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TNR tenascin R [ Homo sapiens (human) ]

Gene ID: 7143, updated on 4-Jan-2025

Summary

Official Symbol
TNRprovided by HGNC
Official Full Name
tenascin Rprovided by HGNC
Primary source
HGNC:HGNC:11953
See related
Ensembl:ENSG00000116147 MIM:601995; AllianceGenome:HGNC:11953
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; NEDSTO
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
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Genomic context

See TNR in Genome Data Viewer
Location:
1q25.1
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (175315194..175743595, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (174669251..175098445, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (175284330..175712731, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2129 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2130 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2131 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2132 Neighboring gene KIAA0040 Neighboring gene Sharpr-MPRA regulatory region 6447 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2133 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2134 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:175238074-175239273 Neighboring gene uncharacterized LOC105371623 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1567 Neighboring gene Sharpr-MPRA regulatory region 1508 Neighboring gene ribosomal protein S29 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2135 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2136 Neighboring gene NANOG hESC enhancer GRCh37_chr1:175369460-175369988 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2137 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1568 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:175532897-175533398 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:175533399-175533898 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2138 Neighboring gene MPRA-validated peak472 silencer Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr1:175777677-175778299 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:175801421-175801962 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:175801963-175802504 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:175803681-175804238 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:175829545-175830046 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:175830047-175830546 Neighboring gene uncharacterized LOC124904458 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2139 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:175885507-175885694 Neighboring gene long intergenic non-protein coding RNA 1657 Neighboring gene long intergenic non-protein coding RNA 2803

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Neurodevelopmental disorder, nonprogressive, with spasticity and transient opisthotonus
MedGen: C5562040 OMIM: 619653 GeneReviews: Not available
not available

EBI GWAS Catalog

Description
Framingham Heart Study 100K Project: genome-wide associations for blood pressure and arterial stiffness.
EBI GWAS Catalog

Pathways from PubChem

Interactions

General gene information

Clone Names

  • MGC149328

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in associative learning  
involved_in axon extension involved in regeneration  
involved_in axon guidance PubMed 
involved_in cell adhesion PubMed 
involved_in extracellular matrix organization  
involved_in locomotory exploration behavior  
involved_in long-term synaptic potentiation  
involved_in negative regulation of axon extension involved in regeneration  
involved_in negative regulation of cell-cell adhesion  
involved_in negative regulation of neuron projection development  
involved_in negative regulation of synaptic transmission  
involved_in nervous system development  
involved_in neuroblast migration  
involved_in neuromuscular process controlling balance  
involved_in neuron cell-cell adhesion  
involved_in positive regulation of synaptic transmission, glutamatergic  
involved_in positive regulation of transmission of nerve impulse  
involved_in regulation of cell adhesion  
involved_in regulation of cell differentiation  
involved_in regulation of cell migration  
involved_in synapse organization  
involved_in synaptic transmission, glutamatergic  
involved_in telencephalon cell migration  
Component Evidence Code Pubs
located_in Schaffer collateral - CA1 synapse  
located_in cell surface  
is_active_in collagen-containing extracellular matrix  
located_in collagen-containing extracellular matrix  
located_in extracellular region  
is_active_in extracellular space  
located_in glutamatergic synapse  
located_in membrane raft  
located_in perineuronal net  
part_of tenascin complex  

General protein information

Preferred Names
tenascin-R
Names
janusin
restrictin

NCBI Reference Sequences (RefSeq)

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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_050931.2 RefSeqGene

    Range
    5000..433401
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001328635.2NP_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
    UniProtKB/TrEMBL
    A0AAQ5BHB2
  2. NM_003285.3NP_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
    C9J563, Q15568, Q5R3G0, Q92752
    UniProtKB/TrEMBL
    A0AAQ5BH57
    Related
    ENSP00000356646.1, ENST00000367674.7
    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: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    175315194..175743595 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    174669251..175098445 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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