Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SLC28A1 (solute carrier family 28 member 1)

Identity

Alias_namessolute carrier family 28 (sodium-coupled nucleoside transporter), member 1
solute carrier family 28 (concentrative nucleoside transporter), member 1
Alias_symbol (synonym)CNT1
Other aliasHCNT1
HGNC (Hugo) SLC28A1
LocusID (NCBI) 9154
Atlas_Id 45889
Location 15q25.3  [Link to chromosome band 15q25]
Location_base_pair Starts at 85427892 and ends at 85489027 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
PDE8A (15q25.3) / SLC28A1 (15q25.3)RNF10 (12q24.31) / SLC28A1 (15q25.3)

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)SLC28A1   11001
Cards
Entrez_Gene (NCBI)SLC28A1  9154  solute carrier family 28 member 1
AliasesCNT1; HCNT1
GeneCards (Weizmann)SLC28A1
Ensembl hg19 (Hinxton)ENSG00000156222 [Gene_View]  chr15:85427892-85489027 [Contig_View]  SLC28A1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000156222 [Gene_View]  chr15:85427892-85489027 [Contig_View]  SLC28A1 [Vega]
ICGC DataPortalENSG00000156222
TCGA cBioPortalSLC28A1
AceView (NCBI)SLC28A1
Genatlas (Paris)SLC28A1
WikiGenes9154
SOURCE (Princeton)SLC28A1
Genetics Home Reference (NIH)SLC28A1
Genomic and cartography
GoldenPath hg19 (UCSC)SLC28A1  -     chr15:85427892-85489027 +  15q25.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SLC28A1  -     15q25.3   [Description]    (hg38-Dec_2013)
EnsemblSLC28A1 - 15q25.3 [CytoView hg19]  SLC28A1 - 15q25.3 [CytoView hg38]
Mapping of homologs : NCBISLC28A1 [Mapview hg19]  SLC28A1 [Mapview hg38]
OMIM606207   
Gene and transcription
Genbank (Entrez)AF309632 AK291997 AK296074 AK296075 AK296119
RefSeq transcript (Entrez)NM_001287761 NM_001287762 NM_001321721 NM_001321722 NM_004213 NM_201651
RefSeq genomic (Entrez)NC_000015 NC_018926 NT_010194 NW_004929399
Consensus coding sequences : CCDS (NCBI)SLC28A1
Cluster EST : UnigeneHs.459187 [ NCBI ]
CGAP (NCI)Hs.459187
Alternative Splicing GalleryENSG00000156222
Gene ExpressionSLC28A1 [ NCBI-GEO ]   SLC28A1 [ EBI - ARRAY_EXPRESS ]   SLC28A1 [ SEEK ]   SLC28A1 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC28A1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9154
GTEX Portal (Tissue expression)SLC28A1
Protein : pattern, domain, 3D structure
UniProt/SwissProtO00337   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO00337  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO00337
Splice isoforms : SwissVarO00337
PhosPhoSitePlusO00337
Domains : Interpro (EBI)C_nuclsd_transpt    C_nuclsd_transpt_met_bac    CNT_C_dom    CNT_N_dom    Gate_dom   
Domain families : Pfam (Sanger)Gate (PF07670)    Nucleos_tra2_C (PF07662)    Nucleos_tra2_N (PF01773)   
Domain families : Pfam (NCBI)pfam07670    pfam07662    pfam01773   
Conserved Domain (NCBI)SLC28A1
DMDM Disease mutations9154
Blocks (Seattle)SLC28A1
SuperfamilyO00337
Human Protein AtlasENSG00000156222
Peptide AtlasO00337
HPRD07068
IPIIPI00011289   IPI00402760   IPI01008931   IPI01015438   IPI01014505   IPI01009391   
Protein Interaction databases
DIP (DOE-UCLA)O00337
IntAct (EBI)O00337
FunCoupENSG00000156222
BioGRIDSLC28A1
STRING (EMBL)SLC28A1
ZODIACSLC28A1
Ontologies - Pathways
QuickGOO00337
Ontology : AmiGOnucleoside transmembrane transporter activity  nucleoside:sodium symporter activity  plasma membrane  integral component of plasma membrane  nucleobase-containing compound metabolic process  pyrimidine- and adenine-specific:sodium symporter activity  pyrimidine nucleobase transport  nucleoside transport  membrane  apical plasma membrane  pyrimidine-containing compound transmembrane transport  nucleoside transmembrane transport  purine nucleobase transmembrane transport  purine nucleobase transmembrane transport  
Ontology : EGO-EBInucleoside transmembrane transporter activity  nucleoside:sodium symporter activity  plasma membrane  integral component of plasma membrane  nucleobase-containing compound metabolic process  pyrimidine- and adenine-specific:sodium symporter activity  pyrimidine nucleobase transport  nucleoside transport  membrane  apical plasma membrane  pyrimidine-containing compound transmembrane transport  nucleoside transmembrane transport  purine nucleobase transmembrane transport  purine nucleobase transmembrane transport  
NDEx NetworkSLC28A1
Atlas of Cancer Signalling NetworkSLC28A1
Wikipedia pathwaysSLC28A1
Orthology - Evolution
OrthoDB9154
GeneTree (enSembl)ENSG00000156222
Phylogenetic Trees/Animal Genes : TreeFamSLC28A1
HOVERGENO00337
HOGENOMO00337
Homologs : HomoloGeneSLC28A1
Homology/Alignments : Family Browser (UCSC)SLC28A1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSLC28A1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC28A1
dbVarSLC28A1
ClinVarSLC28A1
1000_GenomesSLC28A1 
Exome Variant ServerSLC28A1
ExAC (Exome Aggregation Consortium)SLC28A1 (select the gene name)
Genetic variants : HAPMAP9154
Genomic Variants (DGV)SLC28A1 [DGVbeta]
DECIPHER (Syndromes)15:85427892-85489027  ENSG00000156222
CONAN: Copy Number AnalysisSLC28A1 
Mutations
ICGC Data PortalSLC28A1 
TCGA Data PortalSLC28A1 
Broad Tumor PortalSLC28A1
OASIS PortalSLC28A1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC28A1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSLC28A1
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 SLC28A1
DgiDB (Drug Gene Interaction Database)SLC28A1
DoCM (Curated mutations)SLC28A1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC28A1 (select a term)
intoGenSLC28A1
Cancer3DSLC28A1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM606207   
Orphanet
MedgenSLC28A1
Genetic Testing Registry SLC28A1
NextProtO00337 [Medical]
TSGene9154
GENETestsSLC28A1
Huge Navigator SLC28A1 [HugePedia]
snp3D : Map Gene to Disease9154
BioCentury BCIQSLC28A1
ClinGenSLC28A1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9154
Chemical/Pharm GKB GenePA387
Clinical trialSLC28A1
Miscellaneous
canSAR (ICR)SLC28A1 (select the gene name)
Probes
Litterature
PubMed42 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC28A1
EVEXSLC28A1
GoPubMedSLC28A1
iHOPSLC28A1
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 13:27:43 CET 2017

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