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CNOT6 Gene

protein-coding   GIFtS: 61
GCID: GC05P179921

CCR4-NOT Transcription Complex, Subunit 6

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Aliases
for CNOT6 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
CCR4-NOT Transcription Complex, Subunit 61 2     KIAA11943 5
CCR42 3 5     Carbon Catabolite Repression 4 Protein2
Carbon Catabolite Repressor Protein 4 Homolog2 3     CCR4-NOT Transcription Complex Subunit 62
Cytoplasmic Deadenylase2 3     CCR4a3
EC 3.1.13.43 8     CCR4 Carbon Catabolite Repression 4-Like3

External Ids:    HGNC: 140991   Entrez Gene: 574722   Ensembl: ENSG000001133007   OMIM: 6089515   UniProtKB: Q9ULM63   
ORGUL members:         

Export aliases for CNOT6 gene to outside databases

Previous GC identifers: GC00U990842 GC05P179855 GC05P179856 GC05P174644


Summaries
for CNOT6 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for CNOT6 Gene:
The protein encoded by this gene is a subunit of the CCR4-NOT core transcriptional regulation complex. The encoded
protein has a 3'-5' RNase activity and prefers polyadenylated substates. (provided by RefSeq, Jul 2008)

GeneCards Summary for CNOT6 Gene:
CNOT6 (CCR4-NOT transcription complex, subunit 6) is a protein-coding gene. GO annotations related to this gene include RNA binding and poly(A)-specific ribonuclease activity. An important paralog of this gene is ANGEL1.

UniProtKB/Swiss-Prot: CNOT6_HUMAN, Q9ULM6
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

summary for CNOT6 Gene:
Chemokines (chemotactic cytokines) belong to a family of chemoattractant molecules involved in the directed
migration of immune cells. Over fifty human chemokines have been identified that can be categorised into
four groups; CC, CXC, CX3C and C (XCL1 and XCL2); depending on the spacing of their first two cysteine
residues. Chemokines exert their effects by binding to G-protein-coupled chemokine receptors on the surface
of cells, predominantly leukocytes. Eighteen human chemokine receptors have been identified that are
classified according to the class of chemokines that they bind. The major function of chemokines is to
regulate leukocyte trafficking in hematopoiesis and in innate and adaptive immunity. Other functions include
angiogenic activity, apoptosis, T-cell differentiation and phagocyte activation. Inadvertent activation of
chemokine receptors leads to autoimmunity by inappropriately targeting self antigens for destruction by
cytotoxic T-cells and macrophages.

Gene Wiki entry for CNOT6 Gene


Genomic Views
for CNOT6 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence at NCBI GenBank:
NC_000005.9  NT_023133.14  NC_018916.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the CNOT6 gene promoter:
         AP-2rep   FOXF2   AP-4   E47   RORalpha1   FOXJ2 (long isoform)   Hand1   FOXO1a   FOXJ2   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: CNOT6 promoter sequence
   Search Chromatin IP Primers for CNOT6

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CNOT6


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 5q35.3   Ensembl cytogenetic band:  5q35.3   HGNC cytogenetic band: 5q35.3

CNOT6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CNOT6 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05P179921:  view genomic region     (about GC identifiers)

Start:
 179,921,412 bp from pter      End:
 180,005,405 bp from pter
Size:
 83,994 bases      Orientation:
 plus strand

Proteins
for CNOT6 gene

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
About This Section
UniProtKB/Swiss-Prot: CNOT6_HUMAN, Q9ULM6 (See protein sequence)
Recommended Name: CCR4-NOT transcription complex subunit 6  
Size: 557 amino acids; 63307 Da
Cofactor: Magnesium
Subunit: 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. Interacts with UNR and ZNF335
Secondary accessions: A7MD46 D3DWR0

Explore the universe of human proteins at neXtProt for CNOT6: NX_Q9ULM6

Explore proteomics data for CNOT6 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys128
  • Modification sites at PhosphoSitePlus
    • 2 DME Specific Peptides for CNOT6 (Q9ULM6)
     PKSRARTM  NRVMTKDNI 


    See CNOT6 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_056270.2  
    ENSEMBL proteins: 
     ENSP00000377024   ENSP00000422087   ENSP00000261951  
    Reactome Protein details: Q9ULM6

    CNOT6 Human Recombinant Protein Products:

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    OriGene Custom Protein Services for CNOT6
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    Novus Biologicals CNOT6 Proteins
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for CNOT6

         		 Search eBioscience for Proteins for CNOT6 

         		 Search GeneTex for Proteins for CNOT6 

         		antibodies-online proteins for CNOT6 (5 products) 

         		antibodies-online peptides for CNOT6

    CNOT6 Antibody Products:

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    Abcam antibodies for CNOT6
    Cloud-Clone Corp. Antibodies for CNOT6
    Search ThermoFisher Antibodies for CNOT6
    antibodies-online antibodies for CNOT6 (27 products) 

    CNOT6 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for CNOT6
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for CNOT6
    Cloud-Clone Corp. CLIAs for CNOT6
    Search eBioscience for ELISAs for CNOT6 
    antibodies-online kits for CNOT6 (3 products) 

    Domains /
    Families
    for CNOT6 gene

    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
    About This Section

    		 3 InterPro protein domains:
     IPR001611 Leu-rich_rpt
     IPR003591 Leu-rich_rpt_typical-subtyp
     IPR005135 Endo/exonuclease/phosphatase

    Graphical View of Domain Structure for InterPro Entry Q9ULM6

    ProtoNet protein and cluster: Q9ULM6

    UniProtKB/Swiss-Prot: CNOT6_HUMAN, Q9ULM6
    Similarity: Belongs to the CCR4/nocturin family
    Similarity: Contains 4 LRR (leucine-rich) repeats


    Find genes that share domains with CNOT6           About GenesLikeMe


    Function
    for CNOT6 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
    About This Section
    Molecular Function:

         UniProtKB/Swiss-Prot Summary: CNOT6_HUMAN, Q9ULM6
    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
    Catalytic activity: Exonucleolytic cleavage of poly(A) to 5'-AMP

         Enzyme Number (IUBMB): EC 3.1.13.41 2

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003723RNA binding IEA--
    GO:0004532exoribonuclease activity IDA11889047
    GO:0004535poly(A)-specific ribonuclease activity TAS--
    GO:0005515protein binding IPI11747467
    GO:0046872metal ion binding IEA--
         
    Find genes that share ontologies with CNOT6           About GenesLikeMe


    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for CNOT6

    miRNA
    Products:            		miRTarBase miRNAs that target CNOT6:
    hsa-mir-96-5p (MIRT027912), hsa-mir-130b-3p (MIRT020329), hsa-mir-769-5p (MIRT039160), hsa-mir-193b-3p (MIRT016605), hsa-mir-1 (MIRT003851), hsa-mir-106b-5p (MIRT044283), hsa-mir-15a-3p (MIRT038987), hsa-mir-183-5p (MIRT047042), hsa-mir-373-3p (MIRT004074), hsa-mir-9-5p (MIRT021485), hsa-mir-19b-3p (MIRT031275)

    Block miRNA regulation of human, mouse, rat CNOT6 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate CNOT6 (see all 84):
    hsa-miR-520e hsa-miR-193a-3p hsa-miR-128 hsa-miR-30d hsa-miR-138-2* hsa-miR-371-5p hsa-miR-519a hsa-miR-30a
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat CNOT6

    Gene Editing
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    Clone
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    OriGene ORF clones in mouse, rat for CNOT6
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    GenScript: all cDNA clones in your preferred vector: CNOT6 (NM_015455)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for CNOT6
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat CNOT6
    Addgene plasmids for CNOT6 

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for CNOT6 
    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CNOT6


    Localization
    for CNOT6 gene

    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
    About This Section
    Subcellular locations from UniProtKB/Swiss-Prot
    CNOT6_HUMAN, Q9ULM6: Cytoplasm (Probable). Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol4
    nucleus4

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--
    GO:0005829cytosol TAS--
    GO:0030014CCR4-NOT complex IDA19558367

    Find genes that share ontologies with CNOT6           About GenesLikeMe


    Pathways & Interactions
    for CNOT6 gene

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
    About This Section





    SuperPaths for CNOT6 About    
    See pathways by source

    		      Powered
    by    		     
    SuperPathContained pathways About
    1Deadenylation-dependent mRNA decay
    		Deadenylation-dependent mRNA decay0.48
    		Deadenylation of mRNA0.48
    		RNA degradation0.48
    2Gene Expression
    		Gene Expression0.40


    Find genes that share SuperPaths with CNOT6           About GenesLikeMe

    Pathways by source                                   See SuperPaths
    Show all pathways

    Selected Downloadable PowerPoint Slides of GeneGlobe Pathway Central Maps for CNOT6 (see all 8)
        Chemokine Signaling
    STAT3 Pathway
    Molecular Mechanisms of Cancer
    Antioxidant Action of Vitamin-C
    Tec Kinases Signaling

    1 Reactome Pathway for CNOT6
        Deadenylation of mRNA


    1 Kegg Pathway  (Kegg details for CNOT6):
        RNA degradation

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for CNOT6
    Interactions:

        GeneGlobe Interaction Network for CNOT6

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CNOT6 (Q9ULM61, 3 ENSP000002619514) via UniProtKB, MINT, STRING, and/or I2D (see all 203)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ENSG00000206286Q8N1B43I2D: score=1 
    ENSG00000224455Q8N1B43I2D: score=1 
    ENSG00000225590Q8N1B43I2D: score=1 
    ENSG00000228425Q8N1B43I2D: score=1 
    ENSG00000236014Q8N1B43I2D: score=1 
    About this table

    Gene Ontology (GO): 15 biological process terms (see first 5):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000288nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay TAS--
    GO:0000289nuclear-transcribed mRNA poly(A) tail shortening TAS--
    GO:0006351transcription, DNA-templated IEA--
    GO:0006355regulation of transcription, DNA-templated IEA--
    GO:0006417regulation of translation IEA--
    GO:0008284positive regulation of cell proliferation IMP--
    GO:0010467gene expression TAS--
    GO:0010606positive regulation of cytoplasmic mRNA processing body assembly IMP--
    GO:0016070RNA metabolic process TAS--
    GO:0016071mRNA metabolic process TAS--
    GO:0035195gene silencing by miRNA TAS--
    GO:0043928exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay IDA--
    GO:0070966nuclear-transcribed mRNA catabolic process, no-go decay IMP15314026
    GO:0090503RNA phosphodiester bond hydrolysis, exonucleolytic TAS--
    GO:2000327positive regulation of ligand-dependent nuclear receptor transcription coactivator activity IDA18180299

    Find genes that share ontologies with CNOT6           About GenesLikeMe



    Drugs & Compounds
    for CNOT6 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
    About This Section
    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Compounds for CNOT6 available from Tocris Bioscience    About this table
    CompoundAction CAS #
    RS 504393Highly selective CCR2 chemokine receptor antagonist[300816-15-3]
    MaravirocSelective CCR5 antagonist[376348-65-1]
    SB 225002Potent and selective CXCR2 antagonist[182498-32-4]
    SB 265610Potent CXCR2 antagonist[211096-49-0]
    TC 14012CXCR4 antagonist; CXCR7 agonist[368874-34-4]

    1 HMDB Compound for CNOT6    About this table
    CompoundSynonyms CAS #PubMed Ids
    MagnesiumMagnesium (see all 2)7439-95-4--



    Transcripts
    for CNOT6 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
    About This Section
    REFSEQ mRNAs for CNOT6 gene (4 alternative transcripts): 
    NM_015455.3  XM_005265953.1  XM_006714899.1  XM_006714900.1  

    Unigene Cluster for CNOT6:

    CCR4-NOT transcription complex, subunit 6
    Hs.608380  [show with all ESTs]
    Unigene Representative Sequence: BC152469
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000510148 ENST00000393356(uc010jld.3) ENST00000507016 ENST00000502447
    ENST00000504343 ENST00000261951(uc003mlx.3 uc010jle.3)
    miRNA
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    Selected qRT-PCR Assays for microRNAs that regulate CNOT6 (see all 84):
    hsa-miR-520e hsa-miR-193a-3p hsa-miR-128 hsa-miR-30d hsa-miR-138-2* hsa-miR-371-5p hsa-miR-519a hsa-miR-30a
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    Inhib. RNA
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    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CNOT6
      QuantiTect SYBR Green Assays in human, mouse, rat CNOT6
      QuantiFast Probe-based Assays in human, mouse, rat CNOT6

    Additional mRNA sequence: 

    AB033020.1 AK023599.1 AK314752.1 AL110144.1 BC015331.1 BC027476.1 BC073142.1 BC090918.1 
    BC114958.1 BC152469.1 

    10 DOTS entries:

    DT.115578  DT.101979531  DT.99934212  DT.100775630  DT.101957004  DT.92435297  DT.92435303  DT.95345830 
    DT.100737457  DT.97799052 

    Selected AceView cDNA sequences (see all 268):

    AI028199 AA361774 BM974097 AA235905 AW173692 AA227943 AI276566 AI005662 
    BM682186 BP379655 CB959839 AA971246 AA227814 CB306950 BF940524 BG231763 
    AA630737 AA983617 Z41386 AA251375 BU167426 AI810439 NM_015455 BE897352 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for CNOT6 (see all 7)    About this scheme

    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:                                -                             -     -     -                                                         


    ECgene alternative splicing isoforms for CNOT6

    Expression
    for CNOT6 gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CNOT6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGTCTTCCGT
    CNOT6 Expression
    About this image


    CNOT6 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Brain (Nervous System)    fully expand to see all 6 entries
             Cerebral Cortex
     
     Neural Tube (Nervous System)    fully expand to see all 3 entries
             Metencephalon
     
     Eye (Sensory Organs)
             Lens
    CNOT6 Protein expression data from MOPED1, PaxDb2 and MaxQB3:     About this image

    CNOT6 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.608380
        Custom PCR Arrays for CNOT6
    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat CNOT6
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    In Situ
    Assay Products:     
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CNOT6

    Orthologs
    for CNOT6 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the common ancestor of animals and fungi.

    Orthologs for CNOT6 gene from Selected species (see all 14)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Cnot61 , 5 CCR4-NOT transcription complex, subunit 61, 5 92.27(n)1
    96.01(a)1    		   11 (29.76 cM)5
    1046251  NM_212484.11  NP_997649.11 
     496715035 
    chicken
    (Gallus gallus)    		 Aves CNOT61 CCR4-NOT transcription complex, subunit 6 86.18(n)
    95.69(a)    		   416293  XM_414612.4  XP_414612.3 
    lizard
    (Anolis carolinensis)    		 Reptilia CNOT66
    		 CCR4-NOT transcription complex, subunit 6
    		 93(a)
    		 1 ↔ 1
    		 2(141011047-141051754)
    zebrafish
    (Danio rerio)    		 Actinopterygii Dr.249782 Danio rerio mRNA similar to KIAA1194 (cDNA clone IMAGE5413 more 78.97(n)    BC058309.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta twin6
    		 twin
    		 56(a)
    		 1 → many
    		 3R(20022615-20047687)
    worm
    (Caenorhabditis elegans)    		 Secernentea ccr-46
    		 Protein CCR-4, isoform a
    		 31(a)
    		 1 → many
    		 IV(12361570-12371828) WBGene00000376
    baker's yeast
    (Saccharomyces cerevisiae)    		 Saccharomycetes CCR4(YAL021C)4 Component of the CCR4-NOT transcriptional complex, more   --   1(113359-110846) 851212  NP_009381.1 


    ENSEMBL Gene Tree for CNOT6 (if available)
    TreeFam Gene Tree for CNOT6 (if available)

    Paralogs
    for CNOT6 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
    About This Section

    Paralogs for CNOT6 gene
    ANGEL12  CCRN4L2  PDE122  ANGEL22  CNOT6L2  
    1 SIMAP similar gene for CNOT6 using alignment to 3 protein entries:     CNOT6_HUMAN (see all proteins):
    CNOT6L

    Find genes that share paralogs with CNOT6           About GenesLikeMe



    Genomic Variants
    for CNOT6 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
    About This Section


    Selected SNPs for CNOT6 (see all 1968)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 5 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs733632191,2
    		C,F--179919427(+) CCGCAC/TAACTC 1 -- us2k11Minor allele frequency- T:0.02WA 118
    rs1411184091,2
    		C--179919464(+) GGGATG/TGCCAC 1 -- us2k10--------
    rs567554551,2
    		C--179919468(+) TGGCCA/CCAGGC 1 -- us2k14Minor allele frequency- C:0.13NA WA EA 360
    rs1828402911,2
    		--179919550(+) ATGGCA/GCTAGA 1 -- us2k10--------
    rs1502697971,2
    		C--179919589(+) GCAGTA/GCCAAG 1 -- us2k10--------
    rs624054961,2
    		C,F--179919618(+) CGTGCT/CGGGGA 1 -- us2k16Minor allele frequency- C:0.17NA WA EA 364
    rs624054971,2
    		C--179919912(+) ATATAG/CCTCAA 1 -- us2k17Minor allele frequency- C:0.35NA WA EA 366
    rs100728351,2
    		C,F--179919913(+) TATAGC/GTCAAA 1 -- us2k12Minor allele frequency- G:0.08WA NA 238
    rs728111271,2
    		C--179919918(+) CTCAAT/ATTTTT 1 -- us2k11Minor allele frequency- A:0.00NA 2
    rs715770441,2
    		C--179919924(+) TTTTT-/C/C   
       TT    /TT    TTTTT     		2 -- us2k1 cds11NA 2

    HapMap Linkage Disequilibrium report for CNOT6 (179921412 - 180005405 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for CNOT6 (see all 11):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv998085CNV Deletion20482838
    esv991928CNV Deletion20482838
    esv2731343CNV Deletion23290073
    esv2731344CNV Deletion23290073
    esv1078210CNV Deletion17803354
    esv1787252CNV Deletion17803354
    nsv509111CNV Insertion20534489
    nsv509110CNV Insertion20534489
    nsv519380CNV Loss19592680
    nsv823366CNV Loss20364138

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing CNOT6
    DNA2.0 Custom Variant and Variant Library Synthesis for CNOT6

    Disorders / Diseases
    for CNOT6 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB, Sets of similar genes according to GenesLikeMe)
    About This Section

    		 OMIM gene information: 608951    OMIM disorders: --


    Find genes that share disorders with CNOT6           About GenesLikeMe

    1 Novoseek inferred disease relationship for CNOT6 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 0 1 17641067 (1)

    Genetic Association Database (GAD): CNOT6

    Export disorders for CNOT6 gene to outside databases

    Publications
    for CNOT6 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section


    PubMed articles for CNOT6 gene, integrated from 10 sources (see all 41):
    (articles sorted by number of sources associating them with CNOT6)

    1. CCR4, a 3'-5' poly(A) RNA and ssDNA exonuclease, is the catalytic component of the cytoplasmic deadenylase. (PubMed id 11889047)1, 2, 3 Chen J.... Denis C.L. (EMBO J. 2002)
    2. Components of the CCR4-NOT complex function as nuclear hormone receptor coactivators via association with the NRC-interacting Factor NIF-1. (PubMed id 18180299)1, 2, 9 Garapaty S.... Samuels H.H. (J. Biol. Chem. 2008)
    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. (PubMed id 15314026)1, 2, 9 Chang T.-C.... Shyu A.-B. (Genes Dev. 2004)
    4. The Ccr4a (CNOT6) and Ccr4b (CNOT6L) deadenylase subunits of the human Ccr4-Not complex contribute to the prevention of cell death and senescence. (PubMed id 21233283)1, 2 Mittal S.... Winkler G.S. (Mol. Biol. Cell 2011)
    5. Human Ccr4-Not complexes contain variable deadenylase subunits. (PubMed id 19558367)1, 2 Lau N.C.... Timmers H.T. (Biochem. J. 2009)
    6. Identification of four families of yCCR4- and Mg2+-dependent endonuclease-related proteins in higher eukaryotes, and characterization of orthologs of yCCR4 with a conserved leucine-rich repeat essential for hCAF1/hPOP2 binding. (PubMed id 11747467)1, 2 Dupressoir A....Heidmann T. (BMC Genomics 2001)
    7. Prediction of the coding sequences of unidentified human genes. XV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10574462)1, 2 Nagase T.... Ohara O. (DNA Res. 1999)
    8. CCR4-NOT deadenylates mRNA associated with complexes in human cells. (PubMed id 20065043)2, 9 Piao X.... Belasco J.G. (Mol. Cell. Biol. 2010)
    9. Isolation and characterization of human orthologs of yeast CCR4-NOT complex subunits. (PubMed id 10637334)1, 9 Albert T.K....Timmers H.T.M. (Nucleic Acids Res. 2000)
    10. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)

    External Searches for CNOT6 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing CNOT6 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 57472 HGNC: 14099 AceView: KIAA1194 Ensembl:ENSG00000113300 euGenes: HUgn57472
    ECgene: CNOT6 Kegg: 57472 H-InvDB: CNOT6

    Other Databases showing CNOT6 gene

    (According to HUGE)
    About This Section
    HUGE: KIAA1194

    Specialized Databases showing CNOT6 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CNOT6 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for CNOT6 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for CNOT6 gene:
    Search GeneIP for patents involving CNOT6

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    About This Section


     
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