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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

CNOT6L Gene

protein-coding   GIFtS: 50
GCID: GC04M078634

CCR4-NOT transcription complex, subunit 6-like

 Explore 3 diseases affiliated with
CNOT6L via our new
 Human Malady Compendium 
Biological research products
for CNOT6L
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
CCR4-NOT Transcription Complex, Subunit 6-Like1 2     CCR4-NOT Transcription Complex Subunit 6-Like2
Carbon Catabolite Repressor Protein 4 Homolog B2 3     CCR4B3
DKFZp434K0981     EC 3.1.-.-3
CCR4b2     

External Ids:    HGNC: 180421   Entrez Gene: 2461752   Ensembl: ENSG000001387677   UniProtKB: Q96LI53   

Export aliases for CNOT6L gene to outside databases

Previous GC identifers: GC04M078548 GC04M078828 GC04M079030 GC04M079096 GC04M078995 GC04M078853 GC04M074386


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: CNO6L_HUMAN, Q96LI5
Function: Plays a role in the deadenylation of mRNAs in the cytoplasm. Has 3'-5' poly(A) exoribonuclease activity for
synthetic poly(A) RNA substrate. May be involved in the deadenylation-dependent degradation of mRNAs through the
3'-UTR AU-rich element-mediated mechanism. Involved in deadenylation-dependent degradation of CDKN1B mRNA




(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000004.11  NC_018915.1  NT_016354.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CNOT6L gene promoter:
         Pax-5   ATF-2   XBP-1   Evi-1   MEF-2A   FOXO1a   c-Myb   c-Jun   aMEF-2   FOXO1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCNOT6L promoter sequence
   Search SABiosciences Chromatin IP Primers for CNOT6L

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat CNOT6L


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

Entrez Gene cytogenetic band: 4q13.3   Ensembl cytogenetic band:  4q21.1   HGNC cytogenetic band: 4q13.3

CNOT6L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CNOT6L gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M078634:  view genomic region     (about GC identifiers)

Start:
78,634,541 bp from pter      End:
78,740,769 bp from pter
Size:
106,229 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: CNO6L_HUMAN, Q96LI5 (See protein sequence)
Recommended Name: CCR4-NOT transcription complex subunit 6-like  
Size: 555 amino acids; 63001 Da
Cofactor: Magnesium
Subunit: Component of the CCR4-NOT complex at least composed of CNOT1, CNOT2, CNOT3, CNOT8, CNOT9, CNOT10 and TNKS1BP1.
Interacts with NANOS2 (By similarity)
Subcellular location: Cytoplasm
Miscellaneous: Depletion of CNOT6L causes cell growth defect
3 PDB 3D structures from and Proteopedia for CNOT6L:
3NGN (3D)        3NGO (3D)        3NGQ (3D)    
Secondary accessions: Q9UF92
Alternative splicing: 2 isoforms:  Q96LI5-1   Q96LI5-2   

Explore the universe of human proteins at neXtProt for CNOT6L: NX_Q96LI5

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q96LI5

  • CNOT6L Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_653172.2  
    ENSEMBL proteins: 
     ENSP00000424896   ENSP00000423750   ENSP00000425571   ENSP00000425836   ENSP00000426320  
     ENSP00000426269   ENSP00000264903  
    Reactome Protein details: Q96LI5
    Human Recombinant Protein Products: 
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    Uscn Proteins for CNOT6L

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm ----
    GO:0005829cytosol TAS--


    CNOT6L for ontologies           About GeneDecksing



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

    CNOT6L for domains           About GeneDecksing

    2 InterPro domains/families:
     IPR001611 Leu-rich_rpt
     IPR005135 Endo/exonuclease/phosphatase

    Graphical View of Domain Structure for InterPro Entry Q96LI5

    ProtoNet protein and cluster: Q96LI5

    UniProtKB/Swiss-Prot: CNO6L_HUMAN, Q96LI5
    Similarity: Belongs to the CCR4/nocturin family
    Similarity: Contains 4 LRR (leucine-rich) repeats


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: CNO6L_HUMAN, Q96LI5
    Function: Plays a role in the deadenylation of mRNAs in the cytoplasm. Has 3'-5' poly(A) exoribonuclease activity for
    synthetic poly(A) RNA substrate. May be involved in the deadenylation-dependent degradation of mRNAs through the
    3'-UTR AU-rich element-mediated mechanism. Involved in deadenylation-dependent degradation of CDKN1B mRNA

    Enzyme Number (IUBMB): EC 3.1.-.-1

    miRNA
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    hsa-miR-124* hsa-miR-576-3p hsa-miR-26a-2* hsa-miR-106a hsa-miR-1260b hsa-miR-3653 hsa-miR-759 hsa-miR-519a
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004535poly(A)-specific ribonuclease activity TAS--
    GO:0005515protein binding IPI18377426
    GO:0046872metal ion binding IEA--


    CNOT6L for ontologies           About GeneDecksing



    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Deadenylation-dependent mRNA decay
    Deadenylation-dependent mRNA decay1.00
    Deadenylation of mRNA0.47
    RNA degradation0.50
    2Metabolism of mRNA
    Metabolism of mRNA1.00
    Metabolism of RNA0.92
    3Generic Transcription Pathway
    Gene Expression0.46

    Pathway sources
    See GeneCards unified pathways
    Show all pathways


    5        Reactome Pathways for CNOT6L
        Deadenylation of mRNA
    Deadenylation-dependent mRNA decay
    Metabolism of RNA
    Metabolism of mRNA
    Gene Expression


    1         Kegg Pathway  (Kegg details for CNOT6L):
        RNA degradation


    CNOT6L for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for CNOT6L

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

    5/35 Interacting proteins for CNOT6L (Q96LI51, 3 ENSP000002649034) via UniProtKB, MINT, STRING, and/or I2D (see all 35)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CNOT3O751751, 3, ENSP000002212324EBI-2562020,EBI-743073 I2D: score=2 STRING: ENSP00000221232
    TOB1P506161, 3, ENSP000002689574EBI-2562020,EBI-723281 I2D: score=1 STRING: ENSP00000268957
    CHAF1BQ131121, 3, ENSP000003157004EBI-2562020,EBI-1052944 I2D: score=1 STRING: ENSP00000315700
    CNOT1A5YKK63, ENSP000003209494STRING: ENSP00000320949 I2D: score=2 
    CHAF1AQ131113, ENSP000003012804I2D: score=1 STRING: ENSP00000301280
    About this table

    Gene Ontology (GO): 5/7 biological process terms (GO ID links to tree view) (see all 7):    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:0008284positive regulation of cell proliferation IEA--
    GO:0010467gene expression TAS--
    GO:0016070RNA metabolic process TAS--


    CNOT6L for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for CNOT6L
    Search CenterWatch for drugs/clinical trials and news about CNOT6L / CNO6L 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for CNOT6L gene: 
    NM_144571.2  

    Unigene Cluster for CNOT6L:

    CCR4-NOT transcription complex, subunit 6-like
    Hs.592519  [show with all ESTs]
    Unigene Representative Sequence: NM_144571
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000504123(uc011ccd.2 uc011cce.1) ENST00000515506 ENST00000512485(uc003hkt.1)
    ENST00000504804 ENST00000505983 ENST00000508371 ENST00000506166 ENST00000515441
    ENST00000264903(uc003hks.3)

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    hsa-miR-124* hsa-miR-576-3p hsa-miR-26a-2* hsa-miR-106a hsa-miR-1260b hsa-miR-3653 hsa-miR-759 hsa-miR-519a
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    Additional cDNA sequence: 

    AK027214.1 AK058188.1 AK124855.1 AK303417.1 AK304397.1 AL133112.1 

    6 DOTS entries:

    DT.440915  DT.102842447  DT.121238246  DT.92034579  DT.95266054  DT.121016394 

    24/93 AceView cDNA sequences (see all 93):

    AW015325 NM_144571 AI122950 AK058188 AW009246 AW059757 AL133112 AA858187 
    BQ718655 BM830893 AI268902 AA252689 AA857956 AA294823 AI982915 BG534513 
    BQ307421 BG500011 CD639863 BQ025327 CD242218 AA749443 CB243925 BQ416804 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for CNOT6L (see all 6)    About this scheme

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


    ECgene alternative splicing isoforms for CNOT6L

    (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 GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    CNOT6L expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATGTATAGGG

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See CNOT6L Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for CNOT6L

    SOURCE GeneReport for Unigene cluster: Hs.592519

    UniProtKB/Swiss-Prot: CNO6L_HUMAN, Q96LI5
    Tissue specificity: Highly expressed in placenta, skeletal muscle, pancreas, testis and leukocytes. Weakly expressed in
    heart, spleen and thymus

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CNOT6L

    (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 eukaryotes.

    Orthologs for CNOT6L gene from 9/31 species (see all 31)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves CNOT6L1 CCR4-NOT transcription complex, subunit 6-like 89.74(n)
    96.72(a)
      422508  XM_420472.3  XP_420472.3 
    lizard
    (Anolis carolinensis)
    Reptilia CNOT6L6
    --
    93(a)
    1 ↔ 1
    5(146072836-146092043)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.346212 Xenopus laevis transcribed sequence with moderate similarity more 82.61(n)    BJ062607.1 
    zebrafish
    (Danio rerio)
    Actinopterygii cnot6l1 CCR4-NOT transcription complex, subunit 6-like 74.82(n)
    84.74(a)
      553665  NM_001020638.1  NP_001018474.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta twin6
    twin
    54(a)
    1 → many
    3R(20022615-20047687)
    worm
    (Caenorhabditis elegans)
    Secernentea ccr-46
    CCR (yeast CCR4/NOT complex component) homolog fam...
    31(a)
    1 → many
    IV(12361546-12371804)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes CCR41 Ccr4p 48.82(n)
    37.47(a)
      851212   NP_009381.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT3G585606
    AT3G585806
    carbon catabolite repressor protein 4-like 2
    23(a)
    21(a)
    many ↔ many
    many ↔ many
    3(21650596-21654200)
    3(21660598-21664095)
    rice
    (Oryza sativa)
    Liliopsida --
    --
    endonuclease/exonuclease/phosphatase family domain...
    endonuclease/exonuclease/phosphatase family domain...
    22(a)
    21(a)
    many ↔ many
    many ↔ many
    3(3615603-3621204)
    10(14285713-14291210)


    ENSEMBL Gene Tree for CNOT6L (if available)
    TreeFam Gene Tree for CNOT6L (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for CNOT6L gene
    ANGEL12  CCRN4L2  PDE122  ANGEL22  CNOT62  
    4 SIMAP similar genes for CNOT6L using alignment to 6 protein entries:     CNO6L_HUMAN (see all proteins):
    CNOT6    RSU1    LRRC8B    ANGEL2

    CNOT6L for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for CNOT6L
    PGOHUM00000251182


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 2 variations for CNOT6L
         2 CNVs: 68750 8449
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing CNOT6L
    DNA2.0 Custom Variant and Variant Library Synthesis for CNOT6L

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

    CNOT6L for disorders           About GeneDecksing

    3 diseases for CNOT6L:    About MalaCards
    twinning    malaria    alcoholism

    Human Genome Epidemiology (HuGE) Navigator: CNOT6L (2 documents)

    Export disorders for CNOT6L gene to outside databases

    (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 CNOT6L gene, integrated from 9 sources (see all 14):
    (articles sorted by number of sources associating them with CNOT6L)
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    1. Crystal structure of the human CNOT6L nuclease domain reveals strict poly(A) substrate specificity. (PubMed id 20628353)1, 2 Wang H....Rao Z. (2010)
    2. Depletion of mammalian CCR4b deadenylase triggers elevation of the p27Kip1 mRNA level and impairs cell growth. (PubMed id 17452450)1, 2 Morita M....Yamamoto T. (2007)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. The Ccr4a (CNOT6) and Ccr4b (CNOT6L) deadenylase subu nits of the human Ccr4-Not complex contribute to the prevention of cell death a nd senescence. (PubMed id 21233283)1 Mittal S....Winkler G.S. (2011)
    5. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    6. A Bayesian approach to genetic association studies wi th family-based designs. (PubMed id 20818722)1 Naylor M.G....Lange C. (2010)
    7. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
    8. Systematic analysis of human protein complexes identi fies chromosome segregation proteins. (PubMed id 20360068)1 Hutchins J.R....Peters J.M. (2010)
    9. An atlas of combinatorial transcriptional regulation in mouse and man. (PubMed id 20211142)1 Ravasi T....Hayashizaki Y. (2010)
    10. Interaction of antiproliferative protein Tob with the CCR4-NOT deadenylase complex. (PubMed id 18377426)1 Miyasaka T....Yamamoto T. (2008)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 246175 HGNC: 18042 AceView: CNOT6L Ensembl:ENSG00000138767 euGenes: HUgn246175
    ECgene: CNOT6L Kegg: 246175 H-InvDB: CNOT6L

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for CNOT6L Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for CNOT6L gene:
    Search GeneIP for patents involving CNOT6L

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



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