Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SLC1A6 (solute carrier family 1 member 6)

Identity

Alias_namessolute carrier family 1 (high affinity aspartate/glutamate transporter), member 6
Alias_symbol (synonym)EAAT4
Other alias
HGNC (Hugo) SLC1A6
LocusID (NCBI) 6511
Atlas_Id 73312
Location 19p13.12  [Link to chromosome band 19p13]
Location_base_pair Starts at 14961313 and ends at 14979735 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
FKBP8 (19p13.11) / SLC1A6 (19p13.12)ZNF253 (19p13.11) / SLC1A6 (19p13.12)ZSWIM4 (19p13.13) / SLC1A6 (19p13.12)
FKBP8 SLC1A6ZSWIM4 SLC1A6ZNF253 SLC1A6

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)SLC1A6   10944
Cards
Entrez_Gene (NCBI)SLC1A6  6511  solute carrier family 1 member 6
AliasesEAAT4
GeneCards (Weizmann)SLC1A6
Ensembl hg19 (Hinxton)ENSG00000105143 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000105143 [Gene_View]  chr19:14961313-14979735 [Contig_View]  SLC1A6 [Vega]
ICGC DataPortalENSG00000105143
TCGA cBioPortalSLC1A6
AceView (NCBI)SLC1A6
Genatlas (Paris)SLC1A6
WikiGenes6511
SOURCE (Princeton)SLC1A6
Genetics Home Reference (NIH)SLC1A6
Genomic and cartography
GoldenPath hg38 (UCSC)SLC1A6  -     chr19:14961313-14979735 -  19p13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLC1A6  -     19p13.12   [Description]    (hg19-Feb_2009)
EnsemblSLC1A6 - 19p13.12 [CytoView hg19]  SLC1A6 - 19p13.12 [CytoView hg38]
Mapping of homologs : NCBISLC1A6 [Mapview hg19]  SLC1A6 [Mapview hg38]
OMIM600637   
Gene and transcription
Genbank (Entrez)AB209199 AK302380 AK312996 BC028721 BC040604
RefSeq transcript (Entrez)NM_001272087 NM_001272088 NM_005071
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLC1A6
Cluster EST : UnigeneHs.733178 [ NCBI ]
CGAP (NCI)Hs.733178
Alternative Splicing GalleryENSG00000105143
Gene ExpressionSLC1A6 [ NCBI-GEO ]   SLC1A6 [ EBI - ARRAY_EXPRESS ]   SLC1A6 [ SEEK ]   SLC1A6 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC1A6 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6511
GTEX Portal (Tissue expression)SLC1A6
Protein : pattern, domain, 3D structure
UniProt/SwissProtP48664   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP48664  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP48664
Splice isoforms : SwissVarP48664
PhosPhoSitePlusP48664
Domaine pattern : Prosite (Expaxy)NA_DICARBOXYL_SYMP_1 (PS00713)    NA_DICARBOXYL_SYMP_2 (PS00714)   
Domains : Interpro (EBI)Na-dicarboxylate_symporter    Na-dicarboxylate_symporter_CS   
Domain families : Pfam (Sanger)SDF (PF00375)   
Domain families : Pfam (NCBI)pfam00375   
Conserved Domain (NCBI)SLC1A6
DMDM Disease mutations6511
Blocks (Seattle)SLC1A6
SuperfamilyP48664
Human Protein AtlasENSG00000105143
Peptide AtlasP48664
HPRD09005
IPIIPI00010766   IPI00922079   IPI01010129   IPI00642667   
Protein Interaction databases
DIP (DOE-UCLA)P48664
IntAct (EBI)P48664
FunCoupENSG00000105143
BioGRIDSLC1A6
STRING (EMBL)SLC1A6
ZODIACSLC1A6
Ontologies - Pathways
QuickGOP48664
Ontology : AmiGOhigh-affinity glutamate transmembrane transporter activity  Golgi apparatus  plasma membrane  integral component of plasma membrane  ion transport  chemical synaptic transmission  glutamate secretion  amino acid transmembrane transporter activity  L-aspartate transmembrane transporter activity  aspartate transport  L-glutamate transport  membrane  regulation of membrane potential  intermediate filament cytoskeleton  L-glutamate transmembrane transport  L-aspartate transmembrane transport  
Ontology : EGO-EBIhigh-affinity glutamate transmembrane transporter activity  Golgi apparatus  plasma membrane  integral component of plasma membrane  ion transport  chemical synaptic transmission  glutamate secretion  amino acid transmembrane transporter activity  L-aspartate transmembrane transporter activity  aspartate transport  L-glutamate transport  membrane  regulation of membrane potential  intermediate filament cytoskeleton  L-glutamate transmembrane transport  L-aspartate transmembrane transport  
Pathways : KEGGGlutamatergic synapse   
NDEx NetworkSLC1A6
Atlas of Cancer Signalling NetworkSLC1A6
Wikipedia pathwaysSLC1A6
Orthology - Evolution
OrthoDB6511
GeneTree (enSembl)ENSG00000105143
Phylogenetic Trees/Animal Genes : TreeFamSLC1A6
HOVERGENP48664
HOGENOMP48664
Homologs : HomoloGeneSLC1A6
Homology/Alignments : Family Browser (UCSC)SLC1A6
Gene fusions - Rearrangements
Fusion: TCGAFKBP8 SLC1A6
Fusion: TCGAZSWIM4 SLC1A6
Fusion: TCGAZNF253 SLC1A6
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC1A6 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC1A6
dbVarSLC1A6
ClinVarSLC1A6
1000_GenomesSLC1A6 
Exome Variant ServerSLC1A6
ExAC (Exome Aggregation Consortium)SLC1A6 (select the gene name)
Genetic variants : HAPMAP6511
Genomic Variants (DGV)SLC1A6 [DGVbeta]
DECIPHERSLC1A6 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLC1A6 
Mutations
ICGC Data PortalSLC1A6 
TCGA Data PortalSLC1A6 
Broad Tumor PortalSLC1A6
OASIS PortalSLC1A6 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC1A6  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLC1A6
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 SLC1A6
DgiDB (Drug Gene Interaction Database)SLC1A6
DoCM (Curated mutations)SLC1A6 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC1A6 (select a term)
intoGenSLC1A6
Cancer3DSLC1A6(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM600637   
Orphanet
MedgenSLC1A6
Genetic Testing Registry SLC1A6
NextProtP48664 [Medical]
TSGene6511
GENETestsSLC1A6
Target ValidationSLC1A6
Huge Navigator SLC1A6 [HugePedia]
snp3D : Map Gene to Disease6511
BioCentury BCIQSLC1A6
ClinGenSLC1A6
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6511
Chemical/Pharm GKB GenePA35831
Clinical trialSLC1A6
Miscellaneous
canSAR (ICR)SLC1A6 (select the gene name)
Probes
Litterature
PubMed18 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC1A6
EVEXSLC1A6
GoPubMedSLC1A6
iHOPSLC1A6
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed May 31 15:40:57 CEST 2017

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