Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SLC6A20 (solute carrier family 6 (proline IMINO transporter), member 20)

Identity

Alias_namessolute carrier family 6 (proline IMINO transporter), member 20
Alias_symbol (synonym)XT3
Xtrp3
Other aliasSIT1
HGNC (Hugo) SLC6A20
LocusID (NCBI) 54716
Atlas_Id 73476
Location 3p21.31  [Link to chromosome band 3p21]
Location_base_pair Starts at 45796941 and ends at 45838035 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
GIGYF2 (2q37.1) / SLC6A20 (3p21.31)SLC6A20 (3p21.31) / ZNF574 (19q13.2)

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)SLC6A20   30927
Cards
Entrez_Gene (NCBI)SLC6A20  54716  solute carrier family 6 (proline IMINO transporter), member 20
AliasesSIT1; XT3; Xtrp3
GeneCards (Weizmann)SLC6A20
Ensembl hg19 (Hinxton)ENSG00000163817 [Gene_View]  chr3:45796941-45838035 [Contig_View]  SLC6A20 [Vega]
Ensembl hg38 (Hinxton)ENSG00000163817 [Gene_View]  chr3:45796941-45838035 [Contig_View]  SLC6A20 [Vega]
ICGC DataPortalENSG00000163817
TCGA cBioPortalSLC6A20
AceView (NCBI)SLC6A20
Genatlas (Paris)SLC6A20
WikiGenes54716
SOURCE (Princeton)SLC6A20
Genetics Home Reference (NIH)SLC6A20
Genomic and cartography
GoldenPath hg19 (UCSC)SLC6A20  -     chr3:45796941-45838035 -  3p21.31   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SLC6A20  -     3p21.31   [Description]    (hg38-Dec_2013)
EnsemblSLC6A20 - 3p21.31 [CytoView hg19]  SLC6A20 - 3p21.31 [CytoView hg38]
Mapping of homologs : NCBISLC6A20 [Mapview hg19]  SLC6A20 [Mapview hg38]
OMIM138500   242600   605616   
Gene and transcription
Genbank (Entrez)AF075260 AF125107 AJ276207 AJ276208 AL389979
RefSeq transcript (Entrez)NM_020208 NM_022405
RefSeq genomic (Entrez)NC_000003 NC_018914 NG_023204 NT_022517 NW_004929309
Consensus coding sequences : CCDS (NCBI)SLC6A20
Cluster EST : UnigeneHs.413095 [ NCBI ]
CGAP (NCI)Hs.413095
Alternative Splicing GalleryENSG00000163817
Gene ExpressionSLC6A20 [ NCBI-GEO ]   SLC6A20 [ EBI - ARRAY_EXPRESS ]   SLC6A20 [ SEEK ]   SLC6A20 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC6A20 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)54716
GTEX Portal (Tissue expression)SLC6A20
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9NP91   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9NP91  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9NP91
Splice isoforms : SwissVarQ9NP91
PhosPhoSitePlusQ9NP91
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_orphan   
Domain families : Pfam (Sanger)SNF (PF00209)   
Domain families : Pfam (NCBI)pfam00209   
Conserved Domain (NCBI)SLC6A20
DMDM Disease mutations54716
Blocks (Seattle)SLC6A20
SuperfamilyQ9NP91
Human Protein AtlasENSG00000163817
Peptide AtlasQ9NP91
HPRD16128
IPIIPI00216628   IPI01014097   IPI00152803   IPI00926366   
Protein Interaction databases
DIP (DOE-UCLA)Q9NP91
IntAct (EBI)Q9NP91
FunCoupENSG00000163817
BioGRIDSLC6A20
STRING (EMBL)SLC6A20
ZODIACSLC6A20
Ontologies - Pathways
QuickGOQ9NP91
Ontology : AmiGOamino acid transmembrane transport  neurotransmitter:sodium symporter activity  protein binding  plasma membrane  integral component of plasma membrane  ion transport  neurotransmitter transport  amino acid transport  amino acid transport  amino acid transmembrane transporter activity  glycine transport  proline transport  apical plasma membrane  transmembrane transport  
Ontology : EGO-EBIamino acid transmembrane transport  neurotransmitter:sodium symporter activity  protein binding  plasma membrane  integral component of plasma membrane  ion transport  neurotransmitter transport  amino acid transport  amino acid transport  amino acid transmembrane transporter activity  glycine transport  proline transport  apical plasma membrane  transmembrane transport  
NDEx NetworkSLC6A20
Atlas of Cancer Signalling NetworkSLC6A20
Wikipedia pathwaysSLC6A20
Orthology - Evolution
OrthoDB54716
GeneTree (enSembl)ENSG00000163817
Phylogenetic Trees/Animal Genes : TreeFamSLC6A20
HOVERGENQ9NP91
HOGENOMQ9NP91
Homologs : HomoloGeneSLC6A20
Homology/Alignments : Family Browser (UCSC)SLC6A20
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC6A20 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC6A20
dbVarSLC6A20
ClinVarSLC6A20
1000_GenomesSLC6A20 
Exome Variant ServerSLC6A20
ExAC (Exome Aggregation Consortium)SLC6A20 (select the gene name)
Genetic variants : HAPMAP54716
Genomic Variants (DGV)SLC6A20 [DGVbeta]
DECIPHER (Syndromes)3:45796941-45838035  ENSG00000163817
CONAN: Copy Number AnalysisSLC6A20 
Mutations
ICGC Data PortalSLC6A20 
TCGA Data PortalSLC6A20 
Broad Tumor PortalSLC6A20
OASIS PortalSLC6A20 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC6A20  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLC6A20
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 SLC6A20
DgiDB (Drug Gene Interaction Database)SLC6A20
DoCM (Curated mutations)SLC6A20 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC6A20 (select a term)
intoGenSLC6A20
Cancer3DSLC6A20(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM138500    242600    605616   
Orphanet10466   
MedgenSLC6A20
Genetic Testing Registry SLC6A20
NextProtQ9NP91 [Medical]
TSGene54716
GENETestsSLC6A20
Huge Navigator SLC6A20 [HugePedia]
snp3D : Map Gene to Disease54716
BioCentury BCIQSLC6A20
ClinGenSLC6A20
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD54716
Chemical/Pharm GKB GenePA134865308
Clinical trialSLC6A20
Miscellaneous
canSAR (ICR)SLC6A20 (select the gene name)
Probes
Litterature
PubMed14 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC6A20
EVEXSLC6A20
GoPubMedSLC6A20
iHOPSLC6A20
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 : Tue Mar 14 12:43:54 CET 2017

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