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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SCARA3 Gene

protein-coding   GIFtS: 51
GCID: GC08P027492

scavenger receptor class A, member 3
 Explore 6 diseases affiliated with
SCARA3 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SCARA3    

Aliases
for SCARA3 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Scavenger Receptor Class A, Member 31 2     MSRL11 2
CSR1 2 3 5     Cellular Stress Response Gene Protein2 3
MSLR11 2 5     Cellular Stress Response Protein2
APC71 2     Macrophage Scavenger Receptor-Like 12
CSR11 2     Scavenger Receptor Class A Member 32

External Ids:    HGNC: 190001   Entrez Gene: 514352   Ensembl: ENSG000001680777   OMIM: 6027285   UniProtKB: Q6AZY73   

Export aliases for SCARA3 gene to outside databases

Previous GC identifers: GC08P027274 GC08P027996 GC08P027513 GC08P027547 GC08P026036


Summaries
for SCARA3 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for SCARA3:
This gene encodes a macrophage scavenger receptor-like protein. This protein has been shown to deplete reactive oxygen
species, and thus play an important role in protecting cells from oxidative stress. The expression of this gene is
induced by oxidative stress. Alternatively spliced transcript variants encoding distinct isoforms have been described.
(provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: SCAR3_HUMAN, Q6AZY7
Function: Seems to protect cells by scavenging oxidative molecules or harmful products of oxidation




Genomic Views
for SCARA3 gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000008.10  NC_018919.1  NT_167187.1  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SCARA3 gene promoter:
         PPAR-alpha   AP-1   ATF-2   PPAR-gamma2   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SCARA3 promoter sequence
   Search SABiosciences Chromatin IP Primers for SCARA3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCARA3


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 8p21   Ensembl cytogenetic band:  8p21.1   HGNC cytogenetic band: 8p21

SCARA3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SCARA3 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08P027492:  view genomic region     (about GC identifiers)

Start:
 27,491,385 bp from pter      End:
 27,534,286 bp from pter
Size:
 42,902 bases      Orientation:
 plus strand

Proteins
for SCARA3 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: SCAR3_HUMAN, Q6AZY7 (See protein sequence)
Recommended Name: Scavenger receptor class A member 3  
Size: 606 amino acids; 65137 Da
Subcellular location: Endoplasmic reticulum membrane; Single-pass type II membrane protein. Golgi apparatus membrane;
Single-pass type II membrane protein. Note=Endoplasmic reticulum and/or Golgi
Secondary accessions: Q9UM15 Q9UM16
Alternative splicing: 2 isoforms:  Q6AZY7-1   Q6AZY7-2   

Explore the universe of human proteins at neXtProt for SCARA3: NX_Q6AZY7

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q6AZY7

    • SCARA3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_057324.2  NP_878185.1  

    ENSEMBL proteins: 
     ENSP00000337985   ENSP00000301904  

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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for SCARA3

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139Golgi membrane IEA--
    GO:0005581collagen IEA--
    GO:0005789endoplasmic reticulum membrane IEA--
    GO:0016021integral to membrane IEA--


    SCARA3 for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for SCARA3 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SCARA3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR008160 Collagen

    Graphical View of Domain Structure for InterPro Entry Q6AZY7

    ProtoNet protein and cluster: Q6AZY7

    1 Blocks protein family: IPB008160 Collagen triple helix repeat

    UniProtKB/Swiss-Prot: SCAR3_HUMAN, Q6AZY7
    Similarity: Contains 2 collagen-like domains


    Function
    for SCARA3 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Function Summary:

         UniProtKB/Swiss-Prot: SCAR3_HUMAN, Q6AZY7
    Function: Seems to protect cells by scavenging oxidative molecules or harmful products of oxidation

    miRNA
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    hsa-miR-3130-5p hsa-miR-3685 hsa-miR-429 hsa-let-7d hsa-miR-513a-5p hsa-miR-301a hsa-let-7g hsa-let-7a
    SwitchGear 3'UTR luciferase reporter plasmid: SCARA3 3' UTR sequence
    Inhib. RNA
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    Gene Editing
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    Clone
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    Cell Line
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    In Situ Assay
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005044scavenger receptor activity TAS9580669


    SCARA3 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for SCARA3:
     Decreased circadian period len 


    Pathways & Interactions
    for SCARA3 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SCARA3

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    2 Interacting proteins for SCARA3 (Q6AZY73 ENSP000003019044) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CNOT7Q9UIV13I2D: score=1 
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006979response to oxidative stress TAS9580669
    GO:0009650UV protection TAS9580669


    SCARA3 for ontologies           About GeneDecksing



    Drugs & Compounds
    for SCARA3 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SCARA3
    Search CenterWatch for drugs/clinical trials and news about SCARA3 / SCAR3 

    Transcripts
    for SCARA3 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section
    REFSEQ mRNAs for SCARA3 gene (2 alternative transcripts): 
    NM_016240.2  NM_182826.1  

    Unigene Cluster for SCARA3:

    Scavenger receptor class A, member 3
    Hs.128856  [show with all ESTs]
    Unigene Representative Sequence: AB007829
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000337221(uc003xgb.1) ENST00000301904(uc003xga.1)

    miRNA
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    8/32 QIAGEN miScript miRNA Assays for microRNAs that regulate SCARA3 (see all 32):
    hsa-miR-3130-5p hsa-miR-3685 hsa-miR-429 hsa-let-7d hsa-miR-513a-5p hsa-miR-301a hsa-let-7g hsa-let-7a
    SwitchGear 3'UTR luciferase reporter plasmid: SCARA3 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SCARA3 (see all 7)
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    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SCARA3
    Clone
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    GenScript: all cDNA clones in your preferred vector (see all 2): SCARA3 (NM_182826)
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    Primer
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    Additional cDNA sequence: 

    AB007829.1 AB007830.1 BC060811.1 BC075067.3 BC075068.2 

    5 DOTS entries:

    DT.75187797  DT.102827280  DT.95311606  DT.40124323  DT.75130925 

    24/92 AceView cDNA sequences (see all 92):

    BM422394 AI379041 NM_182826 CA420827 BC075068 AB007830 BC075067 AI452447 
    CN483332 AA708619 BC060811 BX952687 AI368657 BQ019067 AW167789 NM_016240 
    AI129622 BQ181608 AA826654 BF725622 BF346682 BE746079 BX092946 CA414854 

    GeneLoc Exon Structure


    Expression
    for SCARA3 gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SCARA3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAACTCTCCT

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    SCARA3 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Head MesenchymeHead MesenchymeHead Mesenchyme
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 3 LifeMap Cells 
    NameCategory
    Sclerotome cells (Primary Cell)Bone, Cartilage, Somite
    PureStem™ progenitor W8 (Embryonic Progenitor Cell)
    HyStem+TGF?3+GDF5-induced SK11 cells (HyStem+TGF?3+GDF5 in...)Bone, Cartilage

    See SCARA3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SCARA3

    SOURCE GeneReport for Unigene cluster: Hs.128856

    UniProtKB/Swiss-Prot: SCAR3_HUMAN, Q6AZY7
    Tissue specificity: Expressed ubiquitously

        SABiosciences Expression via Pathway-Focused PCR Arrays including SCARA3: 
              Oxidative Stress in human mouse rat
              Nitric Oxide Signaling Pathway in human mouse rat

    Primer
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    In Situ
    Assay Products:     
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    Orthologs
    for SCARA3 gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section
    This gene was present in the common ancestor of chordates.

    Orthologs for SCARA3 gene from 3/14 species (see all 14)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves LOC7711171 scavenger receptor class A member 3-like 70.43(n)
    66.84(a)    		   771117  XM_001234415.2  XP_001234416.2 
    lizard
    (Anolis carolinensis)    		 Reptilia SCARA36
    --
    		 --
    		 32(a)
    15(a)
    		 1 ↔ many
    1 ↔ many
    		 GL344029.1(63922-84634)
    4(39376805-39384263)
    zebrafish
    (Danio rerio)    		 Actinopterygii scara31 scavenger receptor class A, member 3 55.18(n)
    48.33(a)    		   564588  XM_687918.4  XP_693010.4 


    ENSEMBL Gene Tree for SCARA3 (if available)
    TreeFam Gene Tree for SCARA3 (if available) 

    Paralogs
    for SCARA3 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SCARA3 gene
    SFTPA12  COLEC112  SFTPD2  COLEC122  MBL22  COLEC102  SFTPA22  
    1 SIMAP similar gene for SCARA3 using alignment to 1 protein entry:     SCAR3_HUMAN:
    COLEC12

    SCARA3 for paralogs           About GeneDecksing



    Genomic Variants
    for SCARA3 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/961 NCBI SNPs in SCARA3 are shown (see all 961)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 8 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1455490541,2
    		--27489676(+) GTATAA/GTCTGG 2 -- us2k10--------
    rs343477321,2
    		C,F--27489732(+) TTTTTT/-GTTTT 2 -- us2k110Minor allele frequency- -:0.50NS 364
    rs1861005091,2
    		--27489733(+) TGAGTA/TTTTTT 2 -- us2k10--------
    rs1489059791,2
    		--27489777(+) ATGAAA/GCTGAA 2 -- us2k10--------
    rs1890126671,2
    		--27489849(+) GGCCAC/TCATGG 2 -- us2k10--------
    rs1820577071,2
    		--27489878(+) TTTTTC/TAGGAA 2 -- us2k10--------
    rs4859021,2
    		C,F,H,--27489959(-) GAAAGC/GCCACC 2 -- us2k115Minor allele frequency- G:0.34EA NS NA CSA WA 846
    rs351233861,2
    		C,--27490058(+) GACTAC/TATTGG 2 -- us2k15Minor allele frequency- T:0.00NS 182
    rs357756261,2
    		C,F,H,--27490111(+) GCCTTT/CCCCCA 2 -- us2k121Minor allele frequency- C:0.15NS EA NA WA 2518
    rs1996047561,2
    		--27490241(+) TTCTC-/TTTTCT 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for SCARA3 (27491385 - 27534286 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 4 variations for SCARA3
         2 CNVs: 82541 95338
         2 Indels: 41072 41073

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    Disorders / Diseases
    for SCARA3 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    SCARA3 for disorders           About GeneDecksing

    OMIM gene information: 602728    OMIM disorders: --

    6 diseases for SCARA3:    About MalaCards
    peritoneal carcinoma    peritonitis    prostate cancer    atherosclerosis
    prostatitis    carcinoma

    2 diseases from the University of Copenhagen DISEASES database for SCARA3:
    triple-A syndrome     Peritoneal carcinoma
    Human Genome Epidemiology (HuGE) Navigator: SCARA3 (1 document)

    Export disorders for SCARA3 gene to outside databases

    Publications
    for SCARA3 gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SCARA3 gene, integrated from 9 sources (see all 13):
    (articles sorted by number of sources associating them with SCARA3)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. CSR, a scavenger receptor-like protein with a protective role against cellular damage causedby UV irradiation and oxidative stress. (PubMed id 9580669)1, 2, 3, 9 Han H.-J.... Nakamura Y. (1998)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    3. Dinucleotide repeat polymorphism in the first intron of the CSR gene. (PubMed id 9747040)1, 3 Han H.J. and Nakamura Y. (1998)
    4. Scavenger receptor-mediated uptake of cell-penetrating peptide nanocomplexes with oligonucleotides. (PubMed id 22138034)1 Ezzat K....Langel U. (2012)
    5. SCARA3 mRNA is overexpressed in ovarian carcinoma comp ared with breast carcinoma effusions. (PubMed id 21855113)1 Bock A.J....Davidson B. (2012)
    6. Interaction of CSR1 with XIAP reverses inhibition of c aspases and accelerates cell death. (PubMed id 22683311)1 Zheng Z.L....Luo J.H. (2012)
    7. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    8. Ubiquitin ligase substrate identification through qua ntitative proteomics at both the protein and peptide levels. (PubMed id 21987572)1 Lee K.A....Doedens J.R. (2011)
    9. Common polymorphisms in ITGA2, PON1 and THBS2 are ass ociated with coronary atherosclerosis in a candidate gene association study of the Chinese Han population. (PubMed id 20485444)1 Wang Y....Huang W. (2010)
    10. CSR1 induces cell death through inactivation of CPSF3. (PubMed id 18806823)1 Zhu Z.H....Luo J.H. (2009)

    External Searches for SCARA3 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
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    Genome Databases showing SCARA3 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 51435 HGNC: 19000 AceView: SCARA3 Ensembl:ENSG00000168077 euGenes: HUgn51435
    ECgene: SCARA3 H-InvDB: SCARA3

    Other Databases showing SCARA3 gene

    (According to HUGE)
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    Specialized Databases showing SCARA3 gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SCARA3 Pharmacogenomics, SNPs, Pathways
    NIEHS-SNPshttp://egp.gs.washington.edu/data/scara3/

    Intellectual Property
    for SCARA3 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    		Patent Information for SCARA3 gene:
    Search GeneIP for patents involving SCARA3

    GeneCards and IP:
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