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Aliases for TNR Gene

Aliases for TNR Gene

  • Tenascin R 2 3 5
  • Restrictin 2 3 4
  • Janusin 2 3 4
  • TN-R 3 4
  • Tenascin-R 3

External Ids for TNR Gene

Previous GeneCards Identifiers for TNR Gene

  • GC01M172816
  • GC01M170720
  • GC01M171872
  • GC01M172531
  • GC01M172023
  • GC01M173558
  • GC01M146518

Summaries for TNR Gene

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. Diseases associated with TNR include Familial Osteochondritis Dissecans and Osteochondritis Dissecans. Among its related pathways are Focal Adhesion and Cell adhesion_Cell-matrix glycoconjugates. An important paralog of this gene is TNC.

UniProtKB/Swiss-Prot for TNR Gene

  • 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 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNR Gene

Genomics for TNR Gene

Regulatory Elements for TNR Gene

Enhancers for TNR Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
- Elite enhancer/Elite enhancer-gene association

Enhancers around TNR on UCSC Golden Path with GeneCards custom track

Genomic Location for TNR Gene

Chromosome:
1
Start:
175,315,194 bp from pter
End:
175,743,770 bp from pter
Size:
428,577 bases
Orientation:
Minus strand

Genomic View for TNR Gene

Genes around TNR on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TNR Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TNR Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNR Gene

Proteins for TNR Gene

  • Protein details for TNR Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q92752-TENR_HUMAN
    Recommended name:
    Tenascin-R
    Protein Accession:
    Q92752
    Secondary Accessions:
    • C9J563
    • Q15568
    • Q5R3G0

    Protein attributes for TNR Gene

    Size:
    1358 amino acids
    Molecular mass:
    149562 Da
    Quaternary structure:
    • 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).

    Alternative splice isoforms for TNR Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNR Gene

Post-translational modifications for TNR Gene

  • 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.
  • Glycosylation at Thr 36, Thr 37, Asn 55, Asn 180, Asn 198, Asn 278, Asn 392, Asn 470, Asn 581, Asn 791, Asn 874, Asn 1036, Asn 1046, and Asn 1261
  • Modification sites at PhosphoSitePlus

Other Protein References for TNR Gene

No data available for DME Specific Peptides for TNR Gene

Domains & Families for TNR Gene

Suggested Antigen Peptide Sequences for TNR Gene

Graphical View of Domain Structure for InterPro Entry

Q92752

UniProtKB/Swiss-Prot:

TENR_HUMAN :
  • 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).
  • Belongs to the tenascin family.
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).
  • Contains 5 EGF-like domains.
  • Contains 1 fibrinogen C-terminal domain.
  • Contains 9 fibronectin type-III domains.
Family:
  • Belongs to the tenascin family.
genes like me logo Genes that share domains with TNR: view

Function for TNR Gene

Molecular function for TNR Gene

GENATLAS Biochemistry:
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
UniProtKB/Swiss-Prot 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).
genes like me logo Genes that share phenotypes with TNR: view

Animal Models for TNR Gene

MGI Knock Outs for TNR:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TNR Gene

Localization for TNR Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNR Gene

Secreted, extracellular space, extracellular matrix.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TNR Gene COMPARTMENTS Subcellular localization image for TNR gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 3
plasma membrane 3
mitochondrion 1

Gene Ontology (GO) - Cellular Components for TNR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IDA --
genes like me logo Genes that share ontologies with TNR: view

Pathways & Interactions for TNR Gene

genes like me logo Genes that share pathways with TNR: view

Pathways by source for TNR Gene

1 BioSystems pathway for TNR Gene
2 Reactome pathways for TNR Gene
1 GeneGo (Thomson Reuters) pathway for TNR Gene

Gene Ontology (GO) - Biological Process for TNR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion NAS 8940128
GO:0007158 neuron cell-cell adhesion IEA --
GO:0007411 axon guidance NAS 8940128
GO:0008306 associative learning IEA --
GO:0010977 negative regulation of neuron projection development IEA --
genes like me logo Genes that share ontologies with TNR: view

No data available for SIGNOR curated interactions for TNR Gene

Drugs & Compounds for TNR Gene

(4) Drugs for TNR Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0

(3) Additional Compounds for TNR Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
sodium
  • Sodium
  • Sodium ion
7440-23-5
genes like me logo Genes that share compounds with TNR: view

Transcripts for TNR Gene

Unigene Clusters for TNR Gene

Tenascin R:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TNR Gene

No ASD Table

Relevant External Links for TNR Gene

GeneLoc Exon Structure for
TNR
ECgene alternative splicing isoforms for
TNR

Expression for TNR Gene

mRNA expression in normal human tissues for TNR Gene

mRNA differential expression in normal tissues according to GTEx for TNR Gene

This gene is overexpressed in Brain - Anterior cingulate cortex (BA24) (x6.7), Brain - Amygdala (x6.3), Brain - Hippocampus (x5.3), Brain - Frontal Cortex (BA9) (x5.3), Brain - Substantia nigra (x4.6), and Brain - Hypothalamus (x4.4).

Protein differential expression in normal tissues from HIPED for TNR Gene

This gene is overexpressed in Brain (30.1), Frontal cortex (22.7), and Spinal cord (11.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TNR Gene



Protein tissue co-expression partners for TNR Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TNR Gene:

TNR

SOURCE GeneReport for Unigene cluster for TNR Gene:

Hs.659864

mRNA Expression by UniProt/SwissProt for TNR Gene:

Q92752-TENR_HUMAN
Tissue specificity: Brain specific.
genes like me logo Genes that share expression patterns with TNR: view

Primer Products

Orthologs for TNR Gene

This gene was present in the common ancestor of animals.

Orthologs for TNR Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TNR 34
  • 90.38 (n)
  • 93.45 (a)
TNR 35
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TNR 34
  • 89.81 (n)
  • 93.15 (a)
TNR 35
  • 73 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Tnr 34
  • 88.27 (n)
  • 93.23 (a)
Tnr 16
Tnr 35
  • 93 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TNR 34
  • 99.46 (n)
  • 99.63 (a)
TNR 35
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Tnr 34
  • 87.48 (n)
  • 92.99 (a)
oppossum
(Monodelphis domestica)
Mammalia TNR 35
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 91 (a)
OneToMany
-- 35
  • 84 (a)
OneToMany
chicken
(Gallus gallus)
Aves TNR 34
  • 75.66 (n)
  • 75.46 (a)
TNR 35
  • 75 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TNR 35
  • 77 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tnr 34
  • 64.68 (n)
  • 63.69 (a)
zebrafish
(Danio rerio)
Actinopterygii -- 34
tnr 34
  • 63.84 (n)
  • 61.97 (a)
tnr 35
  • 62 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG1791 36
  • 40 (a)
CG1889 36
  • 41 (a)
CG30280 36
  • 38 (a)
CG30281 36
  • 38 (a)
CG5550 36
  • 42 (a)
CG9500 36
  • 34 (a)
sca 36
  • 36 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 45 (a)
OneToMany
Species where no ortholog for TNR was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TNR Gene

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

Paralogs for TNR Gene

Paralogs for TNR Gene

(11) SIMAP similar genes for TNR Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with TNR: view

Variants for TNR Gene

Sequence variations from dbSNP and Humsavar for TNR Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs859398 - 175,406,666(-) TTGGC(A/G/T)TCAAC reference, missense
rs2239819 - 175,406,333(-) CATGT(G/T)CCAGT reference, missense
rs3752516 - 175,403,239(-) ACTGC(A/G)GCCAG intron-variant, reference, missense
rs859427 - 175,379,587(+) TGCCC(C/T)TGGGG reference, missense
rs35736986 - 175,403,211(+) GCCCA(C/T)TGCAG intron-variant, reference, missense

Structural Variations from Database of Genomic Variants (DGV) for TNR Gene

Variant ID Type Subtype PubMed ID
dgv466n100 CNV gain 25217958
dgv637n54 CNV gain 21841781
esv1005191 CNV deletion 20482838
esv1283541 CNV deletion 17803354
esv21661 CNV loss 19812545
esv2670531 CNV deletion 23128226
esv2719629 CNV deletion 23290073
esv2719640 CNV deletion 23290073
esv2719651 CNV deletion 23290073
esv2719662 CNV deletion 23290073
esv2719673 CNV deletion 23290073
esv2764232 CNV gain 21179565
esv33328 CNV gain 17666407
esv3333604 CNV duplication 20981092
esv3578278 CNV loss 25503493
esv3578279 CNV loss 25503493
esv3578280 CNV loss 25503493
esv3578281 CNV loss 25503493
esv3587986 CNV loss 21293372
esv3587988 CNV loss 21293372
esv3587989 CNV gain 21293372
esv3587991 CNV gain 21293372
esv3587992 CNV loss 21293372
nsv1127043 CNV deletion 24896259
nsv1145382 CNV deletion 24896259
nsv1159767 CNV duplication 26073780
nsv159978 CNV deletion 16902084
nsv3633 CNV insertion 18451855
nsv3644 CNV insertion 18451855
nsv466072 CNV gain 19166990
nsv473139 CNV novel sequence insertion 20440878
nsv508659 CNV deletion 20534489
nsv517137 CNV loss 19592680
nsv524232 CNV loss 19592680
nsv527256 CNV gain 19592680
nsv528975 CNV gain 19592680
nsv831948 CNV loss 17160897
nsv831959 CNV gain 17160897
nsv955456 CNV deletion 24416366

Variation tolerance for TNR Gene

Residual Variation Intolerance Score: 44.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.36; 63.38% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TNR Gene

Human Gene Mutation Database (HGMD)
TNR
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TNR

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TNR Gene

Disorders for TNR Gene

MalaCards: The human disease database

(3) MalaCards diseases for TNR Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
familial osteochondritis dissecans
  • obsessive-compulsive disorder
osteochondritis dissecans
  • ocd
corneal fleck dystrophy
  • corneal dystrophy, fleck
- elite association - COSMIC cancer census association via MalaCards
Search TNR in MalaCards View complete list of genes associated with diseases

Relevant External Links for TNR

Genetic Association Database (GAD)
TNR
Human Genome Epidemiology (HuGE) Navigator
TNR
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TNR
genes like me logo Genes that share disorders with TNR: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TNR Gene

Publications for TNR Gene

  1. Human tenascin-R: complete primary structure, pre-mRNA alternative splicing and gene localization on chromosome 1q23-q24. (PMID: 8626505) Carnemolla B. … Zardi L. (J. Biol. Chem. 1996) 2 3 4 22 65
  2. Association of the NPAS3 gene and five other loci with response to the antipsychotic iloperidone identified in a whole genome association study. (PMID: 18521090) Lavedan C. … Polymeropoulos M.H. (Mol. Psychiatry 2009) 3 22 46 65
  3. Parallel genotyping of 10,204 single nucleotide polymorphisms to screen for susceptible genes for IgA nephropathy. (PMID: 19890582) Woo K.T. … Chan C.M. (Ann. Acad. Med. Singap. 2009) 3 22 46 65
  4. The human tenascin-R gene. (PMID: 8940128) Leprini A. … Zardi L. (J. Biol. Chem. 1996) 2 3 22 65
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 65

Products for TNR Gene

Sources for TNR Gene

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