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Cnot4 CCR4-NOT transcription complex, subunit 4 [ Mus musculus (house mouse) ]

Gene ID: 53621, updated on 2-Nov-2024

Summary

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Official Symbol
Cnot4provided by MGI
Official Full Name
CCR4-NOT transcription complex, subunit 4provided by MGI
Primary source
MGI:MGI:1859026
See related
Ensembl:ENSMUSG00000038784 AllianceGenome:MGI:1859026
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
Not4; Not4h; Not4hp
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 cytosol. Predicted to be part of CCR4-NOT complex. Is expressed in several structures, including central nervous system; genitourinary system; neural retina; and olfactory epithelium. Orthologous to human CNOT4 (CCR4-NOT transcription complex subunit 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in testis adult (RPKM 3.6), cerebellum adult (RPKM 1.6) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Cnot4 in Genome Data Viewer
Location:
6 B1; 6 15.2 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (34999000..35110646, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (35022065..35133754, complement)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:34902551-34902660 Neighboring gene stimulated by retinoic acid gene 8 Neighboring gene solute carrier family 23 member 4 Neighboring gene STARR-seq mESC enhancer starr_15552 Neighboring gene STARR-positive B cell enhancer ABC_E2779 Neighboring gene predicted gene, 33046 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:35141265-35141448 Neighboring gene nucleoporin 205 Neighboring gene STARR-seq mESC enhancer starr_15553 Neighboring gene STARR-seq mESC enhancer starr_15554 Neighboring gene predicted gene, 23435 Neighboring gene short transmembrane mitochondrial protein 1

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 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The CNOT4 Subunit of the CCR4-NOT Complex is Involved in mRNA Degradation, Efficient DNA Damage Repair, and XY Chromosome Crossover during Male Germ Cell Meiosis.
    Title: The CNOT4 Subunit of the CCR4-NOT Complex is Involved in mRNA Degradation, Efficient DNA Damage Repair, and XY Chromosome Crossover during Male Germ Cell Meiosis.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (4)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

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
  
enables ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
Process Evidence Code Pubs
involved_in protein autoubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in protein autoubiquitination ISS
Inferred from Sequence or Structural Similarity
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 regulation of megakaryocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in ubiquitin-dependent protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
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
  
part_of CCR4-NOT complex ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytosol TAS
Traceable Author Statement
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
Names
CCR4-associated factor 4
E3 ubiquitin-protein ligase CNOT4
RING-type E3 ubiquitin transferase CNOT4
negative regulator of transcription 4
potential transcriptional repressor NOT4Hp
transcriptional repressor NOT4Hp
NP_001157883.1
NP_001157884.1
NP_001157885.1
NP_001157886.1
NP_001397611.1
NP_001397612.1
NP_001397613.1
NP_001397614.1
NP_001397615.1
NP_058573.3

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_001164411.2 → NP_001157883.1  CCR4-NOT transcription complex subunit 4 isoform 3

    See identical proteins and their annotated locations for NP_001157883.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and coding region, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC140110
    Consensus CDS
    CCDS80520.1
    UniProtKB/TrEMBL
    Q3TMD4
    Related
    ENSMUSP00000144409.2, ENSMUST00000202417.2
    Conserved Domains (1) summary
    COG5175
    Location:14 → 319
    MOT2; Transcriptional repressor [Transcription]

  2. NM_001164412.2 → NP_001157884.1  CCR4-NOT transcription complex subunit 4 isoform 4

    See identical proteins and their annotated locations for NP_001157884.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks an in-frame exon in the 3' coding region, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
    Source sequence(s)
    AC140110
    Consensus CDS
    CCDS80519.1
    UniProtKB/TrEMBL
    Q05BG1
    Related
    ENSMUSP00000144352.2, ENSMUST00000202143.4
    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. NM_001164413.2 → NP_001157885.1  CCR4-NOT transcription complex subunit 4 isoform 1

    See identical proteins and their annotated locations for NP_001157885.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AC140110
    Consensus CDS
    CCDS51747.1
    UniProtKB/TrEMBL
    A0A0R4J1K1
    Related
    ENSMUSP00000110645.3, ENSMUST00000114993.9
    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

  4. NM_001164414.2 → NP_001157886.1  CCR4-NOT transcription complex subunit 4 isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) has multiple differences, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
    Source sequence(s)
    AC140110
    Consensus CDS
    CCDS51746.1
    UniProtKB/TrEMBL
    E9QA19
    Related
    ENSMUSP00000110640.3, ENSMUST00000114989.9
    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. NM_001410682.1 → NP_001397611.1  CCR4-NOT transcription complex subunit 4 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC140110
    UniProtKB/Swiss-Prot
    Q8BT14, Q8CCR4, Q9CV74, Q9Z1D0

  6. NM_001410683.1 → NP_001397612.1  CCR4-NOT transcription complex subunit 4 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC140110
    UniProtKB/TrEMBL
    Q3TMD4

  7. NM_001410684.1 → NP_001397613.1  CCR4-NOT transcription complex subunit 4 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC140110

  8. NM_001410685.1 → NP_001397614.1  CCR4-NOT transcription complex subunit 4 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC140110

  9. NM_001410686.1 → NP_001397615.1  CCR4-NOT transcription complex subunit 4 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC140110

  10. NM_016877.5 → NP_058573.3  CCR4-NOT transcription complex subunit 4 isoform 2

    See identical proteins and their annotated locations for NP_058573.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has multiple differences, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AC140110
    Consensus CDS
    CCDS19999.1
    UniProtKB/Swiss-Prot
    Q8BT14, Q8CCR4, Q9CV74, Q9Z1D0
    Related
    ENSMUSP00000044137.7, ENSMUST00000044163.10
    Conserved Domains (2) summary
    COG5175
    Location:14 → 322
    MOT2; Transcriptional repressor [Transcription]
    pfam08580
    Location:273 → 478
    KAR9; Yeast cortical protein KAR9

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_000072.7 Reference GRCm39 C57BL/6J

    Range
    34999000..35110646 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BT14.2 GenPept UniProtKB/Swiss-Prot:Q8BT14

Gene LinkOut

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