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    TNR tenascin R [ Homo sapiens (human) ]

    Gene ID: 7143, updated on 15-Apr-2018
    Official Symbol
    TNRprovided by HGNC
    Official Full Name
    tenascin Rprovided by HGNC
    Primary source
    HGNC:HGNC:11953
    See related
    Ensembl:ENSG00000116147 MIM:601995; Vega:OTTHUMG00000034876
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TN-R
    Summary
    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]
    Expression
    Restricted expression toward brain (RPKM 22.5) See more
    Orthologs
    Location:
    1q25.1
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (175320781..175743702, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (175291935..175712752, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene KIAA0040 Neighboring gene uncharacterized LOC105371623 Neighboring gene ribosomal protein S29 pseudogene 4 Neighboring gene uncharacterized LOC107985228 Neighboring gene long intergenic non-protein coding RNA 1657 Neighboring gene ribosomal protein S29 pseudogene 5

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    NHGRI GWAS Catalog

    Description
    Framingham Heart Study 100K Project: genome-wide associations for blood pressure and arterial stiffness.
    NHGRI GWA Catalog
    • ECM proteoglycans, organism-specific biosystem (from REACTOME)
      ECM proteoglycans, organism-specific biosystemProteoglycans are major components of the extracellular matrix. In cartilage the matrix constitutes more than 90% of tissue dry weight. Proteoglycans are proteins substituted with glycosaminoglycans ...
    • ECM-receptor interaction, organism-specific biosystem (from KEGG)
      ECM-receptor interaction, organism-specific biosystemThe extracellular matrix (ECM) consists of a complex mixture of structural and functional macromolecules and serves an important role in tissue and organ morphogenesis and in the maintenance of cell ...
    • ECM-receptor interaction, conserved biosystem (from KEGG)
      ECM-receptor interaction, conserved biosystemThe extracellular matrix (ECM) consists of a complex mixture of structural and functional macromolecules and serves an important role in tissue and organ morphogenesis and in the maintenance of cell ...
    • Extracellular matrix organization, organism-specific biosystem (from REACTOME)
      Extracellular matrix organization, organism-specific biosystemThe extracellular matrix is a component of all mammalian tissues, a network consisting largely of the fibrous proteins collagen, elastin and associated-microfibrils, fibronectin and laminins embedded...
    • Focal Adhesion, organism-specific biosystem (from WikiPathways)
      Focal Adhesion, organism-specific biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
    • Focal adhesion, organism-specific biosystem (from KEGG)
      Focal adhesion, organism-specific biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
    • Focal adhesion, conserved biosystem (from KEGG)
      Focal adhesion, conserved biosystemCell-matrix adhesions play essential roles in important biological processes including cell motility, cell proliferation, cell differentiation, regulation of gene expression and cell survival. At the...
    • MicroRNAs in cancer, organism-specific biosystem (from KEGG)
      MicroRNAs in cancer, organism-specific biosystemMicroRNA (miRNA) is a cluster of small non-encoding RNA molecules of 21 - 23 nucleotides in length, which controls gene expression post-transcriptionally either via the degradation of target mRNAs or...
    • MicroRNAs in cancer, conserved biosystem (from KEGG)
      MicroRNAs in cancer, conserved biosystemMicroRNA (miRNA) is a cluster of small non-encoding RNA molecules of 21 - 23 nucleotides in length, which controls gene expression post-transcriptionally either via the degradation of target mRNAs or...
    • PI3K-Akt signaling pathway, organism-specific biosystem (from KEGG)
      PI3K-Akt signaling pathway, organism-specific biosystemThe phosphatidylinositol 3' -kinase(PI3K)-Akt signaling pathway is activated by many types of cellular stimuli or toxic insults and regulates fundamental cellular functions such as transcription, tra...
    • PI3K-Akt signaling pathway, conserved biosystem (from KEGG)
      PI3K-Akt signaling pathway, conserved biosystemThe phosphatidylinositol 3' -kinase(PI3K)-Akt signaling pathway is activated by many types of cellular stimuli or toxic insults and regulates fundamental cellular functions such as transcription, tra...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • MGC149328

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    associative learning IEA
    Inferred from Electronic Annotation
    more info
     
    axon guidance NAS
    Non-traceable Author Statement
    more info
    PubMed 
    cell adhesion NAS
    Non-traceable Author Statement
    more info
    PubMed 
    extracellular matrix organization TAS
    Traceable Author Statement
    more info
     
    locomotory exploration behavior IEA
    Inferred from Electronic Annotation
    more info
     
    long-term synaptic potentiation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of axon extension involved in regeneration IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of cell-cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
     
    neuromuscular process controlling balance IEA
    Inferred from Electronic Annotation
    more info
     
    neuron cell-cell adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of synaptic transmission, glutamatergic IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of transmission of nerve impulse IEA
    Inferred from Electronic Annotation
    more info
     
    synapse organization IEA
    Inferred from Electronic Annotation
    more info
     
    telencephalon cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular region TAS
    Traceable Author Statement
    more info
     
    membrane raft IEA
    Inferred from Electronic Annotation
    more info
     
    perineuronal net IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    tenascin-R
    Names
    janusin
    restrictin

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_050931.1 RefSeqGene

      Range
      5087..425904
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001328635.1NP_001315564.1  tenascin-R isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice junction compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AL021919, AL023285, Z94055, Z94057
    2. NM_003285.2NP_003276.3  tenascin-R isoform 1 precursor

      See identical proteins and their annotated locations for NP_003276.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AV650210, BC129830, DA804585, DB068074, Z67996, Z94057
      Consensus CDS
      CCDS1318.1
      UniProtKB/Swiss-Prot
      Q92752
      UniProtKB/TrEMBL
      A1L306
      Related
      ENSP00000356646.1, OTTHUMP00000032802, ENST00000367674.6, OTTHUMT00000084414
      Conserved Domains (4) summary
      cd00063
      Location:10421127
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00087
      Location:11331342
      FReD; Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular ...
      pfam00041
      Location:687766
      fn3; Fibronectin type III domain
      pfam07974
      Location:299323
      EGF_2; EGF-like domain

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

      Range
      175320781..175743702 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011509949.2XP_011508251.1  tenascin-R isoform X2

      Conserved Domains (3) summary
      smart00186
      Location:9751184
      FBG; Fibrinogen-related domains (FReDs)
      cd00063
      Location:883968
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:528607
      fn3; Fibronectin type III domain
    2. XM_017002219.1XP_016857708.1  tenascin-R isoform X1

      UniProtKB/Swiss-Prot
      Q92752
      Conserved Domains (4) summary
      cd00063
      Location:10421127
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00087
      Location:11331342
      FReD; Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular ...
      pfam00041
      Location:687766
      fn3; Fibronectin type III domain
      pfam07974
      Location:299323
      EGF_2; EGF-like domain
    3. XM_017002218.1XP_016857707.1  tenascin-R isoform X1

      UniProtKB/Swiss-Prot
      Q92752
      Conserved Domains (4) summary
      cd00063
      Location:10421127
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cd00087
      Location:11331342
      FReD; Fibrinogen-related domains (FReDs); C terminal globular domain of fibrinogen. Fibrinogen is involved in blood clotting, being activated by thrombin to assemble into fibrin clots. The N-termini of 2 times 3 chains come together to form a globular ...
      pfam00041
      Location:687766
      fn3; Fibronectin type III domain
      pfam07974
      Location:299323
      EGF_2; EGF-like domain
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