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    Cnot4 CCR4-NOT transcription complex, subunit 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 312227, updated on 27-Dec-2024

    Summary

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    Official Symbol
    Cnot4provided by RGD
    Official Full Name
    CCR4-NOT transcription complex, subunit 4provided by RGD
    Primary source
    RGD:1310318
    See related
    EnsemblRapid:ENSRNOG00000010795 AllianceGenome:RGD:1310318
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable ubiquitin-protein transferase activity. Predicted to be involved in protein autoubiquitination; regulation of megakaryocyte differentiation; and ubiquitin-dependent protein catabolic process. Predicted to be located in nucleus. Predicted to be part of CCR4-NOT complex. Orthologous to human CNOT4 (CCR4-NOT transcription complex subunit 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 113.0), Lung (RPKM 92.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Cnot4 in Genome Data Viewer
    Location:
    4q22
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (64679903..64781432, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (63712770..63814355, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (62561443..62663225, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene stimulated by retinoic acid 8 Neighboring gene uncharacterized LOC103692099 Neighboring gene solute carrier family 23 member 4 Neighboring gene uncharacterized LOC102553126 Neighboring gene nucleoporin 205 Neighboring gene large ribosomal subunit protein eL38-like

    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. Cross-talk between PRMT1-mediated methylation and ubiquitylation on RBM15 controls RNA splicing. Zhang L, et al. Elife, 2015 Nov 17. PMID 26575292, Free PMC Article
    2. An altered-specificity ubiquitin-conjugating enzyme/ubiquitin-protein ligase pair. Winkler GS, et al. J Mol Biol, 2004 Mar 12. PMID 15001359
    3. Human Ccr4-Not complexes contain variable deadenylase subunits. Lau NC, et al. Biochem J, 2009 Aug 27. PMID 19558367
    4. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC114505

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-protein transferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein autoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of megakaryocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    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
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    CCR4-NOT transcription complex subunit 4
    NP_001032871.1
    XP_006236333.1
    XP_006236334.1
    XP_006236335.2
    XP_006236336.2
    XP_063142060.1
    XP_063142061.1
    XP_063142062.1
    XP_063142063.1
    XP_063142064.1
    XP_063142065.1
    XP_063142066.1

    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_001037782.1 → NP_001032871.1  CCR4-NOT transcription complex subunit 4

      See identical proteins and their annotated locations for NP_001032871.1

      Status: PROVISIONAL

      Source sequence(s)
      BC100152
      UniProtKB/TrEMBL
      F1MAD6, Q498M7
      Conserved Domains (3) summary
      COG5175
      Location:14 → 319
      MOT2; Transcriptional repressor [Transcription]
      cd12438
      Location:104 → 201
      RRM_CNOT4; RNA recognition motif in Eukaryotic CCR4-NOT transcription complex subunit 4 (NOT4) and similar proteins
      pfam14570
      Location:14 → 60
      zf-RING_4; RING/Ubox like zinc-binding domain

    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_086022.1 Reference GRCr8

      Range
      64679903..64781432 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063285993.1 → XP_063142063.1  CCR4-NOT transcription complex subunit 4 isoform X5

    2. XM_006236271.5 → XP_006236333.1  CCR4-NOT transcription complex subunit 4 isoform X3

      Conserved Domains (3) summary
      COG5175
      Location:14 → 319
      MOT2; Transcriptional repressor [Transcription]
      cd12438
      Location:104 → 201
      RRM_CNOT4; RNA recognition motif in Eukaryotic CCR4-NOT transcription complex subunit 4 (NOT4) and similar proteins
      pfam14570
      Location:14 → 60
      zf-RING_4; RING/Ubox like zinc-binding domain

    3. XM_063285992.1 → XP_063142062.1  CCR4-NOT transcription complex subunit 4 isoform X4

    4. XM_006236272.5 → XP_006236334.1  CCR4-NOT transcription complex subunit 4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AGK1
      Related
      ENSRNOP00000087439.1, ENSRNOT00000107953.2
      Conserved Domains (3) summary
      COG5175
      Location:14 → 322
      MOT2; Transcriptional repressor [Transcription]
      cd12438
      Location:104 → 201
      RRM_CNOT4; RNA recognition motif in Eukaryotic CCR4-NOT transcription complex subunit 4 (NOT4) and similar proteins
      pfam14570
      Location:14 → 60
      zf-RING_4; RING/Ubox like zinc-binding domain

    5. XM_063285990.1 → XP_063142060.1  CCR4-NOT transcription complex subunit 4 isoform X1

      Related
      ENSRNOP00000046140.5, ENSRNOT00000040969.6

    6. XM_063285991.1 → XP_063142061.1  CCR4-NOT transcription complex subunit 4 isoform X1

    7. XM_063285996.1 → XP_063142066.1  CCR4-NOT transcription complex subunit 4 isoform X8

    8. XM_006236273.5 → XP_006236335.2  CCR4-NOT transcription complex subunit 4 isoform X7

      Conserved Domains (1) summary
      COG5175
      Location:14 → 319
      MOT2; Transcriptional repressor [Transcription]

    9. XM_006236274.5 → XP_006236336.2  CCR4-NOT transcription complex subunit 4 isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZNZ5, A6IEN7
      Related
      ENSRNOP00000079631.1, ENSRNOT00000097685.2
      Conserved Domains (1) summary
      COG5175
      Location:14 → 322
      MOT2; Transcriptional repressor [Transcription]

    10. XM_063285995.1 → XP_063142065.1  CCR4-NOT transcription complex subunit 4 isoform X7

    11. XM_063285994.1 → XP_063142064.1  CCR4-NOT transcription complex subunit 4 isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZNZ5, A6IEN7
    Nucleotide Protein Strain
    Heading Accession and Version

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