Atlas of Genetics and Cytogenetics in Oncology and Haematology


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MSR1 (macrophage scavenger receptor 1)

Identity

Alias_symbol (synonym)SCARA1
CD204
Other aliasSR-A
SRA
phSR1
phSR2
HGNC (Hugo) MSR1
LocusID (NCBI) 4481
Atlas_Id 41435
Location 8p22  [Link to chromosome band 8p22]
Location_base_pair Starts at 15996826 and ends at 16050300 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
KAT6A (8p11.21) / MSR1 (8p22)KAT6A 8p11.21 / MSR1 8p22

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

 


Other Cancer prone implicated (Data extracted from papers in the Atlas) [ 1 ]
  Hereditary prostate cancer


External links

Nomenclature
HGNC (Hugo)MSR1   7376
Cards
Entrez_Gene (NCBI)MSR1  4481  macrophage scavenger receptor 1
AliasesCD204; SCARA1; SR-A; SRA; 
phSR1; phSR2
GeneCards (Weizmann)MSR1
Ensembl hg19 (Hinxton)ENSG00000038945 [Gene_View]  chr8:15996826-16050300 [Contig_View]  MSR1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000038945 [Gene_View]  chr8:15996826-16050300 [Contig_View]  MSR1 [Vega]
ICGC DataPortalENSG00000038945
TCGA cBioPortalMSR1
AceView (NCBI)MSR1
Genatlas (Paris)MSR1
WikiGenes4481
SOURCE (Princeton)MSR1
Genetics Home Reference (NIH)MSR1
Genomic and cartography
GoldenPath hg19 (UCSC)MSR1  -     chr8:15996826-16050300 -  8p22   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)MSR1  -     8p22   [Description]    (hg38-Dec_2013)
EnsemblMSR1 - 8p22 [CytoView hg19]  MSR1 - 8p22 [CytoView hg38]
Mapping of homologs : NCBIMSR1 [Mapview hg19]  MSR1 [Mapview hg38]
OMIM153622   176807   614266   
Gene and transcription
Genbank (Entrez)AF037351 AK293217 AK293409 BC063878 D13264
RefSeq transcript (Entrez)NM_002445 NM_138715 NM_138716
RefSeq genomic (Entrez)NC_000008 NC_018919 NG_012102 NT_167187 NW_004929337
Consensus coding sequences : CCDS (NCBI)MSR1
Cluster EST : UnigeneHs.147635 [ NCBI ]
CGAP (NCI)Hs.147635
Alternative Splicing GalleryENSG00000038945
Gene ExpressionMSR1 [ NCBI-GEO ]   MSR1 [ EBI - ARRAY_EXPRESS ]   MSR1 [ SEEK ]   MSR1 [ MEM ]
Gene Expression Viewer (FireBrowse)MSR1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)4481
GTEX Portal (Tissue expression)MSR1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP21757   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP21757  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP21757
Splice isoforms : SwissVarP21757
PhosPhoSitePlusP21757
Domaine pattern : Prosite (Expaxy)SRCR_1 (PS00420)    SRCR_2 (PS50287)   
Domains : Interpro (EBI)Collagen    Macro_scav_rcpt    SRCR    SRCR-like_dom   
Domain families : Pfam (Sanger)Collagen (PF01391)    Macscav_rec (PF03523)    SRCR (PF00530)   
Domain families : Pfam (NCBI)pfam01391    pfam03523    pfam00530   
Domain families : Smart (EMBL)SR (SM00202)  
Conserved Domain (NCBI)MSR1
DMDM Disease mutations4481
Blocks (Seattle)MSR1
SuperfamilyP21757
Human Protein AtlasENSG00000038945
Peptide AtlasP21757
HPRD01092
IPIIPI00939301   IPI00071002   IPI00012740   IPI01014833   IPI00010351   IPI00977464   IPI00974498   IPI00979654   IPI00974228   
Protein Interaction databases
DIP (DOE-UCLA)P21757
IntAct (EBI)P21757
FunCoupENSG00000038945
BioGRIDMSR1
STRING (EMBL)MSR1
ZODIACMSR1
Ontologies - Pathways
QuickGOP21757
Ontology : AmiGOscavenger receptor activity  protein binding  collagen trimer  cytosol  plasma membrane  integral component of plasma membrane  receptor-mediated endocytosis  positive regulation of macrophage derived foam cell differentiation  positive regulation of cholesterol storage  low-density lipoprotein particle binding  cholesterol transport  endocytic vesicle membrane  low-density lipoprotein particle  plasma lipoprotein particle clearance  lipoprotein transport  cellular response to organic cyclic compound  
Ontology : EGO-EBIscavenger receptor activity  protein binding  collagen trimer  cytosol  plasma membrane  integral component of plasma membrane  receptor-mediated endocytosis  positive regulation of macrophage derived foam cell differentiation  positive regulation of cholesterol storage  low-density lipoprotein particle binding  cholesterol transport  endocytic vesicle membrane  low-density lipoprotein particle  plasma lipoprotein particle clearance  lipoprotein transport  cellular response to organic cyclic compound  
Pathways : KEGGPhagosome   
NDEx NetworkMSR1
Atlas of Cancer Signalling NetworkMSR1
Wikipedia pathwaysMSR1
Orthology - Evolution
OrthoDB4481
GeneTree (enSembl)ENSG00000038945
Phylogenetic Trees/Animal Genes : TreeFamMSR1
HOVERGENP21757
HOGENOMP21757
Homologs : HomoloGeneMSR1
Homology/Alignments : Family Browser (UCSC)MSR1
Gene fusions - Rearrangements
Fusion : MitelmanKAT6A/MSR1 [8p11.21/8p22]  [t(8;8)(p11;p22)]  
Fusion: TCGAKAT6A 8p11.21 MSR1 8p22 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerMSR1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)MSR1
dbVarMSR1
ClinVarMSR1
1000_GenomesMSR1 
Exome Variant ServerMSR1
ExAC (Exome Aggregation Consortium)MSR1 (select the gene name)
Genetic variants : HAPMAP4481
Genomic Variants (DGV)MSR1 [DGVbeta]
DECIPHER (Syndromes)8:15996826-16050300  ENSG00000038945
CONAN: Copy Number AnalysisMSR1 
Mutations
ICGC Data PortalMSR1 
TCGA Data PortalMSR1 
Broad Tumor PortalMSR1
OASIS PortalMSR1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICMSR1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDMSR1
intOGen PortalMSR1
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 MSR1
DgiDB (Drug Gene Interaction Database)MSR1
DoCM (Curated mutations)MSR1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)MSR1 (select a term)
intoGenMSR1
Cancer3DMSR1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM153622    176807    614266   
Orphanet903   
MedgenMSR1
Genetic Testing Registry MSR1
NextProtP21757 [Medical]
TSGene4481
GENETestsMSR1
Huge Navigator MSR1 [HugePedia]
snp3D : Map Gene to Disease4481
BioCentury BCIQMSR1
ClinGenMSR1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD4481
Chemical/Pharm GKB GenePA31181
Clinical trialMSR1
Miscellaneous
canSAR (ICR)MSR1 (select the gene name)
Probes
Litterature
PubMed99 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineMSR1
EVEXMSR1
GoPubMedMSR1
iHOPMSR1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Thu Mar 30 15:11:08 CEST 2017

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