Atlas of Genetics and Cytogenetics in Oncology and Haematology

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TNXB (tenascin XB)

Identity

Alias_namesTNXB1
TNXB2
Alias_symbol (synonym)TNXBS
XBS
XB
Other aliasEDS3
EDSCLL
HXBL
TENX
TN-X
TNX
VUR8
HGNC (Hugo) TNXB
LocusID (NCBI) 7148
Atlas_Id 50052
Location 6p21.33  [Link to chromosome band 6p21]
Location_base_pair Starts at 32008420 and ends at 32013273 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
COL1A1 (17q21.33) / TNXB (6p21.33)SSU72 (1p36.33) / TNXB (6p21.33)TNXB (6p21.33) / ATF6B (6p21.33)
TNXB (6p21.33) / CMAHP (6p22.3)TNXB 6p21.33 / CMAHP 6p22.3

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(6;6)(p21;p22) TNXB/CMAHP

External links

Nomenclature
HGNC (Hugo)TNXB   11976
Cards
Entrez_Gene (NCBI)TNXB  7148  tenascin XB
AliasesEDS3; EDSCLL; HXBL; TENX; 
TN-X; TNX; TNXB1; TNXB2; TNXBS; VUR8; XB; XBS
GeneCards (Weizmann)TNXB
Ensembl hg19 (Hinxton)ENSG00000168477 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000168477 [Gene_View]  chr6:32008420-32013273 [Contig_View]  TNXB [Vega]
ICGC DataPortalENSG00000168477
TCGA cBioPortalTNXB
AceView (NCBI)TNXB
Genatlas (Paris)TNXB
WikiGenes7148
SOURCE (Princeton)TNXB
Genetics Home Reference (NIH)TNXB
Genomic and cartography
GoldenPath hg38 (UCSC)TNXB  -     chr6:32008420-32013273 -  6p21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TNXB  -     6p21.33   [Description]    (hg19-Feb_2009)
EnsemblTNXB - 6p21.33 [CytoView hg19]  TNXB - 6p21.33 [CytoView hg38]
Mapping of homologs : NCBITNXB [Mapview hg19]  TNXB [Mapview hg38]
OMIM600985   606408   615963   
Gene and transcription
Genbank (Entrez)AB209012 AK310080 AL044866 BC033740 BC071883
RefSeq transcript (Entrez)NM_019105 NM_032470
RefSeq genomic (Entrez)NC_000006 NC_018917 NG_008337 NT_113891 NT_167244 NT_167245 NT_167246 NT_167247 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)TNXB
Cluster EST : UnigeneHs.485104 [ NCBI ]
CGAP (NCI)Hs.485104
Alternative Splicing GalleryENSG00000168477
Gene ExpressionTNXB [ NCBI-GEO ]   TNXB [ EBI - ARRAY_EXPRESS ]   TNXB [ SEEK ]   TNXB [ MEM ]
Gene Expression Viewer (FireBrowse)TNXB [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7148
GTEX Portal (Tissue expression)TNXB
Human Protein AtlasENSG00000168477-TNXB [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP22105   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP22105  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP22105
Splice isoforms : SwissVarP22105
PhosPhoSitePlusP22105
Domaine pattern : Prosite (Expaxy)EGF_1 (PS00022)    EGF_2 (PS01186)    EGF_3 (PS50026)    FIBRINOGEN_C_1 (PS00514)    FIBRINOGEN_C_2 (PS51406)    FN3 (PS50853)   
Domains : Interpro (EBI)EGF-like_CS    EGF-like_dom    EGF_extracell    Fibrinogen_a/b/g_C_1    Fibrinogen_a/b/g_C_2    Fibrinogen_a/b/g_C_dom    Fibrinogen_CS    FN3_dom    Ig-like_fold    TNX   
Domain families : Pfam (Sanger)EGF_2 (PF07974)    Fibrinogen_C (PF00147)    fn3 (PF00041)   
Domain families : Pfam (NCBI)pfam07974    pfam00147    pfam00041   
Domain families : Smart (EMBL)EGF (SM00181)  FBG (SM00186)  FN3 (SM00060)  
Conserved Domain (NCBI)TNXB
DMDM Disease mutations7148
Blocks (Seattle)TNXB
PDB (SRS)2CUH    2CUI    2CUM   
PDB (PDBSum)2CUH    2CUI    2CUM   
PDB (IMB)2CUH    2CUI    2CUM   
PDB (RSDB)2CUH    2CUI    2CUM   
Structural Biology KnowledgeBase2CUH    2CUI    2CUM   
SCOP (Structural Classification of Proteins)2CUH    2CUI    2CUM   
CATH (Classification of proteins structures)2CUH    2CUI    2CUM   
SuperfamilyP22105
Human Protein Atlas [tissue]ENSG00000168477-TNXB [tissue]
Peptide AtlasP22105
HPRD02993
IPIIPI00025276   IPI00218639   IPI01021394   IPI01022177   IPI01022213   IPI00941345   IPI00644296   IPI00895929   IPI00794100   IPI00940723   IPI00892681   IPI00942649   IPI00893590   IPI00941929   IPI00946340   
Protein Interaction databases
DIP (DOE-UCLA)P22105
IntAct (EBI)P22105
FunCoupENSG00000168477
BioGRIDTNXB
STRING (EMBL)TNXB
ZODIACTNXB
Ontologies - Pathways
QuickGOP22105
Ontology : AmiGOintegrin binding  protein binding  extracellular region  proteinaceous extracellular matrix  fibrillar collagen trimer  extracellular space  intracellular  cell adhesion  heparin binding  actin cytoskeleton organization  collagen fibril organization  extracellular matrix  extracellular matrix  extracellular matrix  collagen metabolic process  elastic fiber assembly  extracellular exosome  
Ontology : EGO-EBIintegrin binding  protein binding  extracellular region  proteinaceous extracellular matrix  fibrillar collagen trimer  extracellular space  intracellular  cell adhesion  heparin binding  actin cytoskeleton organization  collagen fibril organization  extracellular matrix  extracellular matrix  extracellular matrix  collagen metabolic process  elastic fiber assembly  extracellular exosome  
Pathways : KEGGFocal adhesion    ECM-receptor interaction    Cell Communication   
NDEx NetworkTNXB
Atlas of Cancer Signalling NetworkTNXB
Wikipedia pathwaysTNXB
Orthology - Evolution
OrthoDB7148
GeneTree (enSembl)ENSG00000168477
Phylogenetic Trees/Animal Genes : TreeFamTNXB
HOVERGENP22105
HOGENOMP22105
Homologs : HomoloGeneTNXB
Homology/Alignments : Family Browser (UCSC)TNXB
Gene fusions - Rearrangements
Fusion : MitelmanTNXB/CMAHP [6p21.33/6p22.3]  
Fusion: TCGA_MDACCTNXB 6p21.33 CMAHP 6p22.3 HNSC
Fusion PortalTNXB 6p21.33 CMAHP 6p22.3 HNSC
Fusion : QuiverTNXB
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTNXB [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TNXB
dbVarTNXB
ClinVarTNXB
1000_GenomesTNXB 
Exome Variant ServerTNXB
ExAC (Exome Aggregation Consortium)ENSG00000168477
GNOMAD BrowserENSG00000168477
Genetic variants : HAPMAP7148
Genomic Variants (DGV)TNXB [DGVbeta]
DECIPHERTNXB [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTNXB 
Mutations
ICGC Data PortalTNXB 
TCGA Data PortalTNXB 
Broad Tumor PortalTNXB
OASIS PortalTNXB [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTNXB  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDTNXB
LOVD (Leiden Open Variation Database)Ehlers Danlos Syndrome Variant Database
BioMutasearch TNXB
DgiDB (Drug Gene Interaction Database)TNXB
DoCM (Curated mutations)TNXB (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TNXB (select a term)
intoGenTNXB
Cancer3DTNXB(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600985    606408    615963   
Orphanet19142    4041    20715   
DisGeNETTNXB
MedgenTNXB
Genetic Testing Registry TNXB
NextProtP22105 [Medical]
TSGene7148
GENETestsTNXB
Target ValidationTNXB
Huge Navigator TNXB [HugePedia]
snp3D : Map Gene to Disease7148
BioCentury BCIQTNXB
ClinGenTNXB
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD7148
Chemical/Pharm GKB GenePA36662
Clinical trialTNXB
Miscellaneous
canSAR (ICR)TNXB (select the gene name)
Probes
Litterature
PubMed81 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTNXB
EVEXTNXB
GoPubMedTNXB
iHOPTNXB
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Feb 28 13:42:31 CET 2018
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