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    tncb tenascin Cb [ Danio rerio (zebrafish) ]

    Gene ID: 30037, updated on 9-Dec-2024

    Summary

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    Official Symbol
    tncbprovided by ZNC
    Official Full Name
    tenascin Cbprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-980526-104
    See related
    Ensembl:ENSDARG00000021948 AllianceGenome:ZFIN:ZDB-GENE-980526-104
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    tnc; tenc; wu:fk04d02
    Summary
    Acts upstream of or within several processes, including axon development; positive regulation of synaptic assembly at neuromuscular junction; and regulation of neuron projection development. Predicted to be located in extracellular region. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including adaxial cell; central nervous system; hypochord; myoseptum; and neural crest cell. Human ortholog(s) of this gene implicated in allergic conjunctivitis; asthma; autosomal dominant nonsyndromic deafness 56; and pulmonary hypertension. Orthologous to human TNC (tenascin C). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See tncb in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (28561379..28690241, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (27960853..28078982, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene zgc:162952 Neighboring gene beta-1,3-galactosyltransferase 8 Neighboring gene uncharacterized LOC137495594 Neighboring gene uncharacterized LOC137495517 Neighboring gene Tnf receptor-associated factor 2a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. A novel alternative splice domain in zebrafish tenascin-C. Qiao T, et al. Gene, 1995 Apr 24. PMID 7538963
    2. Tenascin-C mRNA is expressed in cranial neural crest cells, in some placodal derivatives, and in discrete domains of the embryonic zebrafish brain. Tongiorgi E, et al. J Neurobiol, 1995 Nov. PMID 8568519
    3. Zebrafish tenascin-W, a new member of the tenascin family. Weber P, et al. J Neurobiol, 1998 Apr. PMID 9552162
    4. Reloading of atrophied rat soleus muscle induces tenascin-C expression around damaged muscle fibers. Flück M, et al. Am J Physiol Regul Integr Comp Physiol, 2003 Mar. PMID 12571079
    5. Exome sequencing and linkage analysis identified tenascin-C (TNC) as a novel causative gene in nonsyndromic hearing loss. Zhao Y, et al. PLoS One, 2013. PMID 23936043, Free PMC Article

    See all (40) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within axon guidance IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within axon regeneration at neuromuscular junction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within axonal fasciculation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within mesoderm development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of axon extension IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within neural crest cell migration IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in neuron projection development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within optic nerve development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of axon regeneration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of synaptic assembly at neuromuscular junction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in collagen-containing extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tenascin
    Names
    etID309720.5
    tenascin C

    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.

    mRNA and Protein(s)

    1. NM_001312916.1 → NP_001299845.1  tenascin isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and contains an alternate in-frame exon in its 3' coding region, compared to variant 1. The encoded isoform (2) is longer than isoform 1.
      Source sequence(s)
      EB793601, FP015972
      UniProtKB/TrEMBL
      A0A8M1P7N6, F1QYE2, F1R5T0
      Related
      ENSDARP00000010247.9, ENSDART00000026107.9
      Conserved Domains (4) summary
      cd00063
      Location:958 → 1047
      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:1589 → 1798
      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:1323 → 1400
      fn3; Fibronectin type III domain
      cl28246
      Location:471 → 544
      DnaJ; DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]

    2. NM_130907.2 → NP_570982.2  tenascin isoform 1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the shorter isoform (1).
      Source sequence(s)
      EB793601, FP015972, FP017198
      UniProtKB/TrEMBL
      A0A8M1PAU5, E9QHI1
      Related
      ENSDARP00000154936.1, ENSDART00000193585.1
      Conserved Domains (3) summary
      cd00063
      Location:958 → 1047
      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:1498 → 1707
      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:1232 → 1309
      fn3; Fibronectin type III domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      28561379..28690241 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068221089.1 → XP_068077190.1  tenascin isoform X3

      UniProtKB/TrEMBL
      A0A8M6YY54

    2. XM_068221088.1 → XP_068077189.1  tenascin isoform X2

      UniProtKB/TrEMBL
      A0A8M1PAU5, E9QHI1
      Related
      ENSDARP00000146747.1, ENSDART00000179736.1

    3. XM_021475994.2 → XP_021331669.1  tenascin isoform X1

      UniProtKB/TrEMBL
      A0A8M1P7N6, F1QYE2, F1R5T0
      Related
      ENSDARP00000114191.1, ENSDART00000131729.3
      Conserved Domains (4) summary
      cd00063
      Location:958 → 1047
      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:1589 → 1798
      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:1323 → 1400
      fn3; Fibronectin type III domain
      cl28246
      Location:471 → 544
      DnaJ; DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394579.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      20161..152295 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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