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Aliases for CNOT3 Gene

Aliases for CNOT3 Gene

  • CCR4-NOT Transcription Complex Subunit 3 2 3 5
  • NOT3 (Negative Regulator Of Transcription 3, Yeast) Homolog 2 3
  • Leukocyte Receptor Cluster Member 2 3 4
  • CCR4-Associated Factor 3 3 4
  • LENG2 3 4
  • NOT3 3 4
  • CCR4-NOT Transcription Complex, Subunit 3 2
  • KIAA0691 4
  • NOT3H 3

External Ids for CNOT3 Gene

Previous HGNC Symbols for CNOT3 Gene

  • NOT3

Previous GeneCards Identifiers for CNOT3 Gene

  • GC19P055290
  • GC19P055066
  • GC19P059318
  • GC19P059333
  • GC19P054641
  • GC19P050957

Summaries for CNOT3 Gene

GeneCards Summary for CNOT3 Gene

CNOT3 (CCR4-NOT Transcription Complex Subunit 3) is a Protein Coding gene. Diseases associated with CNOT3 include Precursor T-Cell Acute Lymphoblastic Leukemia and Retrograde Amnesia. Among its related pathways are Translational Control and Deadenylation-dependent mRNA decay.

UniProtKB/Swiss-Prot for CNOT3 Gene

  • 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. May be involved in metabolic regulation; may be involved in recruitment of the CCR4-NOT complex to deadenylation target mRNAs involved in energy metabolism. Involved in mitotic progression and regulation of the spindle assembly checkpoint by regulating the stability of MAD1L1 mRNA. Can repress transcription and may link the CCR4-NOT complex to transcriptional regulation; the repressive function may involve histone deacetylases. Involved in the maintenance of emryonic stem (ES) cell identity.

Gene Wiki entry for CNOT3 Gene

Additional gene information for CNOT3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNOT3 Gene

Genomics for CNOT3 Gene

Regulatory Elements for CNOT3 Gene

Enhancers for CNOT3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH19H054199 1.9 FANTOM5 ENCODE dbSUPER 62.4 +68.0 68022 12 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC MEF2D PRPF31 CNOT3 LENG8 LENG8-AS1 ZNF525 LILRB5 ZNF845 ZNF765 ENSG00000235681 RPS9
GH19H054459 1.9 FANTOM5 Ensembl ENCODE dbSUPER 25.1 +328.2 328166 12 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF143 ZNF207 PAF1 SP3 LENG8-AS1 LENG8 CNOT3 PRPF31 ENSG00000267838 ENSG00000235681 LENG9 MYADM TPM3P6 TTYH1
GH19H054186 1.4 ENCODE dbSUPER 24.3 +51.9 51933 6 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 PRPF31 ZNF665 LENG8 LENG8-AS1 CNOT3 ZNF845 ZNF525 ZNF677 ENSG00000269001 ENSG00000269288
GH19H053977 1.3 Ensembl ENCODE 26.1 -157.7 -157728 5 HDGF PKNOX1 SIN3A FEZF1 ZNF2 ZNF766 ZNF143 SP3 NFYC REST PRPF31 ZNF525 LENG8-AS1 ZNF160 ZNF845 ZNF665 ZNF761 ZNF347 LENG8 ENSG00000235681
GH19H055062 1 ENCODE 30 +925.2 925191 1 HDGF PKNOX1 ATF1 ARNT SIN3A DMAP1 BRCA1 GTF3C2 GLIS2 ELK1 CNOT3 ENSG00000235681 LENG8 LENG8-AS1 U2AF2 ZNF581 ENSG00000267523 RDH13 PRPF31 ENSG00000267265
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CNOT3 on UCSC Golden Path with GeneCards custom track

Promoters for CNOT3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000111457 -89 2401 HDGF PKNOX1 ATF1 ARID4B SIN3A DMAP1 YY1 GLIS2 ZNF143 ZNF207

Genomic Location for CNOT3 Gene

Chromosome:
19
Start:
54,137,689 bp from pter
End:
54,155,708 bp from pter
Size:
18,020 bases
Orientation:
Plus strand

Genomic View for CNOT3 Gene

Genes around CNOT3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CNOT3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CNOT3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CNOT3 Gene

Proteins for CNOT3 Gene

  • Protein details for CNOT3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75175-CNOT3_HUMAN
    Recommended name:
    CCR4-NOT transcription complex subunit 3
    Protein Accession:
    O75175
    Secondary Accessions:
    • Q9NZN7
    • Q9UF76

    Protein attributes for CNOT3 Gene

    Size:
    753 amino acids
    Molecular mass:
    81872 Da
    Quaternary structure:
    • Component of the CCR4-NOT complex; distinct complexes seem to exist that differ in the participation of probably mutually exclusive catalytic subunits. In the complex interacts directly with CNOT2. Interacts with TIP120B and NANOS2.
    SequenceCaution:
    • Sequence=BAA31666.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CNOT3 Gene

    Alternative splice isoforms for CNOT3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CNOT3 Gene

Post-translational modifications for CNOT3 Gene

  • Ubiquitination at posLast=737737
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CNOT3 Gene

Domains & Families for CNOT3 Gene

Gene Families for CNOT3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins

Protein Domains for CNOT3 Gene

InterPro:
Blocks:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

O75175

UniProtKB/Swiss-Prot:

CNOT3_HUMAN :
  • Belongs to the CNOT2/3/5 family.
Family:
  • Belongs to the CNOT2/3/5 family.
genes like me logo Genes that share domains with CNOT3: view

Function for CNOT3 Gene

Molecular function for CNOT3 Gene

UniProtKB/Swiss-Prot Function:
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. May be involved in metabolic regulation; may be involved in recruitment of the CCR4-NOT complex to deadenylation target mRNAs involved in energy metabolism. Involved in mitotic progression and regulation of the spindle assembly checkpoint by regulating the stability of MAD1L1 mRNA. Can repress transcription and may link the CCR4-NOT complex to transcriptional regulation; the repressive function may involve histone deacetylases. Involved in the maintenance of emryonic stem (ES) cell identity.

Gene Ontology (GO) - Molecular Function for CNOT3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 10637334
genes like me logo Genes that share ontologies with CNOT3: view
genes like me logo Genes that share phenotypes with CNOT3: view

Animal Models for CNOT3 Gene

MGI Knock Outs for CNOT3:

Animal Model Products

CRISPR Products

miRNA for CNOT3 Gene

miRTarBase miRNAs that target CNOT3

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CNOT3
  • Applied Biological Materials Clones for CNOT3
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CNOT3 Gene

Localization for CNOT3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CNOT3 Gene

Cytoplasm. Nucleus. Cytoplasm, P-body. Note=NANOS2 promotes its localization to P-body. {ECO:0000250}.

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 CNOT3 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for CNOT3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 P-body ISS,IBA --
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol TAS --
GO:0030014 CCR4-NOT complex IDA 19558367
genes like me logo Genes that share ontologies with CNOT3: view

Pathways & Interactions for CNOT3 Gene

genes like me logo Genes that share pathways with CNOT3: view

SIGNOR curated interactions for CNOT3 Gene

Other effect:

Gene Ontology (GO) - Biological Process for CNOT3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay IBA --
GO:0000289 nuclear-transcribed mRNA poly(A) tail shortening TAS --
GO:0001829 trophectodermal cell differentiation IEA --
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with CNOT3: view

Drugs & Compounds for CNOT3 Gene

No Compound Related Data Available

Transcripts for CNOT3 Gene

Unigene Clusters for CNOT3 Gene

CCR4-NOT transcription complex, subunit 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for CNOT3
  • Applied Biological Materials Clones for CNOT3
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for CNOT3 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a ·
SP1: -
SP2: -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

ExUns: 19b ^ 20
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for CNOT3 Gene

GeneLoc Exon Structure for
CNOT3
ECgene alternative splicing isoforms for
CNOT3

Expression for CNOT3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CNOT3 Gene

Protein differential expression in normal tissues from HIPED for CNOT3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (8.9) and CD8 Tcells (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CNOT3 Gene



Protein tissue co-expression partners for CNOT3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CNOT3 Gene:

CNOT3

SOURCE GeneReport for Unigene cluster for CNOT3 Gene:

Hs.343571

mRNA Expression by UniProt/SwissProt for CNOT3 Gene:

O75175-CNOT3_HUMAN
Tissue specificity: Ubiquitous. Highly expressed in brain, heart, thymus, spleen, kidney, liver, small intestine, lung and peripheral blood leukocytes.

Evidence on tissue expression from TISSUES for CNOT3 Gene

  • Nervous system(4.8)
  • Liver(4.4)
  • Muscle(2.2)
  • Intestine(2.1)
genes like me logo Genes that share expression patterns with CNOT3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CNOT3 Gene

Orthologs for CNOT3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CNOT3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CNOT3 33 34
  • 99.51 (n)
dog
(Canis familiaris)
Mammalia CNOT3 33 34
  • 91.28 (n)
mouse
(Mus musculus)
Mammalia Cnot3 33 16 34
  • 90.95 (n)
rat
(Rattus norvegicus)
Mammalia Cnot3 33
  • 90.68 (n)
cow
(Bos Taurus)
Mammalia CNOT3 33 34
  • 90.64 (n)
oppossum
(Monodelphis domestica)
Mammalia CNOT3 34
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CNOT3 34
  • 85 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100158546 33
  • 71.22 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.33620 33
zebrafish
(Danio rerio)
Actinopterygii cnot3a 33 34
  • 70.56 (n)
cnot3b 34
  • 51 (a)
OneToMany
-- 33
fruit fly
(Drosophila melanogaster)
Insecta CG8426 35
  • 64 (a)
l(2)NC136 34
  • 40 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea Y56A3A.1 35
  • 43 (a)
ntl-3 34
  • 38 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NOT3 34 36
  • 22 (a)
OneToOne
rice
(Oryza sativa)
Liliopsida Os.8777 33
wheat
(Triticum aestivum)
Liliopsida Ta.14014 33
Species where no ortholog for CNOT3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)

Evolution for CNOT3 Gene

ENSEMBL:
Gene Tree for CNOT3 (if available)
TreeFam:
Gene Tree for CNOT3 (if available)

Paralogs for CNOT3 Gene

(1) SIMAP similar genes for CNOT3 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with CNOT3: view

No data available for Paralogs for CNOT3 Gene

Variants for CNOT3 Gene

Sequence variations from dbSNP and Humsavar for CNOT3 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs1000179476 -- 54,153,352(+) CCTCC(A/C/T)TGGAG intron-variant, upstream-variant-2KB
rs1000578340 -- 54,152,162(+) GGCCT(C/G)TGTCA intron-variant, upstream-variant-2KB
rs1001459525 -- 54,149,259(+) GAGTG(C/G)GCCCT intron-variant
rs1001733868 -- 54,153,646(+) TCCTG(C/T)CCCAT intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs1002204382 -- 54,153,382(+) GCCCC(C/T)TCCCA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for CNOT3 Gene

Variant ID Type Subtype PubMed ID
esv24700 CNV loss 19812545
esv2718812 CNV deletion 23290073
esv3644782 CNV gain 21293372
esv3644783 CNV gain 21293372
nsv2545 CNV insertion 18451855
nsv515623 CNV loss 19592680
nsv953613 CNV deletion 24416366

Variation tolerance for CNOT3 Gene

Residual Variation Intolerance Score: 50.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.14; 38.95% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CNOT3 Gene

Human Gene Mutation Database (HGMD)
CNOT3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CNOT3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CNOT3 Gene

Disorders for CNOT3 Gene

MalaCards: The human disease database

(5) MalaCards diseases for CNOT3 Gene - From: HGMD, Orphanet, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
precursor t-cell acute lymphoblastic leukemia
  • precursor t-cell acute lymphoblastic leukemia/lymphoma
retrograde amnesia
  • amnesia, retrograde
brain stem infarction
  • brainstem infarction
ataxia, early-onset, with oculomotor apraxia and hypoalbuminemia
  • spinocerebellar ataxia, autosomal recessive 1
retinitis pigmentosa
  • retinitis pigmentosa 1
- elite association - COSMIC cancer census association via MalaCards
Search CNOT3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for CNOT3

Human Genome Epidemiology (HuGE) Navigator
CNOT3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CNOT3
genes like me logo Genes that share disorders with CNOT3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CNOT3 Gene

Publications for CNOT3 Gene

  1. Isolation and characterization of human orthologs of yeast CCR4-NOT complex subunits. (PMID: 10637334) Albert TK … Timmers HT (Nucleic acids research 2000) 2 3 4 60
  2. Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9734811) Ishikawa K … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 2 3 4 60
  3. Cnot1, Cnot2, and Cnot3 maintain mouse and human ESC identity and inhibit extraembryonic differentiation. (PMID: 22367759) Zheng X … Hu G (Stem cells (Dayton, Ohio) 2012) 3 4 60
  4. Involvement of CNOT3 in mitotic progression through inhibition of MAD1 expression. (PMID: 22342980) Takahashi A … Yamamoto T (Biochemical and biophysical research communications 2012) 3 4 60
  5. Human Ccr4-Not complexes contain variable deadenylase subunits. (PMID: 19558367) Lau NC … Timmers HT (The Biochemical journal 2009) 3 4 60

Products for CNOT3 Gene

  • Addgene plasmids for CNOT3

Sources for CNOT3 Gene

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