TNXB Gene (Protein Coding)

Tenascin XB

GC06M032383
GIFtS:
45
This gene encodes a member of the tenascin family of extracellular matrix glycoproteins. The tenascins have anti-adhesive effects, as opposed to fibronectin which is adhesive. This protein is thought to function in matrix maturation during wound healing, and its deficiency has been associated with the connective tissue disorder Ehlers-Danlos syndrome. This gene localizes to the... See more...

Aliases for TNXB Gene

Aliases for TNXB Gene

  • Tenascin XB 2 3 5
  • Hexabrachion-Like Protein 3 4
  • Tenascin-X 3 4
  • TNXB1 3 4
  • TNXB2 3 4
  • HXBL 3 4
  • TN-X 3 4
  • TNX 3 4
  • XB 3 4
  • Growth-Inhibiting Protein 45 3
  • Tenascin XB1 3
  • Tenascin XB2 3
  • EDSCLL1 3
  • EDSCLL 3
  • TNXBS 3
  • EDS3 3
  • TENX 3
  • VUR8 3
  • XBS 3

External Ids for TNXB Gene

Previous HGNC Symbols for TNXB Gene

  • TNXB1
  • TNXB2

Previous GeneCards Identifiers for TNXB Gene

  • GC06M032037
  • GC06M031779
  • GC06M032080
  • GC06M032085
  • GC06M032116
  • GC06M032087
  • GC06M032089
  • GC06M032091
  • GC06M032093
  • GC06M032095
  • GC06M032097
  • GC06M031976
  • GC06M032008
  • GC06M032042
  • GC06M032112
  • GC06M032177
  • GC06M032232
  • GC06M032044

Summaries for TNXB Gene

Entrez Gene Summary for TNXB Gene

  • This gene encodes a member of the tenascin family of extracellular matrix glycoproteins. The tenascins have anti-adhesive effects, as opposed to fibronectin which is adhesive. This protein is thought to function in matrix maturation during wound healing, and its deficiency has been associated with the connective tissue disorder Ehlers-Danlos syndrome. This gene localizes to the major histocompatibility complex (MHC) class III region on chromosome 6. It is one of four genes in this cluster which have been duplicated. The duplicated copy of this gene is incomplete and is a pseudogene which is transcribed but does not encode a protein. The structure of this gene is unusual in that it overlaps the CREBL1 and CYP21A2 genes at its 5' and 3' ends, respectively. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for TNXB Gene

TNXB (Tenascin XB) is a Protein Coding gene. Diseases associated with TNXB include Ehlers-Danlos Syndrome, Classic-Like and Vesicoureteral Reflux 8. Among its related pathways are Focal Adhesion and ECM proteoglycans. Gene Ontology (GO) annotations related to this gene include heparin binding and collagen binding. An important paralog of this gene is TNC.

UniProtKB/Swiss-Prot Summary for TNXB Gene

  • Appears to mediate interactions between cells and the extracellular matrix. Substrate-adhesion molecule that appears to inhibit cell migration. Accelerates collagen fibril formation. May play a role in supporting the growth of epithelial tumors.

Gene Wiki entry for TNXB Gene

Additional gene information for TNXB Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TNXB Gene

Genomics for TNXB Gene

GeneHancer (GH) Regulatory Elements for TNXB Gene

Promoters and enhancers for TNXB Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TNXB on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TNXB

Top Transcription factor binding sites by QIAGEN in the TNXB gene promoter:
  • AP-1
  • Bach2
  • COMP1
  • HOXA5
  • Lmo2
  • Sp1

Genomic Locations for TNXB Gene

Genomic Locations for TNXB Gene
chr6:32,041,153-32,115,334
(GRCh38/hg38)
Size:
74,182 bases
Orientation:
Minus strand
chr6:32,008,931-32,083,111
(GRCh37/hg19)
Size:
74,181 bases
Orientation:
Minus strand

Genomic View for TNXB Gene

Genes around TNXB on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TNXB Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TNXB Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for TNXB Gene

Proteins for TNXB Gene

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  • Protein details for TNXB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P22105-TENX_HUMAN
    Recommended name:
    Tenascin-X
    Protein Accession:
    P22105
    Secondary Accessions:
    • P78530
    • P78531
    • Q08424
    • Q08AM0
    • Q08AM1
    • Q59GU7
    • Q5SQD3
    • Q5ST74
    • Q7L8Q4
    • Q8N4R1
    • Q9NPK9
    • Q9UC10
    • Q9UC11
    • Q9UC12
    • Q9UC13
    • Q9UMG7

    Protein attributes for TNXB Gene

    Size:
    4244 amino acids
    Molecular mass:
    458388 Da
    Quaternary structure:
    • Homotrimer. Interacts with type I, III and V collagens and tropoelastin via its 29th fibronectin type-III domain.
    Miscellaneous:
    • [Isoform 4]: May be due to competing acceptor splice site in exon 24.
    • [Isoform 5]: May be due to competing donor splice site in exon 1.
    SequenceCaution:
    • Sequence=AAB47488.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=AAB67981.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305}; Sequence=CAB89296.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TNXB Gene

    Alternative splice isoforms for TNXB Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNXB Gene

Protein Expression for TNXB Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for TNXB Gene

  • Glycosylation at Asn31, Asn3855, Asn3908, Asn3920, and Asn4095
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect

Other Protein References for TNXB Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TNXB Gene

Domains & Families for TNXB Gene

Gene Families for TNXB Gene

HGNC:
Human Protein Atlas (HPA):
  • Disease related genes
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for TNXB Gene

Blocks:
  • Type I EGF
  • Fibrinogen, beta/gamma chain, C-terminal globular
  • Laminin-type EGF-like domain
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TNXB Gene

GenScript: Design optimal peptide antigens:
  • Tenascin XB (A2BHY8_HUMAN)
  • Tenascin XB (B0V2C0_HUMAN)
  • Tenascin-X (O95680_HUMAN)
  • Tenascin-X (O95681_HUMAN)
  • Tenascin-X (O95682_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P22105

UniProtKB/Swiss-Prot:

TENX_HUMAN :
  • Belongs to the tenascin family.
Family:
  • Belongs to the tenascin family.
genes like me logo Genes that share domains with TNXB: view

Function for TNXB Gene

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Molecular function for TNXB Gene

UniProtKB/Swiss-Prot Function:
Appears to mediate interactions between cells and the extracellular matrix. Substrate-adhesion molecule that appears to inhibit cell migration. Accelerates collagen fibril formation. May play a role in supporting the growth of epithelial tumors.

Phenotypes From GWAS Catalog for TNXB Gene

Gene Ontology (GO) - Molecular Function for TNXB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005178 integrin binding ISS --
GO:0005201 extracellular matrix structural constituent RCA 20551380
GO:0005515 protein binding IEA,IPI 21516116
GO:0008201 heparin binding ISS --
GO:0098633 collagen fibril binding IDA 16278880
genes like me logo Genes that share ontologies with TNXB: view
genes like me logo Genes that share phenotypes with TNXB: view

Human Phenotype Ontology for TNXB Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for TNXB Gene

MGI Knock Outs for TNXB:
  • Tnxb Tnxb<tm1b(EUCOMM)Hmgu>
  • Tnxb Tnxb<tm1Kmat>
  • Tnxb Tnxb<tm1Jbrs>

Animal Model Products

miRNA for TNXB Gene

miRTarBase miRNAs that target TNXB

Clone Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for TNXB Gene

Localization for TNXB Gene

Subcellular locations from UniProtKB/Swiss-Prot for TNXB Gene

Secreted, extracellular space, extracellular matrix.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TNXB gene
Compartment Confidence
extracellular 5
plasma membrane 3
cytoskeleton 2
nucleus 2
endoplasmic reticulum 2
mitochondrion 1
cytosol 1
lysosome 1
golgi apparatus 1
peroxisome 0

Gene Ontology (GO) - Cellular Components for TNXB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region HDA 27068509
GO:0005615 extracellular space HDA 20551380
GO:0031012 extracellular matrix NAS 7686164
GO:0062023 colocalizes_with collagen-containing extracellular matrix IEA,ISS 22261194
GO:0070062 extracellular exosome HDA 23533145
genes like me logo Genes that share ontologies with TNXB: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TNXB Gene

Pathways & Interactions for TNXB Gene

genes like me logo Genes that share pathways with TNXB: view

Gene Ontology (GO) - Biological Process for TNXB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion ISS --
GO:0030036 actin cytoskeleton organization ISS --
GO:0030198 extracellular matrix organization IEA --
GO:0030199 collagen fibril organization IEA --
GO:0032963 collagen metabolic process IMP 15102077
genes like me logo Genes that share ontologies with TNXB: view

No data available for SIGNOR curated interactions for TNXB Gene

Drugs & Compounds for TNXB Gene

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(2) Drugs for TNXB Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for TNXB Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with TNXB: view

Transcripts for TNXB Gene

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  2. miRNA
  3. Inhibitory RNA
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mRNA/cDNA for TNXB Gene

3 REFSEQ mRNAs :
25 NCBI additional mRNA sequence :
11 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for TNXB Gene

No ASD Table

Relevant External Links for TNXB Gene

GeneLoc Exon Structure for
TNXB

Expression for TNXB Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TNXB Gene

mRNA expression in normal human tissues for TNXB Gene
mRNA expression by BioGPS for TNXB GenemRNA expression by GTEx for TNXB Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TNXB Gene

This gene is overexpressed in Uterus (10.3) and Serum (8.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TNXB Gene



Protein tissue co-expression partners for TNXB Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TNXB

SOURCE GeneReport for Unigene cluster for TNXB Gene:

Hs.485104

mRNA Expression by UniProt/SwissProt for TNXB Gene:

P22105-TENX_HUMAN
Tissue specificity: Highly expressed in fetal adrenal, in fetal testis, fetal smooth, striated and cardiac muscle. Isoform XB-short is only expressed in the adrenal gland.

Evidence on tissue expression from TISSUES for TNXB Gene

  • Adrenal gland(4.6)
  • Liver(4.5)
  • Blood(4.3)
  • Nervous system(4.2)
  • Bone marrow(4)
  • Heart(3)
  • Lung(2.4)
  • Gall bladder(2.3)
  • Intestine(2.3)

Phenotype-based relationships between genes and organs from Gene ORGANizer for TNXB Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • digestive
  • immune
  • integumentary
  • nervous
  • reproductive
  • respiratory
  • skeletal muscle
  • skeleton
  • urinary
Regions:
Head and neck:
  • brain
  • ear
  • head
  • jaw
  • mandible
  • maxilla
  • mouth
  • neck
  • pharynx
  • skull
Thorax:
  • chest wall
  • clavicle
  • diaphragm
  • esophagus
  • heart
  • heart valve
  • rib
  • rib cage
  • scapula
  • sternum
Abdomen:
  • intestine
  • kidney
  • large intestine
  • small intestine
  • stomach
Pelvis:
  • pelvis
  • placenta
  • rectum
  • ureter
  • urethra
  • urinary bladder
  • uterus
  • vulva
Limb:
  • ankle
  • arm
  • digit
  • elbow
  • femur
  • fibula
  • finger
  • foot
  • forearm
  • hand
  • hip
  • humerus
  • knee
  • lower limb
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • toe
  • ulna
  • upper limb
  • wrist
General:
  • blood
  • blood vessel
  • peripheral nerve
  • peripheral nervous system
  • skin
  • spinal column
  • vertebrae
  • white blood cell
genes like me logo Genes that share expression patterns with TNXB: view

No data available for mRNA differential expression in normal tissues for TNXB Gene

Orthologs for TNXB Gene

This gene was present in the common ancestor of animals.

Orthologs for TNXB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia TNXB 31 30
  • 98.5 (n)
 OneToOne
dog
(Canis familiaris)
 Mammalia TNXB 31 30
  • 77.84 (n)
 OneToOne
cow
(Bos Taurus)
 Mammalia TNXB 31 30
  • 74.44 (n)
 OneToOne
mouse
(Mus musculus)
 Mammalia Tnxb 17 31 30
  • 72.2 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 31
  • 29 (a)
 ManyToMany
oppossum
(Monodelphis domestica)
 Mammalia TNXB 31
  • 12 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves CDD 31
  • 24 (a)
 ManyToMany
lizard
(Anolis carolinensis)
 Reptilia TNXB 31
  • 10 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia tnxb 30
  • 50.5 (n)
African clawed frog
(Xenopus laevis)
 Amphibia Xl.12557 30
zebrafish
(Danio rerio)
 Actinopterygii TNXB 31
  • 10 (a)
 OneToOne
Dr.18547 30
fruit fly
(Drosophila melanogaster)
 Insecta BG:DS00180.14 32
  • 27 (a)
sca 31 32
  • 13 (a)
 OneToMany
sea squirt
(Ciona savignyi)
 Ascidiacea -- 31
  • 27 (a)
 ManyToMany
Species where no ortholog for TNXB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for TNXB Gene

ENSEMBL:
Gene Tree for TNXB (if available)
TreeFam:
Gene Tree for TNXB (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TNXB: view image

Paralogs for TNXB Gene

Paralogs for TNXB Gene

(17) SIMAP similar genes for TNXB Gene using alignment to 4 proteins:

  • TENX_HUMAN
  • C9J7W4_HUMAN
  • E7EPZ9_HUMAN
  • Q6IPK3_HUMAN

Pseudogenes.org Pseudogenes for TNXB Gene

genes like me logo Genes that share paralogs with TNXB: view

Variants for TNXB Gene

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Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TNXB Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
809895 Uncertain Significance: not provided 32,042,181(-) T/C INTRON_VARIANT
809896 Uncertain Significance: not provided 32,048,016(-) G/A INTRON_VARIANT
809897 Uncertain Significance: not provided 32,049,395(-) C/T MISSENSE_VARIANT
809898 Likely Benign: not provided 32,049,990(-) T/C INTRON_VARIANT
809899 Likely Benign: not provided 32,049,999(-) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for TNXB Gene

Structural Variations from Database of Genomic Variants (DGV) for TNXB Gene

Variant ID Type Subtype PubMed ID
dgv10403n54 CNV loss 21841781
dgv10404n54 CNV loss 21841781
dgv10463n54 CNV loss <