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Aliases for CNOT9 Gene

Aliases for CNOT9 Gene

  • CCR4-NOT Transcription Complex Subunit 9 2 3 4 5
  • Cancer/Testis Antigen 129 2 3
  • RCD-1 3 4
  • RQCD1 3 4
  • RCD1 3 4
  • Rcd1 (Required For Cell Differentiation, S.Pombe) Homolog 1 2
  • RCD1 Required For Cell Differentiation1 Homolog (S. Pombe) 2
  • RCD1 Required For Cell Differentiation1 Homolog 3
  • Cell Differentiation Protein RCD1 Homolog 3
  • Protein Involved In Sexual Development 3
  • CAF40 3
  • CT129 3

External Ids for CNOT9 Gene

Previous HGNC Symbols for CNOT9 Gene

  • RQCD1

Summaries for CNOT9 Gene

Entrez Gene Summary for CNOT9 Gene

  • This gene encodes a member of the highly conserved RCD1 protein family. The encoded protein is a transcriptional cofactor and a core protein of the CCR4-NOT complex. It may be involved in signal transduction as well as retinoic acid-regulated cell differentiation and development. Alternatively spliced transcript variants have been described for this gene. [provided by RefSeq, Oct 2012]

GeneCards Summary for CNOT9 Gene

CNOT9 (CCR4-NOT Transcription Complex Subunit 9) is a Protein Coding gene. Among its related pathways are TP53 Regulates Transcription of Cell Cycle Genes and Regulation of TP53 Activity.

UniProtKB/Swiss-Prot for CNOT9 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. Involved in down-regulation of MYB- and JUN-dependent transcription. May play a role in cell differentiation (By similarity). Can bind oligonucleotides, such as poly-G, poly-C or poly-T (in vitro), but the physiological relevance of this is not certain. Does not bind poly-A. Enhances ligand-dependent transcriptional activity of nuclear hormone receptors, including RARA, expect ESR1-mediated transcription that is not only slightly increased, if at all.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNOT9 Gene

Genomics for CNOT9 Gene

Regulatory Elements for CNOT9 Gene

Enhancers for CNOT9 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
- Elite enhancer/Elite enhancer-gene association

Enhancers around CNOT9 on UCSC Golden Path with GeneCards custom track

Promoters for CNOT9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Location for CNOT9 Gene

Chromosome:
2
Start:
218,568,575 bp from pter
End:
218,597,080 bp from pter
Size:
28,506 bases
Orientation:
Plus strand

Genomic View for CNOT9 Gene

Genes around CNOT9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CNOT9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CNOT9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CNOT9 Gene

Proteins for CNOT9 Gene

  • Protein details for CNOT9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92600-RCD1_HUMAN
    Recommended name:
    Cell differentiation protein RCD1 homolog
    Protein Accession:
    Q92600
    Secondary Accessions:
    • B2RPI0
    • B5MDQ4
    • B7Z1E5
    • Q96IX4

    Protein attributes for CNOT9 Gene

    Size:
    299 amino acids
    Molecular mass:
    33631 Da
    Quaternary structure:
    • Homodimer. Component of the CCR4-NOT complex; distinct complexes seem to exist that differ in the participation of probably mutually exclusive catalytic subunits. Interacts with MYB, ATF2, RARA, RARB, RARG, RXRA, RXRB and RXRG. Identified in a complex with ATF2 bound to target DNA (By similarity). Interacts with NANOS2 (By similarity). Directly interacts with ZNF335.
    SequenceCaution:
    • Sequence=AAH07102.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for CNOT9 Gene

    Alternative splice isoforms for CNOT9 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CNOT9 Gene

Post-translational modifications for CNOT9 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for CNOT9 Gene

Domains & Families for CNOT9 Gene

Gene Families for CNOT9 Gene

Protein Domains for CNOT9 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q92600

UniProtKB/Swiss-Prot:

RCD1_HUMAN :
  • Belongs to the RCD1 family.
Family:
  • Belongs to the RCD1 family.
genes like me logo Genes that share domains with CNOT9: view

Function for CNOT9 Gene

Molecular function for CNOT9 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. Involved in down-regulation of MYB- and JUN-dependent transcription. May play a role in cell differentiation (By similarity). Can bind oligonucleotides, such as poly-G, poly-C or poly-T (in vitro), but the physiological relevance of this is not certain. Does not bind poly-A. Enhances ligand-dependent transcriptional activity of nuclear hormone receptors, including RARA, expect ESR1-mediated transcription that is not only slightly increased, if at all.

Gene Ontology (GO) - Molecular Function for CNOT9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 18180299
GO:0019904 protein domain specific binding IPI 24768540
GO:0042803 protein homodimerization activity IDA 24768540
genes like me logo Genes that share ontologies with CNOT9: view
genes like me logo Genes that share phenotypes with CNOT9: view

Animal Models for CNOT9 Gene

MGI Knock Outs for CNOT9:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CNOT9 Gene

Localization for CNOT9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CNOT9 Gene

Nucleus. Cytoplasm, P-body. Note=NANOS2 promotes its localization to P-body. {ECO:0000250 UniProtKB:Q9JKY0}.

Gene Ontology (GO) - Cellular Components for CNOT9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000932 cytoplasmic mRNA processing body ISS --
GO:0005634 nucleus IEA --
GO:0005829 cytosol TAS --
GO:0016020 membrane IDA 19946888
GO:0030014 CCR4-NOT complex IDA 19558367
genes like me logo Genes that share ontologies with CNOT9: view

No data available for Subcellular locations from COMPARTMENTS for CNOT9 Gene

Pathways & Interactions for CNOT9 Gene

genes like me logo Genes that share pathways with CNOT9: view

Gene Ontology (GO) - Biological Process for CNOT9 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:0006977 DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest TAS --
GO:0007548 sex differentiation TAS 9447985
genes like me logo Genes that share ontologies with CNOT9: view

No data available for SIGNOR curated interactions for CNOT9 Gene

Drugs & Compounds for CNOT9 Gene

No Compound Related Data Available

Transcripts for CNOT9 Gene

Unigene Clusters for CNOT9 Gene

RCD1 required for cell differentiation1 homolog (S. pombe):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CNOT9 Gene

No ASD Table

Relevant External Links for CNOT9 Gene

GeneLoc Exon Structure for
CNOT9
ECgene alternative splicing isoforms for
CNOT9

Expression for CNOT9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of CNOT9 Gene:

CNOT9

SOURCE GeneReport for Unigene cluster for CNOT9 Gene:

Hs.148767

mRNA Expression by UniProt/SwissProt for CNOT9 Gene:

Q92600-RCD1_HUMAN
Tissue specificity: Detected in spleen, thymus, prostate, testis, ovary and intestine.
genes like me logo Genes that share expression patterns with CNOT9: view

Primer Products

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression and Protein tissue co-expression partners for CNOT9 Gene

Orthologs for CNOT9 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CNOT9 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia RQCD1 34
  • 94.76 (n)
  • 99.67 (a)
RQCD1 35
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RQCD1 34
  • 95.21 (n)
  • 99.67 (a)
RQCD1 35
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rqcd1 34
  • 92.2 (n)
  • 99.67 (a)
Cnot9 16
Rqcd1 35
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rqcd1 34
  • 92.98 (n)
  • 99.67 (a)
chimpanzee
(Pan troglodytes)
Mammalia RQCD1 35
  • 90 (a)
OneToOne
RQCD1 34
  • 99.55 (n)
  • 100 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia RQCD1 35
  • 69 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia RQCD1 35
  • 100 (a)
OneToOne
chicken
(Gallus gallus)
Aves RQCD1 34
  • 83.19 (n)
  • 99.56 (a)
RQCD1 35
  • 94 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RQCD1 35
  • 99 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC76003 34
rqcd1 34
  • 79.38 (n)
  • 99 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.13761 34
zebrafish
(Danio rerio)
Actinopterygii rqcd1 34
  • 75.79 (n)
  • 96.62 (a)
rqcd1 35
  • 96 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1813 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012050 34
  • 67.73 (n)
  • 84.7 (a)
fruit fly
(Drosophila melanogaster)
Insecta Rcd-1 34
  • 66.79 (n)
  • 79.57 (a)
CG2053 35
  • 37 (a)
OneToMany
Rcd-1 35
  • 73 (a)
OneToMany
Rcd-1r 35
  • 59 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea ntl-9 34
  • 64.38 (n)
  • 73.29 (a)
ntl-9 35
  • 63 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL194W 34
  • 59.6 (n)
  • 65.8 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E13267g 34
  • 55.56 (n)
  • 60.35 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CAF40 34
  • 56.26 (n)
  • 61.71 (a)
CAF40 35
  • 45 (a)
OneToOne
CAF40 37
thale cress
(Arabidopsis thaliana)
eudicotyledons AT3G20800 34
  • 59.75 (n)
  • 67.47 (a)
soybean
(Glycine max)
eudicotyledons Gma.4905 34
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.4960 34
rice
(Oryza sativa)
Liliopsida Os04g0613400 34
  • 64.1 (n)
  • 72.69 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.6222 34
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3625 34
bread mold
(Neurospora crassa)
Ascomycetes NCU07071 34
  • 60.89 (n)
  • 71.22 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes rcd1 34
  • 62.08 (n)
  • 70.63 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 91 (a)
OneToMany
CSA.8006 35
  • 86 (a)
OneToMany
Species where no ortholog for CNOT9 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for CNOT9 Gene

ENSEMBL:
Gene Tree for CNOT9 (if available)
TreeFam:
Gene Tree for CNOT9 (if available)

Paralogs for CNOT9 Gene

No data available for Paralogs for CNOT9 Gene

Variants for CNOT9 Gene

Sequence variations from dbSNP and Humsavar for CNOT9 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs4411687 -- 218,573,224(+) GAGGC(A/C)GGACA intron-variant
rs15081 -- 218,595,609(-) CAGGT(A/G)CTAGC nc-transcript-variant, utr-variant-3-prime
rs2256745 -- 218,571,278(+) TAAGC(C/T)GGGTG intron-variant
rs7591358 -- 218,589,156(+) TTTTA(C/T)TCTTG intron-variant
rs7594934 -- 218,590,059(+) GTTTt(G/T)ttttt intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CNOT9 Gene

Variant ID Type Subtype PubMed ID
esv2721478 CNV deletion 23290073
nsv1123431 CNV deletion 24896259
nsv1131549 CNV deletion 24896259
nsv3168 CNV deletion 18451855

Variation tolerance for CNOT9 Gene

Residual Variation Intolerance Score: 32.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.15; 3.36% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CNOT9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CNOT9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CNOT9 Gene

Disorders for CNOT9 Gene

Relevant External Links for CNOT9

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CNOT9

No disorders were found for CNOT9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CNOT9 Gene

Publications for CNOT9 Gene

  1. 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 H.H. (J. Biol. Chem. 2008) 3 4 22 65
  2. Novel factor highly conserved among eukaryotes controls sexual development in fission yeast. (PMID: 9447985) Okazaki N. … Okayama H. (Mol. Cell. Biol. 1998) 2 3 4 65
  3. Whole exome sequencing identifies a recurrent RQCD1 P131L mutation in cutaneous melanoma. (PMID: 25544760) Wong S.Q. … McArthur G.A. (Oncotarget 2015) 3 65
  4. BioID-based Identification of Skp Cullin F-box (SCF)I^-TrCP1/2 E3 Ligase Substrates. (PMID: 25900982) Coyaud E. … Raught B. (Mol. Cell Proteomics 2015) 3 65
  5. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3 65

Products for CNOT9 Gene

Sources for CNOT9 Gene

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