Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SLC38A1 (solute carrier family 38 member 1)

Identity

Alias_namessolute carrier family 38
Alias_symbol (synonym)ATA1
NAT2
SAT1
Other aliasSNAT1
HGNC (Hugo) SLC38A1
LocusID (NCBI) 81539
Atlas_Id 49734
Location 12q13.11  [Link to chromosome band 12q13]
Location_base_pair Starts at 46183056 and ends at 46269425 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
SLC38A1 (12q13.11) / ACTR3 (2q14.1)UBTD2 (5q35.1) / SLC38A1 (12q13.11)

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)SLC38A1   13447
Cards
Entrez_Gene (NCBI)SLC38A1  81539  solute carrier family 38 member 1
AliasesATA1; NAT2; SAT1; SNAT1
GeneCards (Weizmann)SLC38A1
Ensembl hg19 (Hinxton)ENSG00000111371 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000111371 [Gene_View]  chr12:46183056-46269425 [Contig_View]  SLC38A1 [Vega]
ICGC DataPortalENSG00000111371
TCGA cBioPortalSLC38A1
AceView (NCBI)SLC38A1
Genatlas (Paris)SLC38A1
WikiGenes81539
SOURCE (Princeton)SLC38A1
Genetics Home Reference (NIH)SLC38A1
Genomic and cartography
GoldenPath hg38 (UCSC)SLC38A1  -     chr12:46183056-46269425 -  12q13.11   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLC38A1  -     12q13.11   [Description]    (hg19-Feb_2009)
EnsemblSLC38A1 - 12q13.11 [CytoView hg19]  SLC38A1 - 12q13.11 [CytoView hg38]
Mapping of homologs : NCBISLC38A1 [Mapview hg19]  SLC38A1 [Mapview hg38]
OMIM608490   
Gene and transcription
Genbank (Entrez)AA740867 AA864710 AF247166 AF271070 AK024263
RefSeq transcript (Entrez)NM_001077484 NM_001278387 NM_001278388 NM_001278389 NM_001278390 NM_030674
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLC38A1
Cluster EST : UnigeneHs.533770 [ NCBI ]
CGAP (NCI)Hs.533770
Alternative Splicing GalleryENSG00000111371
Gene ExpressionSLC38A1 [ NCBI-GEO ]   SLC38A1 [ EBI - ARRAY_EXPRESS ]   SLC38A1 [ SEEK ]   SLC38A1 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC38A1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)81539
GTEX Portal (Tissue expression)SLC38A1
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9H2H9   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9H2H9  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9H2H9
Splice isoforms : SwissVarQ9H2H9
PhosPhoSitePlusQ9H2H9
Domains : Interpro (EBI)AA_transpt_TM   
Domain families : Pfam (Sanger)Aa_trans (PF01490)   
Domain families : Pfam (NCBI)pfam01490   
Conserved Domain (NCBI)SLC38A1
DMDM Disease mutations81539
Blocks (Seattle)SLC38A1
SuperfamilyQ9H2H9
Human Protein AtlasENSG00000111371
Peptide AtlasQ9H2H9
HPRD12245
IPIIPI00023030   IPI00871279   IPI01022785   IPI01021628   
Protein Interaction databases
DIP (DOE-UCLA)Q9H2H9
IntAct (EBI)Q9H2H9
FunCoupENSG00000111371
BioGRIDSLC38A1
STRING (EMBL)SLC38A1
ZODIACSLC38A1
Ontologies - Pathways
QuickGOQ9H2H9
Ontology : AmiGOneurotransmitter uptake  amino acid transmembrane transport  sodium:amino acid symporter activity  protein binding  plasma membrane  integral component of plasma membrane  sodium ion transport  amino acid transport  amino acid transmembrane transporter activity  amino acid transmembrane transporter activity  neutral amino acid transmembrane transporter activity  L-amino acid transmembrane transporter activity  neutral amino acid transport  integral component of membrane  extracellular exosome  L-alpha-amino acid transmembrane transport  
Ontology : EGO-EBIneurotransmitter uptake  amino acid transmembrane transport  sodium:amino acid symporter activity  protein binding  plasma membrane  integral component of plasma membrane  sodium ion transport  amino acid transport  amino acid transmembrane transporter activity  amino acid transmembrane transporter activity  neutral amino acid transmembrane transporter activity  L-amino acid transmembrane transporter activity  neutral amino acid transport  integral component of membrane  extracellular exosome  L-alpha-amino acid transmembrane transport  
Pathways : KEGGGlutamatergic synapse    GABAergic synapse   
NDEx NetworkSLC38A1
Atlas of Cancer Signalling NetworkSLC38A1
Wikipedia pathwaysSLC38A1
Orthology - Evolution
OrthoDB81539
GeneTree (enSembl)ENSG00000111371
Phylogenetic Trees/Animal Genes : TreeFamSLC38A1
HOVERGENQ9H2H9
HOGENOMQ9H2H9
Homologs : HomoloGeneSLC38A1
Homology/Alignments : Family Browser (UCSC)SLC38A1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC38A1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC38A1
dbVarSLC38A1
ClinVarSLC38A1
1000_GenomesSLC38A1 
Exome Variant ServerSLC38A1
ExAC (Exome Aggregation Consortium)SLC38A1 (select the gene name)
Genetic variants : HAPMAP81539
Genomic Variants (DGV)SLC38A1 [DGVbeta]
DECIPHERSLC38A1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLC38A1 
Mutations
ICGC Data PortalSLC38A1 
TCGA Data PortalSLC38A1 
Broad Tumor PortalSLC38A1
OASIS PortalSLC38A1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC38A1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLC38A1
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 SLC38A1
DgiDB (Drug Gene Interaction Database)SLC38A1
DoCM (Curated mutations)SLC38A1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC38A1 (select a term)
intoGenSLC38A1
Cancer3DSLC38A1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM608490   
Orphanet
MedgenSLC38A1
Genetic Testing Registry SLC38A1
NextProtQ9H2H9 [Medical]
TSGene81539
GENETestsSLC38A1
Target ValidationSLC38A1
Huge Navigator SLC38A1 [HugePedia]
snp3D : Map Gene to Disease81539
BioCentury BCIQSLC38A1
ClinGenSLC38A1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD81539
Chemical/Pharm GKB GenePA37772
Clinical trialSLC38A1
Miscellaneous
canSAR (ICR)SLC38A1 (select the gene name)
Probes
Litterature
PubMed32 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC38A1
EVEXSLC38A1
GoPubMedSLC38A1
iHOPSLC38A1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:56:07 CEST 2017

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