SCARF2 Gene
protein-coding GIFtS: 49
GCID: GC22M020778
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scavenger receptor class F, member 2
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Aliases
for SCARF2 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 F, Member 21 2 | | HUMZD58C021 | | SREC21 2 3 5 | | NSR12 | | SREC-II1 2 3 | | VDEGS2 | | Scavenger Receptor Expressed By Endothelial Cells 2 Protein2 3 | | Scavenger Receptor Class F Member 22 | | SRECRP-12 3 | | SREPCR3 |
Export aliases for SCARF2 gene to outside databasesPrevious GC identifers: GC22M017481 GC22M019103 GC22M004042 |
Summaries
for SCARF2 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 SCARF2:
The protein encoded by this gene is similar to SCARF1/SREC-I, a scavenger receptor protein that mediates the bindingand degradation of acetylated low density lipoprotein (Ac-LDL). This protein has only little activity of internalizingmodified low density lipoproteins (LDL), but it can interact with SCARF1 through its extracellular domain. Theassociation of this protein with SCARF1 is suppressed by the presence of scavenger ligands. Alternatively splicedtranscript variants encoding distinct isoforms have been reported. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: SREC2_HUMAN, Q96GP6Function: Probable adhesion protein, which mediates homophilic and heterophilic interactions. In contrast to SCARF1, itpoorly mediates the binding and degradation of acetylated low density lipoprotein (Ac-LDL) (By similarity)
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Genomic Views
for SCARF2 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_000022.10 NC_018933.1 NT_011520.12
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SCARF2 gene promoter:
AhR GR Sp1 p300 GR-beta Nkx2-5 Arnt POU2F1 POU2F1a GR-alpha
Other transcription factors
Search SABiosciences Chromatin IP Primers for SCARF2
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCARF2 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 22q11.21 Ensembl cytogenetic band: 22q11.21 HGNC cytogenetic band: 22q11.21SCARF2 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 22 GeneLoc Exon Structure GeneLoc location for GC22M020778: view genomic region
(about GC identifiers)
Start:
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20,778,874 bp from pter |
End:
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20,792,146 bp from pter |
Size:
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13,273 bases |
Orientation:
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minus strand |
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Proteins
for SCARF2 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: SREC2_HUMAN, Q96GP6 (See
protein sequence)Recommended Name: Scavenger receptor class F member 2 precursor Size: 870 amino acids; 92479 Da
Subunit: Homophilic and heterophilic interaction via its extracellular domain. Interacts with SCARF1. The heterophilicinteraction with SCARF1, which is stronger than the homophilic interaction with itself, is suppressed by the presenceof SCARF1 ligand such as Ac-LDL (By similarity)
Subcellular location: Membrane; Single-pass type I membrane protein (Potential)
Caution: The conflict at position 750-768 is due to frameshifts. The frameshifted sequence is found in mouse
Secondary accessions: E5RFB8 Q58A83 Q8IXF3 Q9BW74Alternative splicing: 2 isoforms: Q96GP6-1 Q96GP6-2 Explore the universe of human proteins at neXtProt for SCARF2: NX_Q96GP6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q96GP6
SCARF2 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_699165.2 NP_878315.1
ENSEMBL proteins: ENSP00000385589 ENSP00000266214
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0016021 | integral to membrane |
IEA | -- |
SCARF2 for ontologies About GeneDecksing
SCARF2 Antibody Products:
Assay Products for SCARF2: |
Protein
Domains /
Families
for SCARF2 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SCARF2 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q96GP6ProtoNet protein and cluster: Q96GP6 3 Blocks protein families: IPB002049 Laminin-type EGF-like domain IPB006210 Type I EGF IPB013111 EGF
UniProtKB/Swiss-Prot: SREC2_HUMAN, Q96GP6Similarity: Contains 7 EGF-like domains |
Function
for SCARF2 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: SREC2_HUMAN, Q96GP6Function: Probable adhesion protein, which mediates homophilic and heterophilic interactions. In contrast to SCARF1, itpoorly mediates the binding and degradation of acetylated low density lipoprotein (Ac-LDL) (By similarity)
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SCARF2 (see all 2)
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCARF2 |
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table
SCARF2 for ontologies About GeneDecksing
2 GenomeRNAi human phenotypes for SCARF2:
|
Pathways & Interactions
for SCARF2 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 SCARF2
STRING Interaction
Network Preview (showing 5 interactants - click image to see more details)
5 Interacting proteins for SCARF2 (Q96GP61, 2, 3 ENSP000002662144) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0007155 | cell adhesion |
-- | -- | | GO:0007157 | heterophilic cell-cell adhesion |
IEA | -- |
SCARF2 for ontologies About GeneDecksing
|
Drugs & Compounds
for SCARF2 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 Tocris compounds for SCARF2
Search CenterWatch for drugs/clinical trials and news about SCARF2 / SREC2
|
Transcripts
for SCARF2 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 SCARF2 gene (2 alternative transcripts): NM_153334.4 NM_182895.2 Unigene Cluster for SCARF2: Scavenger receptor class F, member 2 Hs.474251 [show with all ESTs]Unigene Representative Sequence: NM_1533343 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000405555(uc002zsj.2 uc002zsk.2) ENST00000266214 ENST00000494535
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SCARF2 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SCARF2 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): SCARF2 (NM_153334) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SCARF2 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCARF2 |
Additional cDNA sequence: AB024433.1 AB052951.1 AF088043.1 AF522196.1 BC000584.2 BC009326.2 6 DOTS entries: DT.100742073 DT.452973 DT.101977829 DT.100024208 DT.100024209 DT.95299041 24/354 AceView cDNA sequences (see all 354): AI127800 BX282290 BM838256 BQ887089 BU622985 CR610654 BM264532 AI148246 BQ958459 AW445219 BM691064 AI363470 BX340267 BC015923 AI565644 BM768496 AI338167 NM_032775 BE504839 AI084861 BX371231 AA350442 AI312865 AI803662
GeneLoc Exon Structure
|
Expression
for SCARF2 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
| SCARF2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TTGGCCGCTG
About this image
See SCARF2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SCARF2
SOURCE GeneReport for Unigene cluster: Hs.474251
UniProtKB/Swiss-Prot: SREC2_HUMAN, Q96GP6Tissue specificity: Predominantly expressed in endothelial cells. Expressed in heart, placenta, lung, kidney, spleen,small intestine and ovary
SABiosciences Custom PCR Arrays for SCARF2
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SCARF2
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SCARF2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SCARF2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SCARF2 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCARF2 |
Orthologs
for SCARF2 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 SCARF2 gene from 3/11 species (see all 11) About this table
ENSEMBL Gene Tree for SCARF2 (if available)
TreeFam Gene Tree for SCARF2 (if available) |
Paralogs
for SCARF2 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SCARF2 gene
- NAGPA2 STAB22 STAB12 MEGF102 MEGF62 MEGF112 TNFAIP62 SCARF12
- PEAR12
1 SIMAP similar gene for SCARF2 using alignment to 1 protein entry: SREC2_HUMAN:SCARF1
SCARF2 for paralogs About GeneDecksing
|
Genomic Variants
for SCARF2 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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 22 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for SCARF2 (20778874 - 20792146 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for SCARF2
2 CNVs: 31071 5169
Human Gene Mutation Database (HGMD): SCARF2
| SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SCARF2 |
|
Disorders
/ Diseases
for SCARF2 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
|
 SCARF2 for disorders About MalaCards
SCARF2 for disorders About GeneDecksing
OMIM gene information: 613619
OMIM disorders: --
UniProtKB/Swiss-Prot: SREC2_HUMAN, Q96GP6
Defects in SCARF2 are the cause of Van den Ende-Gupta syndrome (VDEGS) [MIM:600920]. A syndrome characterizedby craniofacial and skeletal abnormalities that include blepharophimosis, a flat and wide nasal bridge, narrow andbeaked nose, hypoplastic maxilla with or without cleft palate and everted lower lip, prominent ears, down-slantingeyes, arachnodactyly, and camptodactyly. Patients present congenital joint contractures that improve withoutintervention, and normal growth and development. Intelligence is normal. Rarely, enlarged cerebella can be present.Some patients experience respiratory problems due to laryngeal abnormalities
Human Genome Epidemiology (HuGE) Navigator: SCARF2 (1 document)
Export disorders for SCARF2 gene to outside databases
|
Publications
for SCARF2 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 SCARF2 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SCARF2) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- SREC-II, a new member of the scavenger receptor type F family, trans- interacts with SREC-I through its extracellular domain. (PubMed id 12154095)1, 2, 3 Ishii J.... Arai H. (2002)
- Mutations in SCARF2 are responsible for Van Den Ende- Gupta syndrome. (PubMed id 20887961)1, 2 Anastasio N....Jerome-Majewska L.A. (2010)
- 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)
- System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
- Systematic identification of SH3 domain-mediated human protein-protein interactions by peptide array target screening. (PubMed id 17474147)1 Wu C....Li S.S. (2007)
- The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (2006)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- The sequence of the human genome. (PubMed id 11181995)2 Venter J.C.... Zhu X. (2001)
- Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
- The DNA sequence of human chromosome 22. (PubMed id 10591208)2 Dunham I....O'Brien K.P. (1999)
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External Searches for SCARF2 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SCARF2 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SCARF2 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SCARF2 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
|
| Name | Description |
| PharmGKB entry for SCARF2 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SCARF2 gene:
Search GeneIP for patents involving SCARF2
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SCARF2 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SCARF2 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SCARF2 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCARF2 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SCARF2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SCARF2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SCARF2 |
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 | | | SCARF2 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCARF2 |
|  |  |  | | | | ThermoFisher Antibodies for SCARF2 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCARF2 |
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