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SCART1 scavenger receptor family member expressed on T cells 1 [ Homo sapiens (human) ]

Gene ID: 619207, updated on 27-Nov-2024

Summary

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Official Symbol
SCART1provided by HGNC
Official Full Name
scavenger receptor family member expressed on T cells 1provided by HGNC
Primary source
HGNC:HGNC:32411
See related
Ensembl:ENSG00000214279 AllianceGenome:HGNC:32411
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to be involved in immune system process. Located in brush border and cytoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in spleen (RPKM 1.2), endometrium (RPKM 0.8) and 24 other tissues See more
Orthologs
mouse all
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Genomic context

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See SCART1 in Genome Data Viewer
Location:
10q26.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (133453945..133469760)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (134408221..134424034)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (135267449..135283264)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:135237945-135238452 Neighboring gene uncharacterized LOC124902564 Neighboring gene shadow of prion protein Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4252 Neighboring gene olfactory receptor family 6 subfamily L member 2 pseudogene Neighboring gene MPRA-validated peak1138 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4253 Neighboring gene olfactory receptor family 7 subfamily M member 1 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4254 Neighboring gene uncharacterized LOC105378575 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2983 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2984 Neighboring gene CYP2E1 5' regulatory region Neighboring gene uncharacterized LOC124902569

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Characterization of a novel human scavenger receptor cysteine-rich molecule SCART1 expressed by lymphocytes. Holm D, et al. Immunobiology, 2013 Mar. PMID 22795646
  2. Cloning and characterization of SCART1, a novel scavenger receptor cysteine-rich type I transmembrane molecule. Holm D, et al. Mol Immunol, 2009 May. PMID 19297026
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in T cell mediated immunity NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in brush border IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
scavenger receptor cysteine-rich domain-containing protein SCART1
Names
CD163c-alpha
scavenger receptor protein family member

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_001396050.1 → NP_001382979.1  scavenger receptor cysteine-rich domain-containing protein SCART1 precursor

    Status: VALIDATED

    Source sequence(s)
    AL161645
    Consensus CDS
    CCDS91391.1
    UniProtKB/Swiss-Prot
    C9K0L3, Q4G0T1
    Related
    ENSP00000491516.1, ENST00000640237.2
    Conserved Domains (2) summary
    smart00202
    Location:786 → 885
    SR; Scavenger receptor Cys-rich
    pfam00530
    Location:439 → 534
    SRCR; Scavenger receptor cysteine-rich domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    133453945..133469760
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    134408221..134424034
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001033584.1: Suppressed sequence

    Description
    NM_001033584.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.

  2. NR_002934.3: Suppressed sequence

    Description
    NR_002934.3: This RefSeq was removed because currently there is insufficient support for the transcript structure.

  3. NR_149718.1: Suppressed sequence

    Description
    NR_149718.1: This RefSeq was removed because it is now thought that this gene does encode a protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4G0T1.2 GenPept UniProtKB/Swiss-Prot:Q4G0T1

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Other Literature Sources
Molecular Biology Databases
Research Materials