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TNR (tenascin R)

Identity

Other namesTN-R
HGNC (Hugo) TNR
LocusID (NCBI) 7143
Atlas_Id 42649
Location 1q25.1  [Link to chromosome band 1q25]
Location_base_pair Starts at 175291935 and ends at 175712752 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
CREBBP (16p13.3) / TNR (1q25.1)

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)TNR   11953
Cards
Entrez_Gene (NCBI)TNR  7143  tenascin R
AliasesTN-R
GeneCards (Weizmann)TNR
Ensembl hg19 (Hinxton)ENSG00000116147 [Gene_View]  chr1:175291935-175712752 [Contig_View]  TNR [Vega]
Ensembl hg38 (Hinxton)ENSG00000116147 [Gene_View]  chr1:175291935-175712752 [Contig_View]  TNR [Vega]
ICGC DataPortalENSG00000116147
TCGA cBioPortalTNR
AceView (NCBI)TNR
Genatlas (Paris)TNR
WikiGenes7143
SOURCE (Princeton)TNR
Genomic and cartography
GoldenPath hg19 (UCSC)TNR  -     chr1:175291935-175712752 -  1q25.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TNR  -     1q25.1   [Description]    (hg38-Dec_2013)
EnsemblTNR - 1q25.1 [CytoView hg19]  TNR - 1q25.1 [CytoView hg38]
Mapping of homologs : NCBITNR [Mapview hg19]  TNR [Mapview hg38]
OMIM601995   
Gene and transcription
Genbank (Entrez)AK295823 AV650210 BC129830 DA804585 DB068074
RefSeq transcript (Entrez)NM_003285
RefSeq genomic (Entrez)NC_000001 NC_018912 NT_004487 NW_004929293
Consensus coding sequences : CCDS (NCBI)TNR
Cluster EST : UnigeneHs.659864 [ NCBI ]
CGAP (NCI)Hs.659864
Alternative Splicing GalleryENSG00000116147
Gene ExpressionTNR [ NCBI-GEO ]   TNR [ EBI - ARRAY_EXPRESS ]   TNR [ SEEK ]   TNR [ MEM ]
Gene Expression Viewer (FireBrowse)TNR [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7143
GTEX Portal (Tissue expression)TNR
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92752 (Uniprot)
NextProtQ92752  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ92752
Splice isoforms : SwissVarQ92752 (Swissvar)
PhosPhoSitePlusQ92752
Domaine pattern : Prosite (Expaxy)EGF_1 (PS00022)    EGF_2 (PS01186)    FIBRINOGEN_C_2 (PS51406)    FN3 (PS50853)   
Domains : Interpro (EBI)EGF-like_CS    EGF_extracell    Fibrinogen_a/b/g_C_1    Fibrinogen_a/b/g_C_2    Fibrinogen_a/b/g_C_dom    FN3_dom    Ig-like_fold   
Domain families : Pfam (Sanger)EGF_2 (PF07974)    Fibrinogen_C (PF00147)    fn3 (PF00041)   
Domain families : Pfam (NCBI)pfam07974    pfam00147    pfam00041   
Domain families : Smart (EMBL)FBG (SM00186)  FN3 (SM00060)  
DMDM Disease mutations7143
Blocks (Seattle)TNR
SuperfamilyQ92752
Human Protein AtlasENSG00000116147
Peptide AtlasQ92752
HPRD03589
IPIIPI00160552   IPI00554760   IPI00514663   
Protein Interaction databases
DIP (DOE-UCLA)Q92752
IntAct (EBI)Q92752
FunCoupENSG00000116147
BioGRIDTNR
STRING (EMBL)TNR
ZODIACTNR
Ontologies - Pathways
QuickGOQ92752
Ontology : AmiGOextracellular region  proteinaceous extracellular matrix  nucleus  nucleoplasm  cytoplasm  cell adhesion  neuron cell-cell adhesion  axon guidance  associative learning  cell surface  telencephalon cell migration  negative regulation of cell-cell adhesion  extracellular matrix organization  locomotory exploration behavior  membrane raft  negative regulation of axon extension involved in regeneration  negative regulation of synaptic transmission  synapse organization  neuromuscular process controlling balance  positive regulation of synaptic transmission, glutamatergic  positive regulation of transmission of nerve impulse  long-term synaptic potentiation  perineuronal net  
Ontology : EGO-EBIextracellular region  proteinaceous extracellular matrix  nucleus  nucleoplasm  cytoplasm  cell adhesion  neuron cell-cell adhesion  axon guidance  associative learning  cell surface  telencephalon cell migration  negative regulation of cell-cell adhesion  extracellular matrix organization  locomotory exploration behavior  membrane raft  negative regulation of axon extension involved in regeneration  negative regulation of synaptic transmission  synapse organization  neuromuscular process controlling balance  positive regulation of synaptic transmission, glutamatergic  positive regulation of transmission of nerve impulse  long-term synaptic potentiation  perineuronal net  
Pathways : KEGGPI3K-Akt signaling pathway    Focal adhesion    ECM-receptor interaction    MicroRNAs in cancer   
NDEx NetworkTNR
Atlas of Cancer Signalling NetworkTNR
Wikipedia pathwaysTNR
Orthology - Evolution
OrthoDB7143
GeneTree (enSembl)ENSG00000116147
Phylogenetic Trees/Animal Genes : TreeFamTNR
Homologs : HomoloGeneTNR
Homology/Alignments : Family Browser (UCSC)TNR
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerTNR [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TNR
dbVarTNR
ClinVarTNR
1000_GenomesTNR 
Exome Variant ServerTNR
ExAC (Exome Aggregation Consortium)TNR (select the gene name)
Genetic variants : HAPMAP7143
Genomic Variants (DGV)TNR [DGVbeta]
Mutations
ICGC Data PortalTNR 
TCGA Data PortalTNR 
Broad Tumor PortalTNR
OASIS PortalTNR [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTNR 
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 TNR
DgiDB (Drug Gene Interaction Database)TNR
DoCM (Curated mutations)TNR (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TNR (select a term)
intoGenTNR
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)1:175291935-175712752  ENSG00000116147
CONAN: Copy Number AnalysisTNR 
Mutations and Diseases : HGMDTNR
OMIM601995   
MedgenTNR
Genetic Testing Registry TNR
NextProtQ92752 [Medical]
TSGene7143
GENETestsTNR
Huge Navigator TNR [HugePedia]
snp3D : Map Gene to Disease7143
BioCentury BCIQTNR
ClinGenTNR
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD7143
Chemical/Pharm GKB GenePA36642
Clinical trialTNR
Miscellaneous
canSAR (ICR)TNR (select the gene name)
Probes
Litterature
PubMed47 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTNR
EVEXTNR
GoPubMedTNR
iHOPTNR
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 19 19:17:21 CEST 2016

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