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Aliases for CNOT6 Gene

Aliases for CNOT6 Gene

  • CCR4-NOT Transcription Complex Subunit 6 2 3 3 5
  • Carbon Catabolite Repressor Protein 4 Homolog 3 4
  • Cytoplasmic Deadenylase 3 4
  • CCR4 3 4
  • CCR4-NOT Transcription Complex, Subunit 6 2
  • CCR4 Carbon Catabolite Repression 4-Like 4
  • Carbon Catabolite Repression 4 Protein 3
  • EC 3.1.13.4 4
  • KIAA1194 4
  • Ccr4a 3
  • CCR4a 4

External Ids for CNOT6 Gene

Previous GeneCards Identifiers for CNOT6 Gene

  • GC00U990842
  • GC05P179855
  • GC05P179856
  • GC05P179921
  • GC05P174644

Summaries for CNOT6 Gene

Entrez Gene Summary for CNOT6 Gene

  • This gene encodes the catalytic component of the CCR4-NOT core transcriptional regulation complex. The encoded protein has a 3'-5' RNase activity and prefers polyadenylated substrates. The CCR4-NOT complex plays a role in many cellular processes, including miRNA-mediated repression, mRNA degradation, and transcriptional regulation. [provided by RefSeq, Dec 2014]

GeneCards Summary for CNOT6 Gene

CNOT6 (CCR4-NOT Transcription Complex Subunit 6) is a Protein Coding gene. Among its related pathways are Gene Expression and Translational Control. Gene Ontology (GO) annotations related to this gene include RNA binding and poly(A)-specific ribonuclease activity. An important paralog of this gene is CNOT6L.

UniProtKB/Swiss-Prot for CNOT6 Gene

  • Poly(A) nuclease with 3-5 RNase activity. Catalytic component of the CCR4-NOT complex which is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation. Additional complex functions may be a consequence of its influence on mRNA expression. Involved in mRNA decay mediated by the major-protein-coding determinant of instability (mCRD) of the FOS gene in the cytoplasm. In the presence of ZNF335, enhances ligand-dependent transcriptional activity of nuclear hormone receptors, including RARA. The increase of ligand-dependent ESR1-mediated transcription is much smaller, if any. Mediates cell proliferation and cell survival and prevents cellular senescence.

Gene Wiki entry for CNOT6 Gene

Additional gene information for CNOT6 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNOT6 Gene

Genomics for CNOT6 Gene

GeneHancer (GH) Regulatory Elements for CNOT6 Gene

Promoters and enhancers for CNOT6 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J180493 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 661.5 +1.0 993 4.2 HDGF PKNOX1 CLOCK FOXA2 SMAD1 ARNT ARID4B SIN3A YBX1 ZNF2 CNOT6 HNRNPH1 MAML1 MRNIP ENSG00000233937 TRIM52 ZFP62 RUFY1 RACK1 LOC100420514
GH05J180467 Promoter 0.9 EPDnew 661.8 -27.2 -27159 0.1 SMARCA5 KLF1 MAX ZMYM3 ZNF623 SP1 ZNF217 GATA3 POLR2A ZNF143 CNOT6 LOC102725231
GH05J180512 Promoter 0.5 EPDnew 650.4 +18.1 18072 0.1 CNOT6 LOC100329129
GH05J180859 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 50.7 +366.7 366652 2.4 FOXA2 PKNOX1 CLOCK ARID4B NEUROD1 SIN3A DMAP1 ZNF2 ZBTB7B YY1 ZFP62 ENSG00000233937 CNOT6 TRIM52 MRNIP SNORD96A GFPT2 LINC00847 GC05P181084
GH05J181221 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE dbSUPER 42.5 +728.9 728879 4.4 CLOCK ZFP64 YBX1 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 PIR33457 TRK-CTT2-3 TRV-CAC1-5 TRIM41 PIR62653 MIR4638 ENSG00000233937 TRIM52 RACK1 CNOT6
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CNOT6 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CNOT6 gene promoter:
  • FOXF2
  • RORalpha1
  • Hand1
  • E47
  • AP-2rep
  • FOXJ2 (long isoform)
  • FOXJ2
  • FOXO1a
  • FOXO1
  • AP-4

Genomic Locations for CNOT6 Gene

Genomic Locations for CNOT6 Gene
chr5:180,494,373-180,578,405
(GRCh38/hg38)
Size:
84,033 bases
Orientation:
Plus strand
chr5:179,921,412-180,005,405
(GRCh37/hg19)
Size:
83,994 bases
Orientation:
Plus strand

Genomic View for CNOT6 Gene

Genes around CNOT6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CNOT6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CNOT6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CNOT6 Gene

Proteins for CNOT6 Gene

  • Protein details for CNOT6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9ULM6-CNOT6_HUMAN
    Recommended name:
    CCR4-NOT transcription complex subunit 6
    Protein Accession:
    Q9ULM6
    Secondary Accessions:
    • A7MD46
    • D3DWR0

    Protein attributes for CNOT6 Gene

    Size:
    557 amino acids
    Molecular mass:
    63307 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Component of the CCR4-NOT complex; distinct complexes seem to exist that differ in the participation of probably mutually exclusive catalytic subunits; the complex contains two deadenylase subunits, CNOT6 or CNOT6L, and CNOT7 or CNOT8 (PubMed:19558367). Interacts with CNOT7 and CNOT8 (PubMed:11747467). Interacts with UNR (PubMed:15314026). Interacts with ZFP36L1 (via N-terminus) (PubMed:15687258). Interacts with ZNF335 (PubMed:18180299).

neXtProt entry for CNOT6 Gene

Post-translational modifications for CNOT6 Gene

  • Ubiquitination at Lys128
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Abcam antibodies for CNOT6
  • Boster Bio Antibodies for CNOT6

No data available for DME Specific Peptides for CNOT6 Gene

Domains & Families for CNOT6 Gene

Gene Families for CNOT6 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for CNOT6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9ULM6

UniProtKB/Swiss-Prot:

CNOT6_HUMAN :
  • Belongs to the CCR4/nocturin family.
Family:
  • Belongs to the CCR4/nocturin family.
genes like me logo Genes that share domains with CNOT6: view

Function for CNOT6 Gene

Molecular function for CNOT6 Gene

UniProtKB/Swiss-Prot Function:
Poly(A) nuclease with 3-5 RNase activity. Catalytic component of the CCR4-NOT complex which is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation. Additional complex functions may be a consequence of its influence on mRNA expression. Involved in mRNA decay mediated by the major-protein-coding determinant of instability (mCRD) of the FOS gene in the cytoplasm. In the presence of ZNF335, enhances ligand-dependent transcriptional activity of nuclear hormone receptors, including RARA. The increase of ligand-dependent ESR1-mediated transcription is much smaller, if any. Mediates cell proliferation and cell survival and prevents cellular senescence.
UniProtKB/Swiss-Prot CatalyticActivity:
Exonucleolytic cleavage of poly(A) to 5-AMP.

Enzyme Numbers (IUBMB) for CNOT6 Gene

Phenotypes From GWAS Catalog for CNOT6 Gene

Gene Ontology (GO) - Molecular Function for CNOT6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0004518 nuclease activity IEA --
GO:0004527 exonuclease activity IEA --
GO:0004532 exoribonuclease activity IDA 11889047
GO:0004535 poly(A)-specific ribonuclease activity TAS --
genes like me logo Genes that share ontologies with CNOT6: view
genes like me logo Genes that share phenotypes with CNOT6: view

Animal Models for CNOT6 Gene

MGI Knock Outs for CNOT6:
  • Cnot6 Cnot6<tm1a(KOMP)Wtsi>

Animal Model Products

  • Taconic Biosciences Mouse Models for CNOT6

Clone Products

  • Addgene plasmids for CNOT6

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CNOT6 Gene

Localization for CNOT6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CNOT6 Gene

Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CNOT6 gene
Compartment Confidence
cytosol 5
nucleus 4

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for CNOT6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0016020 membrane HDA 19946888
GO:0030014 CCR4-NOT complex IDA 19558367
genes like me logo Genes that share ontologies with CNOT6: view

Pathways & Interactions for CNOT6 Gene

genes like me logo Genes that share pathways with CNOT6: view

Gene Ontology (GO) - Biological Process for CNOT6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening TAS --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006417 regulation of translation IEA --
GO:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest TAS --
genes like me logo Genes that share ontologies with CNOT6: view

No data available for SIGNOR curated interactions for CNOT6 Gene

Drugs & Compounds for CNOT6 Gene

(1) Drugs for CNOT6 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Magnesium Approved Nutra 0
genes like me logo Genes that share compounds with CNOT6: view

Transcripts for CNOT6 Gene

Unigene Clusters for CNOT6 Gene

CCR4-NOT transcription complex, subunit 6:
Representative Sequences:

Clone Products

  • Addgene plasmids for CNOT6

Alternative Splicing Database (ASD) splice patterns (SP) for CNOT6 Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12 ^ 13
SP1: - - - - - -
SP2: -
SP3: -
SP4:
SP5: - - - -
SP6:
SP7: - - -

Relevant External Links for CNOT6 Gene

GeneLoc Exon Structure for
CNOT6
ECgene alternative splicing isoforms for
CNOT6

Expression for CNOT6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CNOT6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for CNOT6 Gene

This gene is overexpressed in Plasma (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CNOT6 Gene



Protein tissue co-expression partners for CNOT6 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CNOT6 Gene:

CNOT6

SOURCE GeneReport for Unigene cluster for CNOT6 Gene:

Hs.608380

Evidence on tissue expression from TISSUES for CNOT6 Gene

  • Nervous system(4.6)
  • Intestine(2.9)
genes like me logo Genes that share expression patterns with CNOT6: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CNOT6 Gene

Orthologs for CNOT6 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CNOT6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CNOT6 34 33
  • 99.7 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CNOT6 34
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CNOT6 34
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CNOT6 34 33
  • 94.02 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CNOT6 34 33
  • 93.48 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cnot6 33
  • 92.76 (n)
mouse
(Mus musculus)
Mammalia Cnot6 16 34 33
  • 92.27 (n)
chicken
(Gallus gallus)
Aves CNOT6 34 33
  • 86.18 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CNOT6 34
  • 93 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii CNOT6 (2 of 2) 34
  • 84 (a)
OneToMany
cnot6 34 33
  • 75.06 (n)
OneToMany
Dr.24978 33
fruit fly
(Drosophila melanogaster)
Insecta twin 34
  • 56 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea ccr-4 34
  • 31 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CCR4 36 34
  • 21 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 37 (a)
OneToMany
Species where no ortholog for CNOT6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for CNOT6 Gene

ENSEMBL:
Gene Tree for CNOT6 (if available)
TreeFam:
Gene Tree for CNOT6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CNOT6: view image

Paralogs for CNOT6 Gene

Paralogs for CNOT6 Gene

(1) SIMAP similar genes for CNOT6 Gene using alignment to 3 proteins:

  • CNOT6_HUMAN
  • D6R9H6_HUMAN
  • Q8TAJ0_HUMAN
genes like me logo Genes that share paralogs with CNOT6: view

Variants for CNOT6 Gene

Sequence variations from dbSNP and Humsavar for CNOT6 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000017288 -- 180,530,581(+) G/T genic_upstream_transcript_variant, intron_variant
rs1000084460 -- 180,575,255(+) T/A 3_prime_UTR_variant, non_coding_transcript_variant
rs1000173563 -- 180,521,253(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000174783 -- 180,565,468(+) C/T intron_variant
rs1000209445 -- 180,566,551(+) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CNOT6 Gene

Variant ID Type Subtype PubMed ID
esv1078210 CNV deletion 17803354
esv1787252 CNV deletion 17803354
esv2731343 CNV deletion 23290073
esv2731344 CNV deletion 23290073
esv2762572 CNV gain 21179565
esv2860569 CNV duplication 24192839
esv3607782 CNV gain 21293372
esv3607783 CNV gain 21293372
esv991928 CNV deletion 20482838
esv998085 CNV deletion 20482838
nsv1019519 CNV gain 25217958
nsv1026417 CNV gain 25217958
nsv478393 CNV novel sequence insertion 20440878
nsv509110 CNV insertion 20534489
nsv509111 CNV insertion 20534489
nsv519380 CNV loss 19592680
nsv823366 CNV loss 20364138
nsv830564 CNV gain 17160897

Variation tolerance for CNOT6 Gene

Residual Variation Intolerance Score: 23.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.43; 28.12% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CNOT6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CNOT6

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CNOT6 Gene

Disorders for CNOT6 Gene

Additional Disease Information for CNOT6

No disorders were found for CNOT6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CNOT6 Gene

Publications for CNOT6 Gene

  1. CCR4-NOT deadenylates mRNA associated with RNA-induced silencing complexes in human cells. (PMID: 20065043) Piao X … Belasco JG (Molecular and cellular biology 2010) 3 4 22 58
  2. Components of the CCR4-NOT complex function as nuclear hormone receptor coactivators via association with the NRC-interacting Factor NIF-1. (PMID: 18180299) Garapaty S … Samuels HH (The Journal of biological chemistry 2008) 3 4 22 58
  3. UNR, a new partner of poly(A)-binding protein, plays a key role in translationally coupled mRNA turnover mediated by the c-fos major coding-region determinant. (PMID: 15314026) Chang TC … Shyu AB (Genes & development 2004) 3 4 22 58
  4. CCR4, a 3'-5' poly(A) RNA and ssDNA exonuclease, is the catalytic component of the cytoplasmic deadenylase. (PMID: 11889047) Chen J … Denis CL (The EMBO journal 2002) 2 3 4 58
  5. The Ccr4a (CNOT6) and Ccr4b (CNOT6L) deadenylase subunits of the human Ccr4-Not complex contribute to the prevention of cell death and senescence. (PMID: 21233283) Mittal S … Winkler GS (Molecular biology of the cell 2011) 3 4 58

Products for CNOT6 Gene

  • Addgene plasmids for CNOT6

Sources for CNOT6 Gene

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