Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SLC6A9 (solute carrier family 6 member 9)

Identity

Alias_namessolute carrier family 6 (neurotransmitter transporter, glycine), member 9
Alias_symbol (synonym)GLYT1
Other aliasGCENSG
HGNC (Hugo) SLC6A9
LocusID (NCBI) 6536
Atlas_Id 73480
Location 1p34.1  [Link to chromosome band 1p34]
Location_base_pair Starts at 43996483 and ends at 44031492 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)
CFDP1 (16q23.1) / SLC6A9 (1p34.1)GMIP (19p13.11) / SLC6A9 (1p34.1)

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)SLC6A9   11056
Cards
Entrez_Gene (NCBI)SLC6A9  6536  solute carrier family 6 member 9
AliasesGCENSG; GLYT1
GeneCards (Weizmann)SLC6A9
Ensembl hg19 (Hinxton)ENSG00000196517 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000196517 [Gene_View]  chr1:43996483-44031492 [Contig_View]  SLC6A9 [Vega]
ICGC DataPortalENSG00000196517
TCGA cBioPortalSLC6A9
AceView (NCBI)SLC6A9
Genatlas (Paris)SLC6A9
WikiGenes6536
SOURCE (Princeton)SLC6A9
Genetics Home Reference (NIH)SLC6A9
Genomic and cartography
GoldenPath hg38 (UCSC)SLC6A9  -     chr1:43996483-44031492 -  1p34.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SLC6A9  -     1p34.1   [Description]    (hg19-Feb_2009)
EnsemblSLC6A9 - 1p34.1 [CytoView hg19]  SLC6A9 - 1p34.1 [CytoView hg38]
Mapping of homologs : NCBISLC6A9 [Mapview hg19]  SLC6A9 [Mapview hg38]
OMIM601019   617301   
Gene and transcription
Genbank (Entrez)AI884725 AK296438 AK298611 AK304057 AK311136
RefSeq transcript (Entrez)NM_001024845 NM_001261380 NM_001328626 NM_001328627 NM_001328628 NM_001328629 NM_001328630 NM_006934 NM_201649
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SLC6A9
Cluster EST : UnigeneHs.442590 [ NCBI ]
CGAP (NCI)Hs.442590
Alternative Splicing GalleryENSG00000196517
Gene ExpressionSLC6A9 [ NCBI-GEO ]   SLC6A9 [ EBI - ARRAY_EXPRESS ]   SLC6A9 [ SEEK ]   SLC6A9 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC6A9 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6536
GTEX Portal (Tissue expression)SLC6A9
Human Protein AtlasENSG00000196517-SLC6A9 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP48067   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP48067  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP48067
Splice isoforms : SwissVarP48067
PhosPhoSitePlusP48067
Domaine pattern : Prosite (Expaxy)NA_NEUROTRAN_SYMP_1 (PS00610)    NA_NEUROTRAN_SYMP_2 (PS00754)    NA_NEUROTRAN_SYMP_3 (PS50267)   
Domains : Interpro (EBI)Na/ntran_symport    Na/ntran_symport_glycine_GLY1   
Domain families : Pfam (Sanger)SNF (PF00209)   
Domain families : Pfam (NCBI)pfam00209   
Conserved Domain (NCBI)SLC6A9
DMDM Disease mutations6536
Blocks (Seattle)SLC6A9
SuperfamilyP48067
Human Protein Atlas [tissue]ENSG00000196517-SLC6A9 [tissue]
Peptide AtlasP48067
HPRD03010
IPIIPI00216227   IPI00217065   IPI00217068   IPI00974000   IPI01009947   IPI00922299   IPI00982704   IPI00981962   IPI00982041   
Protein Interaction databases
DIP (DOE-UCLA)P48067
IntAct (EBI)P48067
FunCoupENSG00000196517
BioGRIDSLC6A9
STRING (EMBL)SLC6A9
ZODIACSLC6A9
Ontologies - Pathways
QuickGOP48067
Ontology : AmiGOamino acid transmembrane transport  transporter activity  neurotransmitter:sodium symporter activity  plasma membrane  integral component of plasma membrane  transport  glycine:sodium symporter activity  membrane  glycine secretion, neurotransmission  presynapse  
Ontology : EGO-EBIamino acid transmembrane transport  transporter activity  neurotransmitter:sodium symporter activity  plasma membrane  integral component of plasma membrane  transport  glycine:sodium symporter activity  membrane  glycine secretion, neurotransmission  presynapse  
NDEx NetworkSLC6A9
Atlas of Cancer Signalling NetworkSLC6A9
Wikipedia pathwaysSLC6A9
Orthology - Evolution
OrthoDB6536
GeneTree (enSembl)ENSG00000196517
Phylogenetic Trees/Animal Genes : TreeFamSLC6A9
HOVERGENP48067
HOGENOMP48067
Homologs : HomoloGeneSLC6A9
Homology/Alignments : Family Browser (UCSC)SLC6A9
Gene fusions - Rearrangements
Fusion : QuiverSLC6A9
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC6A9 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC6A9
dbVarSLC6A9
ClinVarSLC6A9
1000_GenomesSLC6A9 
Exome Variant ServerSLC6A9
ExAC (Exome Aggregation Consortium)ENSG00000196517
GNOMAD BrowserENSG00000196517
Genetic variants : HAPMAP6536
Genomic Variants (DGV)SLC6A9 [DGVbeta]
DECIPHERSLC6A9 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSLC6A9 
Mutations
ICGC Data PortalSLC6A9 
TCGA Data PortalSLC6A9 
Broad Tumor PortalSLC6A9
OASIS PortalSLC6A9 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC6A9  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLC6A9
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 SLC6A9
DgiDB (Drug Gene Interaction Database)SLC6A9
DoCM (Curated mutations)SLC6A9 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC6A9 (select a term)
intoGenSLC6A9
Cancer3DSLC6A9(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601019    617301   
Orphanet
DisGeNETSLC6A9
MedgenSLC6A9
Genetic Testing Registry SLC6A9
NextProtP48067 [Medical]
TSGene6536
GENETestsSLC6A9
Target ValidationSLC6A9
Huge Navigator SLC6A9 [HugePedia]
snp3D : Map Gene to Disease6536
BioCentury BCIQSLC6A9
ClinGenSLC6A9
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6536
Chemical/Pharm GKB GenePA35916
Clinical trialSLC6A9
Miscellaneous
canSAR (ICR)SLC6A9 (select the gene name)
Probes
Litterature
PubMed1 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC6A9
EVEXSLC6A9
GoPubMedSLC6A9
iHOPSLC6A9
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 : Fri Feb 23 18:51:48 CET 2018
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