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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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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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