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tncb tenascin Cb [ Danio rerio (zebrafish) ]

Gene ID: 30037, updated on 17-Sep-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 generation of neurons; neural crest cell migration; and positive regulation of cellular component organization. Predicted to be located in collagen-containing extracellular matrix and extracellular region. 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, Apr 2022]
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 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. 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
  2. Zebrafish tenascin-W, a new member of the tenascin family. Weber P, et al. J Neurobiol, 1998 Apr. PMID 9552162
  3. 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
  4. A novel alternative splice domain in zebrafish tenascin-C. Qiao T, et al. Gene, 1995 Apr 24. PMID 7538963
  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 (36) 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

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

    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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