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SLC46A2 (solute carrier family 46 member 2)

Identity

Alias_namesTSCOT
thymic stromal co-transporter
solute carrier family 46, member 2
Alias_symbol (synonym)Ly110
Other alias
HGNC (Hugo) SLC46A2
LocusID (NCBI) 57864
Atlas_Id 50168
Location 9q32  [Link to chromosome band 9q32]
Location_base_pair Starts at 115641200 and ends at 115653193 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
USP42 (7p22.1) / SLC46A2 (9q32)USP42 7p22.1 / SLC46A2 9q32

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)SLC46A2   16055
Cards
Entrez_Gene (NCBI)SLC46A2  57864  solute carrier family 46 member 2
AliasesLy110; TSCOT
GeneCards (Weizmann)SLC46A2
Ensembl hg19 (Hinxton)ENSG00000119457 [Gene_View]  chr9:115641200-115653193 [Contig_View]  SLC46A2 [Vega]
Ensembl hg38 (Hinxton)ENSG00000119457 [Gene_View]  chr9:115641200-115653193 [Contig_View]  SLC46A2 [Vega]
ICGC DataPortalENSG00000119457
TCGA cBioPortalSLC46A2
AceView (NCBI)SLC46A2
Genatlas (Paris)SLC46A2
WikiGenes57864
SOURCE (Princeton)SLC46A2
Genetics Home Reference (NIH)SLC46A2
Genomic and cartography
GoldenPath hg19 (UCSC)SLC46A2  -     chr9:115641200-115653193 -  9q32   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SLC46A2  -     9q32   [Description]    (hg38-Dec_2013)
EnsemblSLC46A2 - 9q32 [CytoView hg19]  SLC46A2 - 9q32 [CytoView hg38]
Mapping of homologs : NCBISLC46A2 [Mapview hg19]  SLC46A2 [Mapview hg38]
OMIM608956   
Gene and transcription
Genbank (Entrez)AF242557 AK055571 AK314414 BC048285 DA593062
RefSeq transcript (Entrez)NM_033051
RefSeq genomic (Entrez)NC_000009 NC_018920 NT_008470 NW_004929366
Consensus coding sequences : CCDS (NCBI)SLC46A2
Cluster EST : UnigeneHs.512668 [ NCBI ]
CGAP (NCI)Hs.512668
Alternative Splicing GalleryENSG00000119457
Gene ExpressionSLC46A2 [ NCBI-GEO ]   SLC46A2 [ EBI - ARRAY_EXPRESS ]   SLC46A2 [ SEEK ]   SLC46A2 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC46A2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)57864
GTEX Portal (Tissue expression)SLC46A2
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BY10   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9BY10  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BY10
Splice isoforms : SwissVarQ9BY10
PhosPhoSitePlusQ9BY10
Domains : Interpro (EBI)MFS    MFS_dom    Tet-R_TetA/multi-R_MdtG   
Domain families : Pfam (Sanger)MFS_1 (PF07690)   
Domain families : Pfam (NCBI)pfam07690   
Conserved Domain (NCBI)SLC46A2
DMDM Disease mutations57864
Blocks (Seattle)SLC46A2
SuperfamilyQ9BY10
Human Protein AtlasENSG00000119457
Peptide AtlasQ9BY10
HPRD16411
IPIIPI00011465   
Protein Interaction databases
DIP (DOE-UCLA)Q9BY10
IntAct (EBI)Q9BY10
FunCoupENSG00000119457
BioGRIDSLC46A2
STRING (EMBL)SLC46A2
ZODIACSLC46A2
Ontologies - Pathways
QuickGOQ9BY10
Ontology : AmiGOplasma membrane  cell surface  symporter activity  integral component of membrane  T cell homeostasis  regulation of T cell differentiation  thymus development  transmembrane transport  negative regulation of T cell apoptotic process  
Ontology : EGO-EBIplasma membrane  cell surface  symporter activity  integral component of membrane  T cell homeostasis  regulation of T cell differentiation  thymus development  transmembrane transport  negative regulation of T cell apoptotic process  
NDEx NetworkSLC46A2
Atlas of Cancer Signalling NetworkSLC46A2
Wikipedia pathwaysSLC46A2
Orthology - Evolution
OrthoDB57864
GeneTree (enSembl)ENSG00000119457
Phylogenetic Trees/Animal Genes : TreeFamSLC46A2
HOVERGENQ9BY10
HOGENOMQ9BY10
Homologs : HomoloGeneSLC46A2
Homology/Alignments : Family Browser (UCSC)SLC46A2
Gene fusions - Rearrangements
Fusion : MitelmanUSP42/SLC46A2 [7p22.1/9q32]  [t(7;9)(p22;q32)]  
Fusion: TCGAUSP42 7p22.1 SLC46A2 9q32 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC46A2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC46A2
dbVarSLC46A2
ClinVarSLC46A2
1000_GenomesSLC46A2 
Exome Variant ServerSLC46A2
ExAC (Exome Aggregation Consortium)SLC46A2 (select the gene name)
Genetic variants : HAPMAP57864
Genomic Variants (DGV)SLC46A2 [DGVbeta]
DECIPHER (Syndromes)9:115641200-115653193  ENSG00000119457
CONAN: Copy Number AnalysisSLC46A2 
Mutations
ICGC Data PortalSLC46A2 
TCGA Data PortalSLC46A2 
Broad Tumor PortalSLC46A2
OASIS PortalSLC46A2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC46A2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLC46A2
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 SLC46A2
DgiDB (Drug Gene Interaction Database)SLC46A2
DoCM (Curated mutations)SLC46A2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC46A2 (select a term)
intoGenSLC46A2
Cancer3DSLC46A2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608956   
Orphanet
MedgenSLC46A2
Genetic Testing Registry SLC46A2
NextProtQ9BY10 [Medical]
TSGene57864
GENETestsSLC46A2
Huge Navigator SLC46A2 [HugePedia]
snp3D : Map Gene to Disease57864
BioCentury BCIQSLC46A2
ClinGenSLC46A2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD57864
Chemical/Pharm GKB GenePA162403790
Clinical trialSLC46A2
Miscellaneous
canSAR (ICR)SLC46A2 (select the gene name)
Probes
Litterature
PubMed9 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC46A2
EVEXSLC46A2
GoPubMedSLC46A2
iHOPSLC46A2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Mar 14 13:27:58 CET 2017

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