Atlas of Genetics and Cytogenetics in Oncology and Haematology


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SLC11A1 (solute carrier family 11 member 1)

Identity

Other namesLSH
NRAMP
NRAMP1
HGNC (Hugo) SLC11A1
LocusID (NCBI) 6556
Atlas_Id 45643
Location 2q35  [Link to chromosome band 2q35]
Location_base_pair Starts at 219246752 and ends at 219261617 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
SLC11A1 (2q35) / SLC11A1 (2q35)

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)SLC11A1   10907
Cards
Entrez_Gene (NCBI)SLC11A1  6556  solute carrier family 11 member 1
AliasesLSH; NRAMP; NRAMP1
GeneCards (Weizmann)SLC11A1
Ensembl hg19 (Hinxton)ENSG00000018280 [Gene_View]  chr2:219246752-219261617 [Contig_View]  SLC11A1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000018280 [Gene_View]  chr2:219246752-219261617 [Contig_View]  SLC11A1 [Vega]
ICGC DataPortalENSG00000018280
TCGA cBioPortalSLC11A1
AceView (NCBI)SLC11A1
Genatlas (Paris)SLC11A1
WikiGenes6556
SOURCE (Princeton)SLC11A1
Genomic and cartography
GoldenPath hg19 (UCSC)SLC11A1  -     chr2:219246752-219261617 +  2q35   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)SLC11A1  -     2q35   [Description]    (hg38-Dec_2013)
EnsemblSLC11A1 - 2q35 [CytoView hg19]  SLC11A1 - 2q35 [CytoView hg38]
Mapping of homologs : NCBISLC11A1 [Mapview hg19]  SLC11A1 [Mapview hg38]
OMIM600266   607948   610446   
Gene and transcription
Genbank (Entrez)AB209650 AK294707 AK298667 AK303398 AK307954
RefSeq transcript (Entrez)NM_000578 NM_001032220
RefSeq genomic (Entrez)NC_000002 NC_018913 NG_012128 NT_005403 NW_004929305
Consensus coding sequences : CCDS (NCBI)SLC11A1
Cluster EST : UnigeneHs.591607 [ NCBI ]
CGAP (NCI)Hs.591607
Alternative Splicing GalleryENSG00000018280
Gene ExpressionSLC11A1 [ NCBI-GEO ]   SLC11A1 [ EBI - ARRAY_EXPRESS ]   SLC11A1 [ SEEK ]   SLC11A1 [ MEM ]
Gene Expression Viewer (FireBrowse)SLC11A1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6556
GTEX Portal (Tissue expression)SLC11A1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP49279 (Uniprot)
NextProtP49279  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP49279
Splice isoforms : SwissVarP49279 (Swissvar)
PhosPhoSitePlusP49279
Domains : Interpro (EBI)NRAMP_fam   
Domain families : Pfam (Sanger)Nramp (PF01566)   
Domain families : Pfam (NCBI)pfam01566   
DMDM Disease mutations6556
Blocks (Seattle)SLC11A1
SuperfamilyP49279
Human Protein AtlasENSG00000018280
Peptide AtlasP49279
HPRD02601
IPIIPI00290432   IPI00795372   IPI01012781   IPI01018119   
Protein Interaction databases
DIP (DOE-UCLA)P49279
IntAct (EBI)P49279
FunCoupENSG00000018280
BioGRIDSLC11A1
STRING (EMBL)SLC11A1
ZODIACSLC11A1
Ontologies - Pathways
QuickGOP49279
Ontology : AmiGOprotein import into nucleus, translocation  negative regulation of cytokine production  positive regulation of cytokine production  T cell proliferation involved in immune response  T cell cytokine production  positive regulation of dendritic cell antigen processing and presentation  positive regulation of T-helper 1 type immune response  manganese ion transmembrane transporter activity  lysosome  late endosome  plasma membrane  integral component of plasma membrane  iron ion transport  manganese ion transport  cellular cadmium ion homeostasis  cellular iron ion homeostasis  phagocytosis  inflammatory response  vacuolar acidification  cell outer membrane  response to bacterium  positive regulation of gene expression  nitrite transport  phagocytic vesicle membrane  late endosome membrane  activation of protein kinase activity  response to lipopolysaccharide  interleukin-2 production  interleukin-3 production  positive regulation of interferon-gamma production  response to interferon-gamma  wound healing  macrophage activation  defense response to bacterium  protein homodimerization activity  defense response to protozoan  L-arginine import  MHC class II biosynthetic process  cell redox homeostasis  respiratory burst  positive regulation of transcription from RNA polymerase II promoter  transition metal ion transmembrane transporter activity  antigen processing and presentation of peptide antigen  mRNA stabilization  positive regulation of phagocytosis  defense response to Gram-negative bacterium  metal ion:proton antiporter activity  metal ion:proton antiporter activity  iron ion homeostasis  multicellular organismal iron ion homeostasis  cadmium ion transmembrane transport  tertiary granule membrane  divalent metal ion export  manganese ion transmembrane transport  
Ontology : EGO-EBIprotein import into nucleus, translocation  negative regulation of cytokine production  positive regulation of cytokine production  T cell proliferation involved in immune response  T cell cytokine production  positive regulation of dendritic cell antigen processing and presentation  positive regulation of T-helper 1 type immune response  manganese ion transmembrane transporter activity  lysosome  late endosome  plasma membrane  integral component of plasma membrane  iron ion transport  manganese ion transport  cellular cadmium ion homeostasis  cellular iron ion homeostasis  phagocytosis  inflammatory response  vacuolar acidification  cell outer membrane  response to bacterium  positive regulation of gene expression  nitrite transport  phagocytic vesicle membrane  late endosome membrane  activation of protein kinase activity  response to lipopolysaccharide  interleukin-2 production  interleukin-3 production  positive regulation of interferon-gamma production  response to interferon-gamma  wound healing  macrophage activation  defense response to bacterium  protein homodimerization activity  defense response to protozoan  L-arginine import  MHC class II biosynthetic process  cell redox homeostasis  respiratory burst  positive regulation of transcription from RNA polymerase II promoter  transition metal ion transmembrane transporter activity  antigen processing and presentation of peptide antigen  mRNA stabilization  positive regulation of phagocytosis  defense response to Gram-negative bacterium  metal ion:proton antiporter activity  metal ion:proton antiporter activity  iron ion homeostasis  multicellular organismal iron ion homeostasis  cadmium ion transmembrane transport  tertiary granule membrane  divalent metal ion export  manganese ion transmembrane transport  
Pathways : KEGGLysosome    Mineral absorption   
NDEx NetworkSLC11A1
Atlas of Cancer Signalling NetworkSLC11A1
Wikipedia pathwaysSLC11A1
Orthology - Evolution
OrthoDB6556
GeneTree (enSembl)ENSG00000018280
Phylogenetic Trees/Animal Genes : TreeFamSLC11A1
Homologs : HomoloGeneSLC11A1
Homology/Alignments : Family Browser (UCSC)SLC11A1
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerSLC11A1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SLC11A1
dbVarSLC11A1
ClinVarSLC11A1
1000_GenomesSLC11A1 
Exome Variant ServerSLC11A1
ExAC (Exome Aggregation Consortium)SLC11A1 (select the gene name)
Genetic variants : HAPMAP6556
Genomic Variants (DGV)SLC11A1 [DGVbeta]
Mutations
ICGC Data PortalSLC11A1 
TCGA Data PortalSLC11A1 
Broad Tumor PortalSLC11A1
OASIS PortalSLC11A1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSLC11A1 
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
LOVD (Leiden Open Variation Database)TBsLVD Tuberculosis susceptibility Locus Variation Database
BioMutasearch SLC11A1
DgiDB (Drug Gene Interaction Database)SLC11A1
DoCM (Curated mutations)SLC11A1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SLC11A1 (select a term)
intoGenSLC11A1
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)2:219246752-219261617  ENSG00000018280
CONAN: Copy Number AnalysisSLC11A1 
Mutations and Diseases : HGMDSLC11A1
OMIM600266    607948    610446   
MedgenSLC11A1
Genetic Testing Registry SLC11A1
NextProtP49279 [Medical]
TSGene6556
GENETestsSLC11A1
Huge Navigator SLC11A1 [HugePedia]
snp3D : Map Gene to Disease6556
BioCentury BCIQSLC11A1
ClinGenSLC11A1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6556
Chemical/Pharm GKB GenePA319
Clinical trialSLC11A1
Miscellaneous
canSAR (ICR)SLC11A1 (select the gene name)
Probes
Litterature
PubMed160 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSLC11A1
EVEXSLC11A1
GoPubMedSLC11A1
iHOPSLC11A1
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 : Mon Sep 19 19:13:20 CEST 2016

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