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TNR (tenascin R)

Identity

Other namesTN-R
HGNC (Hugo) TNR
LocusID (NCBI) 7143
Location 1q25.1
Location_base_pair Starts at 175291935 and ends at 175712752 bp from pter ( according to hg19-Feb_2009)
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
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
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)AC_000133 NC_000001 NC_018912 NT_004487 NW_001838533 NW_004929293
Consensus coding sequences : CCDS (NCBI)TNR
Cluster EST : UnigeneHs.659864 [ NCBI ]
CGAP (NCI)Hs.659864
Alternative Splicing : Fast-db (Paris)GSHG0002759
Alternative Splicing GalleryENSG00000116147
Gene ExpressionTNR [ NCBI-GEO ]     TNR [ SEEK ]   TNR [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92752 (Uniprot)
NextProtQ92752  [Medical]
With graphics : InterProQ92752
Splice isoforms : SwissVarQ92752 (Swissvar)
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    Fibronectin_type3    Ig-like_fold   
Related proteins : CluSTrQ92752
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)Q92752
Human Protein AtlasENSG00000116147
Peptide AtlasQ92752
HPRD03589
IPIIPI00160552   IPI00554760   IPI00514663   
Protein Interaction databases
DIP (DOE-UCLA)Q92752
IntAct (EBI)Q92752
FunCoupENSG00000116147
BioGRIDTNR
IntegromeDBTNR
STRING (EMBL)TNR
Ontologies - Pathways
QuickGOQ92752
Ontology : AmiGOextracellular region  proteinaceous extracellular matrix  nucleus  nucleolus  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  nucleolus  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   
Protein Interaction DatabaseTNR
DoCM (Curated mutations)TNR
Wikipedia pathwaysTNR
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerTNR [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TNR
dbVarTNR
ClinVarTNR
1000_GenomesTNR 
Exome Variant ServerTNR
SNP (GeneSNP Utah)TNR
SNP : HGBaseTNR
Genetic variants : HAPMAPTNR
Genomic VariantsTNR  TNR [DGVbeta]
Mutations
ICGC Data PortalENSG00000116147 
Somatic Mutations in Cancer : COSMICTNR 
CONAN: Copy Number AnalysisTNR 
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
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)1:175291935-175712752
Mutations and Diseases : HGMDTNR
OMIM601995   
MedgenTNR
NextProtQ92752 [Medical]
GENETestsTNR
Disease Genetic AssociationTNR
Huge Navigator TNR [HugePedia]  TNR [HugeCancerGEM]
snp3D : Map Gene to Disease7143
DGIdb (Drug Gene Interaction db)TNR
General knowledge
Homologs : HomoloGeneTNR
Homology/Alignments : Family Browser (UCSC)TNR
Phylogenetic Trees/Animal Genes : TreeFamTNR
Chemical/Protein Interactions : CTD7143
Chemical/Pharm GKB GenePA36642
Clinical trialTNR
Cancer Resource (Charite)ENSG00000116147
Other databases
Probes
Litterature
PubMed46 Pubmed reference(s) in Entrez
CoreMineTNR
GoPubMedTNR
iHOPTNR
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated12-2014Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sun Dec 21 02:01:38 CET 2014

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