Atlas of Genetics and Cytogenetics in Oncology and Haematology

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TSKU (tsukushi, small leucine rich proteoglycan)

Identity

Alias_namesLRRC54
leucine rich repeat containing 54
tsukushin
tsukushi small leucine rich proteoglycan homolog (Xenopus laevis)
Alias_symbol (synonym)E2IG4
TSK
Other alias
HGNC (Hugo) TSKU
LocusID (NCBI) 25987
Atlas_Id 40387
Location 11q13.5  [Link to chromosome band 11q13]
Location_base_pair Starts at 76783241 and ends at 76798154 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)
FXYD5 (19q13.12) / TSKU (11q13.5)TSKU (11q13.5) / KDM5A (12p13.33)TSKU (11q13.5) / SFRP4 (7p14.1)
TSKU (11q13.5) / TSKU (11q13.5)TSKU 11q13.5 / SFRP4 7p14.1

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(7;11)(p14;q13) TSKU/SFRP4

External links

Nomenclature
HGNC (Hugo)TSKU   28850
Cards
Entrez_Gene (NCBI)TSKU  25987  tsukushi, small leucine rich proteoglycan
AliasesE2IG4; LRRC54; TSK
GeneCards (Weizmann)TSKU
Ensembl hg19 (Hinxton)ENSG00000182704 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000182704 [Gene_View]  ENSG00000182704 [Sequence]  chr11:76783241-76798154 [Contig_View]  TSKU [Vega]
ICGC DataPortalENSG00000182704
TCGA cBioPortalTSKU
AceView (NCBI)TSKU
Genatlas (Paris)TSKU
WikiGenes25987
SOURCE (Princeton)TSKU
Genetics Home Reference (NIH)TSKU
Genomic and cartography
GoldenPath hg38 (UCSC)TSKU  -     chr11:76783241-76798154 +  11q13.5   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)TSKU  -     11q13.5   [Description]    (hg19-Feb_2009)
GoldenPathTSKU - 11q13.5 [CytoView hg19]  TSKU - 11q13.5 [CytoView hg38]
ImmunoBaseENSG00000182704
Mapping of homologs : NCBITSKU [Mapview hg19]  TSKU [Mapview hg38]
OMIM608015   
Gene and transcription
Genbank (Entrez)AF191019 AK075476 AK091475 AK126536 AK313405
RefSeq transcript (Entrez)NM_001258210 NM_001318477 NM_001318478 NM_001318479 NM_015516
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)TSKU
Cluster EST : UnigeneHs.8361 [ NCBI ]
CGAP (NCI)Hs.8361
Alternative Splicing GalleryENSG00000182704
Gene ExpressionTSKU [ NCBI-GEO ]   TSKU [ EBI - ARRAY_EXPRESS ]   TSKU [ SEEK ]   TSKU [ MEM ]
Gene Expression Viewer (FireBrowse)TSKU [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)25987
GTEX Portal (Tissue expression)TSKU
Human Protein AtlasENSG00000182704-TSKU [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ8WUA8   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ8WUA8  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ8WUA8
Splice isoforms : SwissVarQ8WUA8
PhosPhoSitePlusQ8WUA8
Domaine pattern : Prosite (Expaxy)LRR (PS51450)   
Domains : Interpro (EBI)Leu-rich_rpt    Leu-rich_rpt_typical-subtyp    LRR_dom_sf   
Domain families : Pfam (Sanger)LRR_8 (PF13855)   
Domain families : Pfam (NCBI)pfam13855   
Domain families : Smart (EMBL)LRR_TYP (SM00369)  
Conserved Domain (NCBI)TSKU
DMDM Disease mutations25987
Blocks (Seattle)TSKU
SuperfamilyQ8WUA8
Human Protein Atlas [tissue]ENSG00000182704-TSKU [tissue]
Peptide AtlasQ8WUA8
HPRD12152
IPIIPI00641368   IPI00903128   IPI00983998   IPI00977132   
Protein Interaction databases
DIP (DOE-UCLA)Q8WUA8
IntAct (EBI)Q8WUA8
FunCoupENSG00000182704
BioGRIDTSKU
STRING (EMBL)TSKU
ZODIACTSKU
Ontologies - Pathways
QuickGOQ8WUA8
Ontology : AmiGOextracellular space  regulation of gene expression  corpus callosum morphogenesis  lateral ventricle development  anterior commissure morphogenesis  negative regulation of Wnt signaling pathway  ciliary body morphogenesis  
Ontology : EGO-EBIextracellular space  regulation of gene expression  corpus callosum morphogenesis  lateral ventricle development  anterior commissure morphogenesis  negative regulation of Wnt signaling pathway  ciliary body morphogenesis  
NDEx NetworkTSKU
Atlas of Cancer Signalling NetworkTSKU
Wikipedia pathwaysTSKU
Orthology - Evolution
OrthoDB25987
GeneTree (enSembl)ENSG00000182704
Phylogenetic Trees/Animal Genes : TreeFamTSKU
HOGENOMQ8WUA8
Homologs : HomoloGeneTSKU
Homology/Alignments : Family Browser (UCSC)TSKU
Gene fusions - Rearrangements
Fusion : MitelmanTSKU/SFRP4 [11q13.5/7p14.1]  
Fusion PortalTSKU 11q13.5 SFRP4 7p14.1 BRCA
Fusion : QuiverTSKU
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerTSKU [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TSKU
dbVarTSKU
ClinVarTSKU
1000_GenomesTSKU 
Exome Variant ServerTSKU
ExAC (Exome Aggregation Consortium)ENSG00000182704
GNOMAD BrowserENSG00000182704
Varsome BrowserTSKU
Genetic variants : HAPMAP25987
Genomic Variants (DGV)TSKU [DGVbeta]
DECIPHERTSKU [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisTSKU 
Mutations
ICGC Data PortalTSKU 
TCGA Data PortalTSKU 
Broad Tumor PortalTSKU
OASIS PortalTSKU [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTSKU  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DTSKU
Mutations and Diseases : HGMDTSKU
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 TSKU
DgiDB (Drug Gene Interaction Database)TSKU
DoCM (Curated mutations)TSKU (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TSKU (select a term)
intoGenTSKU
Cancer3DTSKU(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608015   
Orphanet
DisGeNETTSKU
MedgenTSKU
Genetic Testing Registry TSKU
NextProtQ8WUA8 [Medical]
TSGene25987
GENETestsTSKU
Target ValidationTSKU
Huge Navigator TSKU [HugePedia]
snp3D : Map Gene to Disease25987
BioCentury BCIQTSKU
ClinGenTSKU
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD25987
Chemical/Pharm GKB GenePA162407150
Clinical trialTSKU
Miscellaneous
canSAR (ICR)TSKU (select the gene name)
DataMed IndexTSKU
Probes
Litterature
PubMed13 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTSKU
EVEXTSKU
GoPubMedTSKU
iHOPTSKU
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Nov 13 18:13:23 CET 2019
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