylation-dependent 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
    		  
    acts_upstream_of_or_within positive regulation of cell population proliferation 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
    		  
    involved_in 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 cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    CCR4-NOT transcription complex subunit 6-like
    NP_001101825.1
    NP_001401900.1
    NP_001402023.1
    XP_006250770.1
    XP_038948089.1
    XP_038948090.1
    XP_038948092.1
    XP_063129404.1

    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_001108355.3 → NP_001101825.1  CCR4-NOT transcription complex subunit 6-like isoform 1

      See identical proteins and their annotated locations for NP_001101825.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000014
      UniProtKB/TrEMBL
      A0A8I6A149, A6K672, F1M642
      Related
      ENSRNOP00000002843.5, ENSRNOT00000002843.6
      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_001414971.2 → NP_001401900.1  CCR4-NOT transcription complex subunit 6-like isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000014

    3. NM_001415094.2 → NP_001402023.1  CCR4-NOT transcription complex subunit 6-like isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000014
      UniProtKB/TrEMBL
      A6K672, F1M642

    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

    1. NC_086032.1 Reference GRCr8

      Range
      13714475..13806481
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039092162.2 → XP_038948090.1  CCR4-NOT transcription complex subunit 6-like isoform X2

      UniProtKB/TrEMBL
      A0A8I6A149, A6K672, F1M642
      Related
      ENSRNOP00000085884.1
      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_006250708.5 → XP_006250770.1  CCR4-NOT transcription complex subunit 6-like isoform X1

      See identical proteins and their annotated locations for XP_006250770.1

      UniProtKB/TrEMBL
      A0A8I6A149
      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]

    3. XM_039092161.2 → XP_038948089.1  CCR4-NOT transcription complex subunit 6-like isoform X2

      UniProtKB/TrEMBL
      A0A8I6A149, A6K672, F1M642
      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_063273334.1 → XP_063129404.1  CCR4-NOT transcription complex subunit 6-like isoform X2

      UniProtKB/TrEMBL
      A6K672, F1M642

    5. XM_039092164.2 → XP_038948092.1  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

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