TNN tenascin N [Homo sapiens (human)] - Gene

Summary

Official Symbol: TNNprovided by HGNC
Official Full Name: tenascin Nprovided by HGNC
Primary source: HGNC:HGNC:22942
See related: Ensembl:ENSG00000120332 MIM:617472; AllianceGenome:HGNC:22942
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: TNW; TN-W
Summary: Predicted to enable integrin binding activity. Predicted to be involved in several processes, including generation of neurons; negative regulation of canonical Wnt signaling pathway involved in osteoblast differentiation; and negative regulation of osteoblast differentiation. Predicted to act upstream of or within axonogenesis. Predicted to be located in extracellular matrix and neuron projection. Predicted to be active in collagen-containing extracellular matrix and extracellular space. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in fat (RPKM 11.1), thyroid (RPKM 1.5) and 2 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1q25.1

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (175067833..175148075)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (174421562..174501817)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (175036969..175117211)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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 Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TNN is first linked to auditory neuropathy.
Title: TNN is first linked to auditory neuropathy.
Tenascin-C can Serve as an Indicator for the Immunosuppressive Microenvironment of Diffuse Low-Grade Gliomas.
Title: Tenascin-C can Serve as an Indicator for the Immunosuppressive Microenvironment of Diffuse Low-Grade Gliomas.
Tenascin-W Is a Novel Stromal Marker in Biliary Tract Cancers.
Title: Tenascin-W Is a Novel Stromal Marker in Biliary Tract Cancers.
Tenascin-W: Discovery, Evolution, and Future Prospects.
Title: Tenascin-W: Discovery, Evolution, and Future Prospects.
specific association of NR1I3, C6 and TNN with low hip BMD risk
Title: Multiple analyses indicate the specific association of NR1I3, C6 and TNN with low hip BMD risk.
This study demonstrated that the genetic defect was totally or partly clarified in 21 patients with nine of them having potential disease-causing mutations in TTN.
Title: Targeted next-generation sequencing assay for detection of mutations in primary myopathies.
Results show that tenascin-W acts as a niche component for breast cancer metastasis to bone by supporting cell migration and cell proliferation of the cancer cells.
Title: Transcriptional regulation of tenascin-W by TGF-beta signaling in the bone metastatic niche of breast cancer cells.
results reveal a clear association between elevated levels of tenascin-W and the presence of colorectal cancer and breast cancer
Title: Tenascin-W, a new marker of cancer stroma, is elevated in sera of colon and breast cancer patients.
data imply that tenascin-W expression in the activated tumor stroma facilitates tumorigenesis by supporting the migratory behavior of breast cancer cells
Title: Tenascin-W is a novel marker for activated tumor stroma in low-grade human breast cancer and influences cell behavior.
The expression of tenascin-W is dependent on p38MAPK and JNK signaling pathways in mammary tumors. (tenascin-W)
Title: Tenascin-W is found in malignant mammary tumors, promotes alpha8 integrin-dependent motility and requires p38MAPK activity for BMP-2 and TNF-alpha induced expression in vitro.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AL034020 (e-PCR)
- UniSTS:93567

RH119299 (e-PCR)
- UniSTS:133861

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in axonogenesis	IEA Inferred from Electronic Annotation more info
involved_in cell-matrix adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in dendrite self-avoidance	ISA Inferred from Sequence Alignment more info	PubMed
involved_in negative regulation of canonical Wnt signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of neuron migration	ISA Inferred from Sequence Alignment more info	PubMed
involved_in negative regulation of osteoblast differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of osteoblast proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuron projection extension	IBA Inferred from Biological aspect of Ancestor more info
involved_in osteoblast development	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of sprouting angiogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of bone development	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of smooth muscle tissue development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in CA3 pyramidal cell dendrite	IEA Inferred from Electronic Annotation more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in collagen-containing extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in hippocampal mossy fiber expansion	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	IEA Inferred from Electronic Annotation more info
part_of tenascin complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: tenascin-N

Names: TN-N; tenascin-W

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)

NM_022093.2 → NP_071376.1 tenascin-N precursor

See identical proteins and their annotated locations for NP_071376.1

Status: VALIDATED

Source sequence(s)

AK127044, AL049689, Z99297, Z99715

Consensus CDS

CCDS30943.1

UniProtKB/Swiss-Prot

A0A0A6YY94, B9EGP3, Q5R360, Q9UQP3

UniProtKB/TrEMBL

B3KXB6

Related

ENSP00000239462.4, ENST00000239462.9

Conserved Domains (5) summary

smart00060
Location:798 → 874

FN3; Fibronectin type 3 domain

cd00063
Location:709 → 791

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:1065 → 1276

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:265 → 342

fn3; Fibronectin type III domain

pfam07974
Location:233 → 259

EGF_2; EGF-like domain