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SCARF1 scavenger receptor class F member 1 [ Homo sapiens (human) ]

Gene ID: 8578, updated on 23-Nov-2021

Summary

Official Symbol
SCARF1provided by HGNC
Official Full Name
scavenger receptor class F member 1provided by HGNC
Primary source
HGNC:HGNC:16820
See related
Ensembl:ENSG00000074660 MIM:607873
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SREC; SREC1; SREC-I
Summary
The protein encoded by this gene is a scavenger receptor that is expressed in endothelial cells. It regulates the uptake of chemically modified low density lipoproteins, including acetylated low density lipoprotein (Ac-LDL), and it may be involved in atherogenesis. This gene is regulated by the transcription factors ZNF444/EZF-2 and SP1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2013]
Expression
Broad expression in spleen (RPKM 18.4), lung (RPKM 9.9) and 22 other tissues See more
Orthologs
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Genomic context

See SCARF1 in Genome Data Viewer
Location:
17p13.3
Exon count:
11
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (1633858..1645732, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (1537152..1549026, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene PITPNA antisense RNA 1 Neighboring gene phosphatidylinositol transfer protein alpha Neighboring gene solute carrier family 43 member 2 Neighboring gene RNA, 7SL, cytoplasmic 105, pseudogene Neighboring gene Rab interacting lysosomal protein Neighboring gene pre-mRNA processing factor 8

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0149, MGC47738

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables low-density lipoprotein particle binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables low-density lipoprotein particle binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables scavenger receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables transmembrane signaling receptor activity TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
involved_in cell adhesion IEA
Inferred from Electronic Annotation
more info
 
involved_in cholesterol catabolic process IC
Inferred by Curator
more info
PubMed 
involved_in dendrite development IEA
Inferred from Electronic Annotation
more info
 
involved_in neuron remodeling ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of axon regeneration ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of neuron projection development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in receptor-mediated endocytosis TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
located_in endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
located_in integral component of membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
scavenger receptor class F member 1
Names
acetyl LDL receptor
scavenger receptor expressed by endothelial cells 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_003693.4NP_003684.2  scavenger receptor class F member 1 isoform 1 precursor

    See identical proteins and their annotated locations for NP_003684.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC130343, AK291810, CA434049
    Consensus CDS
    CCDS11007.1
    UniProtKB/Swiss-Prot
    Q14162
    UniProtKB/TrEMBL
    A8K6Z5
    Related
    ENSP00000263071.4, ENST00000263071.9
    Conserved Domains (1) summary
    pfam16019
    Location:100135
    CSRNP_N; Cysteine/serine-rich nuclear protein N-terminus
  2. NM_145350.3NP_663325.1  scavenger receptor class F member 1 isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site which results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (3, also known as SREC-3) has a distinct and shorter C-terminus, compared to isoform 1.
    Source sequence(s)
    AB052948, AC130343, CA434049
    Consensus CDS
    CCDS45564.1
    UniProtKB/Swiss-Prot
    Q14162
    Related
    ENSP00000458174.1, ENST00000571272.5
    Conserved Domains (1) summary
    pfam16019
    Location:100135
    CSRNP_N; Cysteine/serine-rich nuclear protein N-terminus

RNA

  1. NR_028075.3 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the central region, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AB052947, AC130343, CA434049, DC429327
    Related
    ENST00000434376.6
  2. NR_102409.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site in the 5'-most exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC130343, AK310174, CA434049, DC429327

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    1633858..1645732 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017025256.1XP_016880745.1  scavenger receptor class F member 1 isoform X1

Reference GRCh38.p13 ALT_REF_LOCI_1

Genomic

  1. NT_187611.1 Reference GRCh38.p13 ALT_REF_LOCI_1

    Range
    63886..75760 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_145352.2: Suppressed sequence

    Description
    NM_145352.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
  2. NR_028076.1: Suppressed sequence

    Description
    NR_028076.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript, which retains an intron.
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