Atlas of Genetics and Cytogenetics in Oncology and Haematology


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TNRC6C (trinucleotide repeat containing 6C)

Identity

Alias_symbol (synonym)KIAA1582
FLJ20015
Other alias-
HGNC (Hugo) TNRC6C
LocusID (NCBI) 57690
Atlas_Id 75043
Location 17q25.3  [Link to chromosome band 17q25]
Location_base_pair Starts at 78004237 and ends at 78108835 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
AFMID (17q25.3) / TNRC6C (17q25.3)TNRC6C (17q25.3) / ALG2 (9q22.33)TNRC6C (17q25.3) / APPBP2 (17q23.2)
TNRC6C (17q25.3) / PLCB4 (20p12.2)TNRC6C (17q25.3) / RIN3 (14q32.12)TNRC6C (17q25.3) / SCAPER (15q24.3)
TNRC6C PLCB4TNRC6C SCAPERTNRC6C APPBP2

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)TNRC6C   29318
Cards
Entrez_Gene (NCBI)TNRC6C  57690  trinucleotide repeat containing 6C
Aliases
GeneCards (Weizmann)TNRC6C
Ensembl hg19 (Hinxton)ENSG00000078687 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000078687 [Gene_View]  chr17:78004237-78108835 [Contig_View]  TNRC6C [Vega]
ICGC DataPortalENSG00000078687
TCGA cBioPortalTNRC6C
AceView (NCBI)TNRC6C
Genatlas (Paris)TNRC6C
WikiGenes57690
SOURCE (Princeton)TNRC6C
Genetics Home Reference (NIH)TNRC6C
Genomic and cartography
GoldenPath hg38 (UCSC)TNRC6C  -     chr17:78004237-78108835 +  17q25.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TNRC6C  -     17q25.3   [Description]    (hg19-Feb_2009)
EnsemblTNRC6C - 17q25.3 [CytoView hg19]  TNRC6C - 17q25.3 [CytoView hg38]
Mapping of homologs : NCBITNRC6C [Mapview hg19]  TNRC6C [Mapview hg38]
OMIM610741   
Gene and transcription
Genbank (Entrez)AB046802 AI337097 AK000022 AK054995 AK056421
RefSeq transcript (Entrez)NM_001142640 NM_018996
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TNRC6C
Cluster EST : UnigeneHs.569831 [ NCBI ]
CGAP (NCI)Hs.569831
Alternative Splicing GalleryENSG00000078687
Gene ExpressionTNRC6C [ NCBI-GEO ]   TNRC6C [ EBI - ARRAY_EXPRESS ]   TNRC6C [ SEEK ]   TNRC6C [ MEM ]
Gene Expression Viewer (FireBrowse)TNRC6C [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57690
GTEX Portal (Tissue expression)TNRC6C
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9HCJ0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9HCJ0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9HCJ0
Splice isoforms : SwissVarQ9HCJ0
PhosPhoSitePlusQ9HCJ0
Domaine pattern : Prosite (Expaxy)UBA (PS50030)   
Domains : Interpro (EBI)Argonaute_hook_dom    GW182_M_dom    Nucleotide-bd_a/b_plait    RRM_dom    TNRC6_PABC-bd    TNRC6C    UBA    UBA-like   
Domain families : Pfam (Sanger)Ago_hook (PF10427)    M_domain (PF12938)    RRM_1 (PF00076)    TNRC6-PABC_bdg (PF16608)    UBA (PF00627)   
Domain families : Pfam (NCBI)pfam10427    pfam12938    pfam00076    pfam16608    pfam00627   
Domain families : Smart (EMBL)UBA (SM00165)  
Conserved Domain (NCBI)TNRC6C
DMDM Disease mutations57690
Blocks (Seattle)TNRC6C
PDB (SRS)2DKL    2X04    3KTP   
PDB (PDBSum)2DKL    2X04    3KTP   
PDB (IMB)2DKL    2X04    3KTP   
PDB (RSDB)2DKL    2X04    3KTP   
Structural Biology KnowledgeBase2DKL    2X04    3KTP   
SCOP (Structural Classification of Proteins)2DKL    2X04    3KTP   
CATH (Classification of proteins structures)2DKL    2X04    3KTP   
SuperfamilyQ9HCJ0
Human Protein AtlasENSG00000078687
Peptide AtlasQ9HCJ0
HPRD10026
IPIIPI00030572   IPI00043407   IPI00332706   
Protein Interaction databases
DIP (DOE-UCLA)Q9HCJ0
IntAct (EBI)Q9HCJ0
FunCoupENSG00000078687
BioGRIDTNRC6C
STRING (EMBL)TNRC6C
ZODIACTNRC6C
Ontologies - Pathways
QuickGOQ9HCJ0
Ontology : AmiGORNA binding  protein binding  cytosol  Wnt signaling pathway, calcium modulating pathway  posttranscriptional gene silencing by RNA  gene silencing by miRNA  miRNA mediated inhibition of translation  phosphatidylinositol-mediated signaling  positive regulation of nuclear-transcribed mRNA poly(A) tail shortening  positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay  
Ontology : EGO-EBIRNA binding  protein binding  cytosol  Wnt signaling pathway, calcium modulating pathway  posttranscriptional gene silencing by RNA  gene silencing by miRNA  miRNA mediated inhibition of translation  phosphatidylinositol-mediated signaling  positive regulation of nuclear-transcribed mRNA poly(A) tail shortening  positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay  
NDEx NetworkTNRC6C
Atlas of Cancer Signalling NetworkTNRC6C
Wikipedia pathwaysTNRC6C
Orthology - Evolution
OrthoDB57690
GeneTree (enSembl)ENSG00000078687
Phylogenetic Trees/Animal Genes : TreeFamTNRC6C
HOVERGENQ9HCJ0
HOGENOMQ9HCJ0
Homologs : HomoloGeneTNRC6C
Homology/Alignments : Family Browser (UCSC)TNRC6C
Gene fusions - Rearrangements
Fusion: TCGATNRC6C PLCB4
Fusion: TCGATNRC6C SCAPER
Fusion: TCGATNRC6C APPBP2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTNRC6C [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TNRC6C
dbVarTNRC6C
ClinVarTNRC6C
1000_GenomesTNRC6C 
Exome Variant ServerTNRC6C
ExAC (Exome Aggregation Consortium)TNRC6C (select the gene name)
Genetic variants : HAPMAP57690
Genomic Variants (DGV)TNRC6C [DGVbeta]
DECIPHERTNRC6C [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTNRC6C 
Mutations
ICGC Data PortalTNRC6C 
TCGA Data PortalTNRC6C 
Broad Tumor PortalTNRC6C
OASIS PortalTNRC6C [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTNRC6C  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTNRC6C
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch TNRC6C
DgiDB (Drug Gene Interaction Database)TNRC6C
DoCM (Curated mutations)TNRC6C (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TNRC6C (select a term)
intoGenTNRC6C
Cancer3DTNRC6C(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM610741   
Orphanet
MedgenTNRC6C
Genetic Testing Registry TNRC6C
NextProtQ9HCJ0 [Medical]
TSGene57690
GENETestsTNRC6C
Target ValidationTNRC6C
Huge Navigator TNRC6C [HugePedia]
snp3D : Map Gene to Disease57690
BioCentury BCIQTNRC6C
ClinGenTNRC6C
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57690
Chemical/Pharm GKB GenePA134880671
Clinical trialTNRC6C
Miscellaneous
canSAR (ICR)TNRC6C (select the gene name)
Probes
Litterature
PubMed31 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTNRC6C
EVEXTNRC6C
GoPubMedTNRC6C
iHOPTNRC6C
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 18 13:42:14 CEST 2017

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