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Aliases for TNXA Gene

Aliases for TNXA Gene

  • Tenascin XA (Pseudogene) 2 3 5
  • XA 3 4
  • Tenascin XA 2
  • D6S103E 3
  • TN-XA 4
  • HXBL 3
  • TNX 3

External Ids for TNXA Gene

Previous HGNC Symbols for TNXA Gene

  • TNX

Previous GeneCards Identifiers for TNXA Gene

  • GC06U990124
  • GC06M032084
  • GC06M031977
  • GC06M031979

Summaries for TNXA Gene

GeneCards Summary for TNXA Gene

TNXA (Tenascin XA (Pseudogene)) is a Pseudogene. Diseases associated with TNXA include Scott Syndrome and Thrombophilia.

Additional gene information for TNXA Gene

No data available for Entrez Gene Summary , CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TNXA Gene

Genomics for TNXA Gene

GeneHancer (GH) Regulatory Elements for TNXA Gene

Promoters and enhancers for TNXA Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06I032014 Promoter/Enhancer 0.9 EPDnew Ensembl dbSUPER 550.8 -1.8 -1778 0.8 C4B STK19B TNXA GC06P032031
GH06I031969 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 11.8 +41.4 41383 4.9 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 DXO STK19 SKIV2L DDX39B BRD2 ATF6B LY6G5B C4A NFKBIL1 LSM2
GH06I032126 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.9 -116.1 -116070 4.5 CLOCK ZFP64 DMAP1 YY1 SLC30A9 E2F8 ZNF143 ZNF548 SP3 NFYC ATF6B FKBPL TNXB VARS PPT2 BRD2 C4A LSM2 GPANK1 BAG6
GH06I032185 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 8.9 -178.3 -178257 13.4 CLOCK MLX YBX1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 PBX2 GPSM3 ATF6B DDX39B BRD2 LSM2 LY6G5B HLA-DRB1 MSH5 MICA
GH06I032106 Promoter/Enhancer 2 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11 -98.2 -98229 9.7 PKNOX1 GATA2 E2F8 ARID2 ZNF143 FOS ZNF263 SP3 RXRA REST TNXB C4A HLA-DRB1 ATF6B SKIV2L STK19 TNXA AGER CYP21A1P STK19B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around TNXA on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the TNXA gene promoter:

Genomic Locations for TNXA Gene

Genomic Locations for TNXA Gene
4,604 bases
Minus strand

Genomic View for TNXA Gene

Genes around TNXA on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for TNXA Gene

Proteins for TNXA Gene

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

    Protein Symbol:
    Recommended name:
    Putative tenascin-XA
    Protein Accession:

    Protein attributes for TNXA Gene

    311 amino acids
    Molecular mass:
    33740 Da
    Quaternary structure:
    No Data Available
    • TNX genes are located in the class III HLA region within a complex locus, named RCCX module, containing genes for RP1/STK19, C4B, CYP21B/CYP21A2 and TNXB. Most chromosomes bear 2 modules, but monomodular and trimodular haplotypes are common in most populations. The bimodular haplotype results from the duplication of the RCCX module, leading to a duplicate containing RP2/RP1 pseudogene, C4A, CYP21A/CYP21A1P and TNXA. TNXA is a duplicated section of TNXB and probably consists in a truncated pseudogene: it contains a 120 bp deletion causing a frameshift and a premature stop codon that probably render the gene non-functional. In some pathologies, an unequal crossover between monomodular and bimodular RCCX results in a chromosome with a TNXB-TNXA hybrid gene, arising from a fusion between the TNXB gene of a monomodular RCCX and the TNXA gene of a bimodular RCCX. The TNXB-TNXA hybrid may correspond to TNXB-Short gene and may produce a functional protein.

neXtProt entry for TNXA Gene

Post-translational modifications for TNXA Gene

No Post-translational modifications

No data available for DME Specific Peptides for TNXA Gene

Domains & Families for TNXA Gene

Protein Domains for TNXA Gene

Suggested Antigen Peptide Sequences for TNXA Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with TNXA: view

No data available for Gene Families and UniProtKB/Swiss-Prot for TNXA Gene

Function for TNXA Gene

Molecular function for TNXA Gene

GENATLAS Biochemistry:
tenascin-like XA,homologous to XBS,included in YA and overlapping CYP21P,both in opposite orientation,(see XA)

Phenotypes From GWAS Catalog for TNXA Gene

Gene Ontology (GO) - Molecular Function for TNXA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with TNXA: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for TNXA Gene

Localization for TNXA Gene

Gene Ontology (GO) - Cellular Components for TNXA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005578 proteinaceous extracellular matrix IEA --
GO:0070062 extracellular exosome HDA 23533145
genes like me logo Genes that share ontologies with TNXA: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from COMPARTMENTS and Subcellular locations from the Human Protein Atlas (HPA) for TNXA Gene

Pathways & Interactions for TNXA Gene

No Data Available

Interacting Proteins for TNXA Gene

Selected Interacting proteins: Q16473-TENXA_HUMAN for TNXA Gene via IID

Gene Ontology (GO) - Biological Process for TNXA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
GO:0030199 collagen fibril organization IEA --
genes like me logo Genes that share ontologies with TNXA: view

No data available for Pathways by source and SIGNOR curated interactions for TNXA Gene

Drugs & Compounds for TNXA Gene

(19) Drugs for TNXA Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(14) Additional Compounds for TNXA Gene - From: Novoseek

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

Transcripts for TNXA Gene

mRNA/cDNA for TNXA Gene

(1) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(262) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for TNXA Gene

Tenascin XA (pseudogene):
Representative Sequences:

Clone Products

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

No ASD Table

Relevant External Links for TNXA Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for TNXA Gene

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

mRNA differential expression in normal tissues according to GTEx for TNXA Gene

This gene is overexpressed in Adrenal Gland (x37.3).

Protein differential expression in normal tissues from HIPED for TNXA Gene

This gene is overexpressed in Serum (54.5).

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

NURSA nuclear receptor signaling pathways regulating expression of TNXA Gene:


SOURCE GeneReport for Unigene cluster for TNXA Gene:


mRNA Expression by UniProt/SwissProt for TNXA Gene:

Tissue specificity: Expressed in the adrenal gland.
genes like me logo Genes that share expression patterns with TNXA: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for TNXA Gene

Orthologs for TNXA Gene

Evolution for TNXA Gene

Gene Tree for TNXA (if available)
Gene Tree for TNXA (if available)

No data available for Orthologs for TNXA Gene

Paralogs for TNXA Gene

(5) SIMAP similar genes for TNXA Gene using alignment to 1 proteins:

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

No data available for Paralogs for TNXA Gene

Variants for TNXA Gene

Sequence variations from dbSNP and Humsavar for TNXA Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1007862833 -- 32,011,545(-) C/T non_coding_transcript_variant
rs1012736508 -- 32,009,170(-) C/G non_coding_transcript_variant
rs1012768713 -- 32,008,216(-) G/A downstream_transcript_variant
rs1019310950 -- 32,011,768(-) G/T non_coding_transcript_variant
rs1023879145 -- 32,013,343(-) C/G upstream_transcript_variant

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

Variant ID Type Subtype PubMed ID
dgv10403n54 CNV loss 21841781
dgv10404n54 CNV loss 21841781
dgv10463n54 CNV loss 21841781
dgv10466n54 CNV loss 21841781
dgv10468n54 CNV loss 21841781
dgv10472n54 CNV loss 21841781
dgv10474n54 CNV gain 21841781
dgv10475n54 CNV loss 21841781
dgv10476n54 CNV loss 21841781
dgv10477n54 CNV loss 21841781
dgv10478n54 CNV loss 21841781
dgv10479n54 CNV loss 21841781
dgv20n31 CNV gain 19718026
esv2731825 CNV deletion 23290073
esv2759415 CNV gain+loss 17122850
esv28110 CNV gain+loss 19812545
esv3413736 CNV duplication 20981092
esv3890824 CNV loss 25118596
esv3890825 CNV loss 25118596
esv3890827 CNV gain+loss 25118596
nsv1073969 CNV deletion 25765185
nsv10824 CNV gain+loss 18304495
nsv1112900 CNV deletion 24896259
nsv1126749 CNV deletion 24896259
nsv284 CNV deletion 15895083
nsv285 CNV deletion 15895083
nsv428141 CNV gain+loss 18775914
nsv5247 CNV deletion 18451855
nsv601971 CNV gain 21841781
nsv602045 CNV gain 21841781
nsv602050 CNV loss 21841781
nsv602051 CNV loss 21841781
nsv602056 CNV loss 21841781
nsv602072 CNV loss 21841781
nsv819957 CNV loss 19587683
nsv823507 CNV loss 20364138
nsv823508 CNV gain 20364138
nsv950155 CNV deletion 24416366
nsv981129 CNV duplication 23825009

Additional Variant Information for TNXA Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for TNXA Gene

Disorders for TNXA Gene

MalaCards: The human disease database

(2) MalaCards diseases for TNXA Gene - From: Novoseek and GeneCards

Disorder Aliases PubMed IDs
scott syndrome
  • scts
  • hypercoagulability state
- elite association - COSMIC cancer census association via MalaCards
Search TNXA in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TNXA

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with TNXA: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TNXA Gene

Publications for TNXA Gene

  1. Genetic basis of tobacco smoking: strong association of a specific major histocompatibility complex haplotype on chromosome 6 with smoking behavior. (PMID: 15339882) Füst G … Yu CY (International immunology 2004) 3 44 58
  2. An unequal crossover event in RCCX modules of the human MHC resulting in the formation of a TNXB/TNXA hybrid and deletion of the CYP21A. (PMID: 12121677) Jaatinen T … Lokki ML (Human immunology 2002) 3 4 58
  3. An unequal crossover between the RCCX modules of the human MHC leading to the presence of a CYP21B gene and a tenascin TNXB/TNXA-RP2 recombinant between C4A and C4B genes in a patient with juvenile rheumatoid arthritis. (PMID: 10343159) Rupert KL … Yu CY (Experimental and clinical immunogenetics 1999) 3 22 58
  4. Mechanism and consequences of the duplication of the human C4/P450c21/gene X locus. (PMID: 1373808) Gitelman SE … Miller WL (Molecular and cellular biology 1992) 3 4 58
  5. The complete exon-intron structure of a human complement component C4A gene. DNA sequences, polymorphism, and linkage to the 21-hydroxylase gene. (PMID: 1988494) Yu CY (Journal of immunology (Baltimore, Md. : 1950) 1991) 2 3 58

Products for TNXA Gene

Sources for TNXA Gene

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