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

TNR Gene

protein-coding   GIFtS: 66
GCID: GC01M175291

Tenascin R

  See related diseases
at  

(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 4.2

Aliases
Tenascin R1 2     tenascin-R2
janusin1 2     Janusin3
restrictin1 2     Restrictin3
TN-R2 3     

External Ids:    HGNC: 119531   Entrez Gene: 71432   Ensembl: ENSG000001161477   OMIM: 6019955   UniProtKB: Q927523   
ORGUL members:    fRNAdb10:FR225370 FR049009      
H-InvDB12:HIT000325769    
NCBI13:Y13359    
NONCODE14:n326321 n338375 n326320      
RNAdb15:HIV1373 EVF16282    

Export aliases for TNR gene to outside databases

Previous GC identifers: GC01M172816 GC01M170720 GC01M171872 GC01M172531 GC01M172023 GC01M173558 GC01M146518


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

Entrez Gene summary for TNR Gene:
This gene encodes a member of the tenascin family of extracellular matrix glycoproteins. The encoded protein is
restricted to the central nervous system. The protein may play a role in neurite outgrowth, neural cell adhesion
and modulation of sodium channel function. It is a constituent of perineuronal nets. (provided by RefSeq, Aug
2013)

GeneCards Summary for TNR Gene: 
TNR (tenascin R) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with TNR include osteochondritis dissecans, and borna disease, and among its related super-pathways are Focal Adhesion and ECM-receptor interaction. GO annotations related to this gene include receptor binding. An important paralog of this gene is FGG.

UniProtKB/Swiss-Prot: TENR_HUMAN, Q92752
Function: Neural extracellular matrix (ECM) protein involved in interactions with different cells and matrix
components. These interactions can influence cellular behavior by either evoking a stable adhesion and
differentiation, or repulsion and inhibition of neurite growth. Binding to cell surface gangliosides inhibits
RGD-dependent integrin-mediated cell adhesion and results in an inhibition of PTK2/FAK1 (FAK) phosphorylation and
cell detachment. Binding to membrane surface sulfatides results in a oligodendrocyte adhesion and
differentiation. Interaction with CNTN1 induces a repulsion of neurons and an inhibition of neurite outgrowth.
Interacts with SCN2B may play a crucial role in clustering and regulation of activity of sodium channels at nodes
of Ranvier. TNR-linked chondroitin sulfate glycosaminoglycans are involved in the interaction with FN1 and
mediate inhibition of cell adhesion and neurite outgrowth. The highly regulated addition of sulfated carbohydrate
structure may modulate the adhesive properties of TNR over the course of development and during synapse
maintenance (By similarity)

Gene Wiki entry for TNR (Tenascin-R) Gene

fRNAdb sequence ontologies for TNR - the ORGUL cluster for this gene includes several descriptions:
ncRNA - An RNA transcript that does not encode for a protein rather the RNA molecule is the gene product.
nc_conserved_region - Non-coding region of sequence similarity by descent from a common ancestor.

View fRNAdb secondary structures for TNR

(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TNR gene promoter:
         LHX3b/Lhx3b   Sox5   STAT1   RP58   ATF-2   Olf-1   HEN1   CRE-BP1   LHX3a/Lhx3a   PPAR-gamma2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTNR promoter sequence
   Search SABiosciences Chromatin IP Primers for TNR

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


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

Entrez Gene cytogenetic band: 1q24   Ensembl cytogenetic band:  1q25.1   HGNC cytogenetic band: 1q24

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

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M175291:  view genomic region     (about GC identifiers)

Start:
175,291,935 bp from pter      End:
175,712,906 bp from pter
Size:
420,972 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for TNR

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TENR_HUMAN, Q92752 (See protein sequence)
Recommended Name: Tenascin-R precursor  
Size: 1358 amino acids; 149562 Da
Subunit: Forms oligomers. Interacts with CNTN1, TNC, and FN1. Interacts with BCAN and ACAN in a calcium-dependent
manner. Interacts with SCN2B, PTPRZ1, and CSPG3 (By similarity)
Subcellular location: Secreted, extracellular space, extracellular matrix
Secondary accessions: C9J563 Q15568 Q5R3G0
Alternative splicing: 2 isoforms:  Q92752-1   Q92752-2   

Explore the universe of human proteins at neXtProt for TNR: NX_Q92752

Explore proteomics data for TNR at MOPED 

Post-translational modifications:

  • UniProtKB: Contains N-linked oligosaccharides, O-linked sialylated structures and O-linked chondroitin sulfate
    glycosaminoglycans. Contains N-linked oligosaccharides with a sulfated carbohydrate structure (By similarity).
    O-glycosylated on Thr-36 or Thr-37 with a core 1 or possibly core 8 glycan
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q92752

  • TNR Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TNR Protein Expression
    REFSEQ proteins: NP_003276.3  
    ENSEMBL proteins: 
     ENSP00000356646   ENSP00000403413   ENSP00000263525  
    Reactome Protein details: Q92752
    Human Recombinant Protein Products for TNR: 
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    Novus Biologicals TNR Protein
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for TNR 

    Gene Ontology (GO): 5/8 cellular component terms (GO ID links to tree view) (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0005578proteinaceous extracellular matrix IEA--
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--

    TNR for ontologies           About GeneDecksing



    TNR Antibody Products: 
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    LSBio Antibodies in human, mouse, rat for TNR 

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    FN3: Fibronectin type III domain containing
    FIBC: Fibrinogen C domain containing

    5/7 InterPro protein domains (see all 7):
     IPR003961 Fibronectin_type3
     IPR013032 EGF-like_CS
     IPR014715 Fibrinogen_a/b/g_C_2
     IPR002181 Fibrinogen_a/b/g_C_dom
     IPR013111 EGF_extracell

    Graphical View of Domain Structure for InterPro Entry Q92752

    ProtoNet protein and cluster: Q92752

    1 Blocks protein domain: IPB002181 Fibrinogen

    UniProtKB/Swiss-Prot: TENR_HUMAN, Q92752
    Domain: The EGF-like domains mediate interaction with CNTN1. The fibronectin type-III domains 3-5 mediate
    interaction with BCAN. The fibronectin type-III domains 1-2 and 7-9 mediate interaction with SCN2B (By
    similarity)
    Similarity: Belongs to the tenascin family
    Similarity: Contains 5 EGF-like domains
    Similarity: Contains 1 fibrinogen C-terminal domain
    Similarity: Contains 9 fibronectin type-III domains


    TNR for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TENR_HUMAN, Q92752
    Function: Neural extracellular matrix (ECM) protein involved in interactions with different cells and matrix
    components. These interactions can influence cellular behavior by either evoking a stable adhesion and
    differentiation, or repulsion and inhibition of neurite growth. Binding to cell surface gangliosides inhibits
    RGD-dependent integrin-mediated cell adhesion and results in an inhibition of PTK2/FAK1 (FAK) phosphorylation and
    cell detachment. Binding to membrane surface sulfatides results in a oligodendrocyte adhesion and
    differentiation. Interaction with CNTN1 induces a repulsion of neurons and an inhibition of neurite outgrowth.
    Interacts with SCN2B may play a crucial role in clustering and regulation of activity of sodium channels at nodes
    of Ranvier. TNR-linked chondroitin sulfate glycosaminoglycans are involved in the interaction with FN1 and
    mediate inhibition of cell adhesion and neurite outgrowth. The highly regulated addition of sulfated carbohydrate
    structure may modulate the adhesive properties of TNR over the course of development and during synapse
    maintenance (By similarity)

         Genatlas biochemistry entry for TNR:
    tenascin-R,extracellular neural recognition molecule,expressed in glia and some neuronal subtypes,including
    horizontal cells in retina,putative ortholog of mouse loop-tail,interacting with fibronectin-dependent cell
    attachment and interaction,inhibitor of CD3-mediated T cell interaction

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
         
    TNR for ontologies           About GeneDecksing


    Phenotypes:
         2 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Tnr):
     nervous system  no phenotypic analysis 

    TNR for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Tnrtm1Msch for TNR

       inGenious Targeting Laboratory - Custom generated mouse model solutions for TNR 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for TNR

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TNR 
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    miRNA
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    hsa-miR-3163 hsa-miR-205 hsa-miR-922 hsa-miR-7-2* hsa-miR-516b* hsa-miR-1279 hsa-miR-340 hsa-miR-656
    SwitchGear 3'UTR luciferase reporter plasmidTNR 3' UTR sequence
    Inhib. RNA
    Products:
        
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    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for TNR About   (see all 6)                                                                                              See pathways by source

    SuperPathContained pathways About
    1Focal Adhesion
    Focal Adhesion0.64
    Focal adhesion0.64
    2Non-integrin membrane-ECM interactions
    ECM-receptor interaction0.42
    ECM proteoglycans0.38
    3Cell adhesion Cell-matrix glycoconjugates
    Cell adhesion Cell-matrix glycoconjugates0.97
    4Collagen biosynthesis and modifying enzymes
    Extracellular matrix organization0.39
    5MicroRNAs in cancer
    MicroRNAs in cancer

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for TNR
        Cell adhesion Cell-matrix glycoconjugates


    1 GeneGo (Thomson Reuters) Pathway for TNR
        Cell adhesion Cell-matrix glycoconjugates

    1 BioSystems Pathway for TNR
        Focal Adhesion

    2        Reactome Pathways for TNR
        ECM proteoglycans
    Extracellular matrix organization


    4         Kegg Pathways  (Kegg details for TNR):
        PI3K-Akt signaling pathway
    Focal adhesion
    ECM-receptor interaction
    MicroRNAs in cancer


    TNR for pathways           About GeneDecksing

    Interactions:

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

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

    5/39 Interacting proteins for TNR (Q927523 ENSP000002635254) via UniProtKB, MINT, STRING, and/or I2D (see all 39)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CNTN1Q128603, ENSP000003256604I2D: score=1 STRING: ENSP00000325660
    MYCP011063, ENSP000003672074I2D: score=1 STRING: ENSP00000367207
    NFASCO948563, ENSP000003531544I2D: score=1 STRING: ENSP00000353154
    SIGLEC1Q9BZZ23, ENSP000003411414I2D: score=1 STRING: ENSP00000341141
    BCANQ96GW73, ENSP000003312104I2D: score=2 STRING: ENSP00000331210
    About this table

    Gene Ontology (GO): 5/18 biological process terms (GO ID links to tree view) (see all 18):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007155cell adhesion NAS8940128
    GO:0007158neuron cell-cell adhesion IEA--
    GO:0007411axon guidance NAS8940128
    GO:0008306associative learning IEA--
    GO:0010977negative regulation of neuron projection development ----

    TNR for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    TNR for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TNR (TENR)

    2 HMDB Compounds for TNR    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--
    SodiumSodium (see all 2)7440-23-5--

    6 Novoseek inferred chemical compound relationships for TNR gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    neurocan 88.3 7 9507007 (2), 16899820 (2), 10483914 (1), 18696101 (1) (see all 5)
    chondroitin sulfate 38.9 1 18696101 (1)
    calcium 0 2 9507007 (1), 17537973 (1)
    tyrosine 0 1 17068968 (1)
    testosterone 0 3 7539301 (2), 8933378 (1)
    polysaccharide 0 3 10406848 (2), 17537973 (1)

    Search CenterWatch for drugs/clinical trials and news about TNR / TENR

    (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,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    2 fRNAdb Secondary structures:


    REFSEQ mRNAs for TNR gene: 
    NM_003285.2  

    Unigene Cluster for TNR:

    Tenascin R
    Hs.659864  [show with all ESTs]
    Unigene Representative Sequence: NM_003285
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000367674(uc009wwu.1 uc010pmz.1) ENST00000422274 ENST00000263525(uc001gkp.1)

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    hsa-miR-3163 hsa-miR-205 hsa-miR-922 hsa-miR-7-2* hsa-miR-516b* hsa-miR-1279 hsa-miR-340 hsa-miR-656
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    Additional mRNA sequence: 

    AK295823.1 BC129830.1 X98085.1 Y13359.1 Z67996.1 

    2 DOTS entries:

    DT.406347  DT.91720346 

    24/67 AceView cDNA sequences (see all 67):

    BF929429 BE223030 AW160530 AW293883 BF934451 BG007389 BF514861 CD244497 
    BF055935 BF740231 AI879057 AW162141 AI937903 BF514713 AI796913 BX950894 
    AA975526 BQ639392 BX115029 BC021852 AI298431 BG912903 AA931902 BE222657 

    GeneLoc Exon Structure


    (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

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


    TNR expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/1 selected tissues (see all 1) fully expand
     
     Brain (Nervous System)
             Cerebral Cortex

    See TNR Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TNR

    SOURCE GeneReport for Unigene cluster: Hs.659864

    UniProtKB/Swiss-Prot: TENR_HUMAN, Q92752
    Tissue specificity: Brain specific

        SABiosciences Expression via Pathway-Focused PCR Array including TNR: 
              Neurogenesis in human mouse rat

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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TNR

    (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.

    Orthologs for TNR gene from 6/14 species (see all 14)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tnr1 , 5 tenascin R1, 5 88.27(n)1
    93.23(a)1
      1 (69.03 cM)5
    219601  NM_022312.31  NP_071707.21 
     1597375105 
    chicken
    (Gallus gallus)
    Aves TNR1 tenascin R (restrictin, janusin) 75.67(n)
    75.52(a)
      396213  NM_205276.2  NP_990607.2 
    lizard
    (Anolis carolinensis)
    Reptilia TNR6
    Uncharacterized protein
    77(a)
    1 ↔ 1
    4(71897527-72045815)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia BX724236.12   -- 77.3(n)    BX724236.1 
    zebrafish
    (Danio rerio)
    Actinopterygii AY286489.12   -- 73.82(n)   369191  AY286489.1 
    worm
    (Caenorhabditis elegans)
    Secernentea D1009.36
    Protein D1009.3, isoform a
    22(a)
    1 → many
    X(8908050-8910828)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TNR gene
    FGG2  FGA2  ANGPTL42  ANGPTL32  TNXB2  TNN2  FGB2  ANGPTL52  
    TNC2  FGL12  FN12  
    12 SIMAP similar genes for TNR using alignment to 3 protein entries:     TENR_HUMAN (see all proteins):
    FCN3    ANGPTL2    FCN2    MFAP4    FIBCD1    FCN1
    ANGPTL7    TNN    FGL1    LFIRE1    TNC    TNXB

    TNR for paralogs           About GeneDecksing



    (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) 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

    10/9205 SNPs in TNR are shown (see all 9205)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs107984091,2
    C,F,A,Huntested1175590376(+) CATCTA/G/TTCTGC 1 -- int134EA NA NS WA CSA 2989
    rs557157611,2
    C--146550885(+) ATGAGCA/-ATCCT 1 -- int11Minor allele frequency- -:0.50CSA 2
    rs3748027821,2
    C--146565864(+) ttttt-/TT/   
       TTTTT
    GGTGA
    1 -- int11NA 2
    rs561896231,2
    C--146850428(+) TTTTT-/T/TT  
            
    GGAGA
    1 -- int11NA 2
    rs1894811471,2
    --175291450(+) TGGGAA/GCTAGA 1 -- ds50010--------
    rs1810226661,2
    --175291452(+) GGAACC/TAGATT 1 -- ds50010--------
    rs1431545371,2
    --175291489(+) CTCTGC/GGGTCT 1 -- ds50010--------
    rs1850525901,2
    --175291615(+) TGGCCA/CATTAT 1 -- ds50010--------
    rs1466789651,2
    C--175291720(+) ACCAGA/CCTGGA 1 -- ds50010--------
    rs1894276661,2
    --175291757(+) AAAAAA/GTAAAA 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for TNR (175291935 - 175541935 bp, first 250kb of TNR)

    Structural Variations
         Database of Genomic Variants (DGV) 10/22 variations for TNR (see all 22):    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2670531CNV Deletion23128226
    esv2719640CNV Deletion23290073
    esv2719662CNV Deletion23290073
    esv1283541CNV Deletion17803354
    esv2719673CNV Deletion23290073
    esv1005191CNV Deletion20482838
    esv2719651CNV Deletion23290073
    esv2719629CNV Deletion23290073
    nsv3633CNV Insertion18451855
    nsv3644CNV Insertion18451855


    Human Gene Mutation Database (HGMD): TNR
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing TNR
    DNA2.0 Custom Variant and Variant Library Synthesis for TNR

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 601995OMIM information: 115665 116600 121800 155600 211420 600975 605225 605606 606788 606852 606928 607317 607671 608446 608543 608553 608995 605008    
    14 diseases for TNR:    About MalaCards
    osteochondritis dissecans    borna disease    ehlers-danlos syndrome    pilocytic astrocytoma
    multiple sclerosis    astrocytoma    medulloblastoma    atherosclerosis
    cerebritis    schizophrenia    neuroblastoma    hepatocellular carcinoma
    breast cancer    neuronitis

    1 disease from the University of Copenhagen DISEASES database for TNR:
    Ehlers-Danlos syndrome

    TNR for disorders           About GeneDecksing

    2 Novoseek inferred disease relationships for TNR gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    tumors 0 1 15615725 (1)
    multiple sclerosis 0 3 10417662 (2)

    Genetic Association Database (GAD): TNR
    Human Genome Epidemiology (HuGE) Navigator: TNR (17 documents)

    Export disorders for TNR 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 TNR gene, integrated from 9 sources (see all 110):
    (articles sorted by number of sources associating them with TNR)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Human tenascin-R: complete primary structure, pre-mRNA alternative splicing and gene localization on chromosome 1q23-q24. (PubMed id 8626505)1, 2, 3, 9 Carnemolla B.... Zardi L. (1996)
    2. Parallel genotyping of 10,204 single nucleotide polym orphisms to screen for susceptible genes for IgA nephropathy. (PubMed id 19890582)1, 4, 9 Woo K.T....Chan C.M. (2009)
    3. The human tenascin-R gene. (PubMed id 8940128)1, 3, 9 Leprini A....Zardi L. (1996)
    4. Association of the NPAS3 gene and five other loci with response to the antipsychotic iloperidone identified in a whole genome association study. (PubMed id 18521090)1, 4, 9 Lavedan C....Polymeropoulos M.H. (2008)
    5. Identification of fetal and maternal single nucleotid e polymorphisms in candidate genes that predispose to spontaneous preterm labor with intact membranes. (PubMed id 20452482)1, 4 Romero R....Menon R. (2010)
    6. A genetic association study of maternal and fetal can didate genes that predispose to preterm prelabor rupture of membranes (PROM). (PubMed id 20673868)1, 4 Romero R....Menon R. (2010)
    7. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (2010)
    8. Applicability of a genetic signature for enhanced ilo peridone efficacy in the treatment of schizophrenia. (PubMed id 19573479)1, 4 Volpi S....Lavedan C. (2009)
    9. Genetic contribution to all cancers: the first demonstration using the model of breast cancers from Poland stratified by age at diagnosis and tumour pathology. (PubMed id 18415014)1, 4 Lubinski J....Scott R. (2008)
    10. Framingham Heart Study 100K Project: genome-wide associations for blood pressure and arterial stiffness. (PubMed id 17903302)1, 4 Levy D....Mitchell G.F. (2007)

    (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)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 7143 HGNC: 11953 AceView: TNR Ensembl:ENSG00000116147 euGenes: HUgn7143
    ECgene: TNR Kegg: 7143 H-InvDB: TNR

    (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 TNR Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for TNR Genetics and Cytogenetics in Oncology and Haematology

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

    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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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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