Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SH3TC1 (SH3 domain and tetratricopeptide repeats 1)

Identity

Alias_symbol (synonym)FLJ20356
Other alias-
HGNC (Hugo) SH3TC1
LocusID (NCBI) 54436
Atlas_Id 73215
Location 4p16.1  [Link to chromosome band 4p16]
Location_base_pair Starts at 8199244 and ends at 8241103 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)
GCA (2q24.2) / SH3TC1 (4p16.1)SORCS2 (4p16.1) / SH3TC1 (4p16.1)

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

 


External links

Nomenclature
HGNC (Hugo)SH3TC1   26009
Cards
Entrez_Gene (NCBI)SH3TC1  54436  SH3 domain and tetratricopeptide repeats 1
Aliases
GeneCards (Weizmann)SH3TC1
Ensembl hg19 (Hinxton)ENSG00000125089 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000125089 [Gene_View]  chr4:8199244-8241103 [Contig_View]  SH3TC1 [Vega]
ICGC DataPortalENSG00000125089
TCGA cBioPortalSH3TC1
AceView (NCBI)SH3TC1
Genatlas (Paris)SH3TC1
WikiGenes54436
SOURCE (Princeton)SH3TC1
Genetics Home Reference (NIH)SH3TC1
Genomic and cartography
GoldenPath hg38 (UCSC)SH3TC1  -     chr4:8199244-8241103 +  4p16.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SH3TC1  -     4p16.1   [Description]    (hg19-Feb_2009)
EnsemblSH3TC1 - 4p16.1 [CytoView hg19]  SH3TC1 - 4p16.1 [CytoView hg38]
Mapping of homologs : NCBISH3TC1 [Mapview hg19]  SH3TC1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK000363 AK057561 AK074093 AK074402 AK093562
RefSeq transcript (Entrez)NM_001318480 NM_018986
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SH3TC1
Cluster EST : UnigeneHs.479116 [ NCBI ]
CGAP (NCI)Hs.479116
Alternative Splicing GalleryENSG00000125089
Gene ExpressionSH3TC1 [ NCBI-GEO ]   SH3TC1 [ EBI - ARRAY_EXPRESS ]   SH3TC1 [ SEEK ]   SH3TC1 [ MEM ]
Gene Expression Viewer (FireBrowse)SH3TC1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)54436
GTEX Portal (Tissue expression)SH3TC1
Human Protein AtlasENSG00000125089-SH3TC1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8TE82   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8TE82  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8TE82
Splice isoforms : SwissVarQ8TE82
PhosPhoSitePlusQ8TE82
Domaine pattern : Prosite (Expaxy)SH3 (PS50002)   
Domains : Interpro (EBI)SH3_domain    TPR-like_helical_dom    TPR_repeat   
Domain families : Pfam (Sanger)SH3_1 (PF00018)   
Domain families : Pfam (NCBI)pfam00018   
Domain families : Smart (EMBL)SH3 (SM00326)  TPR (SM00028)  
Conserved Domain (NCBI)SH3TC1
DMDM Disease mutations54436
Blocks (Seattle)SH3TC1
SuperfamilyQ8TE82
Human Protein Atlas [tissue]ENSG00000125089-SH3TC1 [tissue]
Peptide AtlasQ8TE82
HPRD11556
IPIIPI00152665   IPI00829831   IPI00291760   IPI00964097   IPI00964361   IPI00981559   IPI00966003   IPI00965739   IPI00965972   IPI00964036   IPI00939288   IPI00432735   
Protein Interaction databases
DIP (DOE-UCLA)Q8TE82
IntAct (EBI)Q8TE82
FunCoupENSG00000125089
BioGRIDSH3TC1
STRING (EMBL)SH3TC1
ZODIACSH3TC1
Ontologies - Pathways
QuickGOQ8TE82
Ontology : AmiGOcellular_component  biological_process  
Ontology : EGO-EBIcellular_component  biological_process  
NDEx NetworkSH3TC1
Atlas of Cancer Signalling NetworkSH3TC1
Wikipedia pathwaysSH3TC1
Orthology - Evolution
OrthoDB54436
GeneTree (enSembl)ENSG00000125089
Phylogenetic Trees/Animal Genes : TreeFamSH3TC1
HOVERGENQ8TE82
HOGENOMQ8TE82
Homologs : HomoloGeneSH3TC1
Homology/Alignments : Family Browser (UCSC)SH3TC1
Gene fusions - Rearrangements
Fusion: Tumor Portal SH3TC1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSH3TC1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SH3TC1
dbVarSH3TC1
ClinVarSH3TC1
1000_GenomesSH3TC1 
Exome Variant ServerSH3TC1
ExAC (Exome Aggregation Consortium)ENSG00000125089
GNOMAD BrowserENSG00000125089
Genetic variants : HAPMAP54436
Genomic Variants (DGV)SH3TC1 [DGVbeta]
DECIPHERSH3TC1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSH3TC1 
Mutations
ICGC Data PortalSH3TC1 
TCGA Data PortalSH3TC1 
Broad Tumor PortalSH3TC1
OASIS PortalSH3TC1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSH3TC1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSH3TC1
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SH3TC1
DgiDB (Drug Gene Interaction Database)SH3TC1
DoCM (Curated mutations)SH3TC1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SH3TC1 (select a term)
intoGenSH3TC1
Cancer3DSH3TC1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenSH3TC1
Genetic Testing Registry SH3TC1
NextProtQ8TE82 [Medical]
TSGene54436
GENETestsSH3TC1
Target ValidationSH3TC1
Huge Navigator SH3TC1 [HugePedia]
snp3D : Map Gene to Disease54436
BioCentury BCIQSH3TC1
ClinGenSH3TC1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD54436
Chemical/Pharm GKB GenePA128394666
Clinical trialSH3TC1
Miscellaneous
canSAR (ICR)SH3TC1 (select the gene name)
Probes
Litterature
PubMed6 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSH3TC1
EVEXSH3TC1
GoPubMedSH3TC1
iHOPSH3TC1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Thu Nov 9 12:27:02 CET 2017

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