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SPN sialophorin [ Homo sapiens (human) ]

Gene ID: 6693, updated on 15-Apr-2019

Summary

Official Symbol
SPNprovided by HGNC
Official Full Name
sialophorinprovided by HGNC
Primary source
HGNC:HGNC:11249
See related
Ensembl:ENSG00000197471 MIM:182160
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
LSN; CD43; GALGP; GPL115
Summary
This gene encodes a highly sialylated glycoprotein that functions in antigen-specific activation of T cells, and is found on the surface of thymocytes, T lymphocytes, monocytes, granulocytes, and some B lymphocytes. It contains a mucin-like extracellular domain, a transmembrane region and a carboxy-terminal intracellular region. The extracellular domain has a high proportion of serine and threonine residues, allowing extensive O-glycosylation, and has one potential N-glycosylation site, while the carboxy-terminal region has potential phosphorylation sites that may mediate transduction of activation signals. Different glycoforms of this protein have been described. In stimulated immune cells, proteolytic cleavage of the extracellular domain occurs in some cell types, releasing a soluble extracellular fragment. Defects in expression of this gene are associated with Wiskott-Aldrich syndrome. [provided by RefSeq, Sep 2017]
Expression
Biased expression in bone marrow (RPKM 10.2), lymph node (RPKM 6.8) and 13 other tissues See more
Orthologs

Genomic context

See SPN in Genome Data Viewer
Location:
16p11.2
Exon count:
3
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 16 NC_000016.10 (29662950..29670876)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (29674271..29681828)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene SMG1 pseudogene 2 Neighboring gene solute carrier family 7 member 5 pseudogene 1 Neighboring gene carbonic anhydrase 5A pseudogene 1 Neighboring gene quinolinate phosphoribosyltransferase Neighboring gene RN7SK pseudogene 127 Neighboring gene chromosome 16 open reading frame 54

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 FunctionsWhat's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CD3/CD28-activated primary CD4+ T cells downregulates plasma membrane expression of SPN PubMed
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SPN PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120-treated vaginal epithelial cells show downregulation of sialophorin (SPN) expression as compared to untreated control PubMed
env Elimination of CD43 expression by gene targeting in the CEM T cell line results in its increased homotypic adhesion and binding to HIV-1 gp120 PubMed
Nef nef Production of infectious triple deletion vpr/vpu/nef HIV-1 mutant is suppressed, indicating that Nef may antagonize restriction activity of SPN against production of infectious wild-type HIV-1 PubMed
Pr55(Gag) gag Basic sequences in the cytoplasmic domains of PSGL-1, CD43, and CD44 are required for efficient association with HIV-1 Gag in HeLa cells PubMed
gag The highly basic region (HBR) of HIV-1 MA promotes Gag association with specific UDMs containing PSGL-1, CD43, and CD59 PubMed
gag HIV-1 Gag multimers associate with a specific subset of uropod-directed microdomains (UDMs) containing PSGL-1, CD43, and CD44 PubMed
gag HIV-1 Gag co-localizes with both uropod markers PSGL-1 and CD43 on the plasma membrane PubMed
Vpr vpr Production of infectious triple deletion vpr/vpu/nef HIV-1 mutant is suppressed, indicating that Vpr may antagonize restriction activity of SPN against production of infectious wild-type HIV-1 PubMed
Vpu vpu Production of infectious triple deletion vpr/vpu/nef HIV-1 mutant is suppressed, indicating that Vpu may antagonize restriction activity of SPN against production of infectious wild-type HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Basigin interactions, organism-specific biosystem (from REACTOME)
    Basigin interactions, organism-specific biosystemBasigin is a widely expressed transmembrane glycoprotein that belongs to the Ig superfamily and is highly enriched on the surface of epithelial cells. Basigin is involved in intercellular interaction...
  • Cell adhesion molecules (CAMs), organism-specific biosystem (from KEGG)
    Cell adhesion molecules (CAMs), organism-specific biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Cell adhesion molecules (CAMs), conserved biosystem (from KEGG)
    Cell adhesion molecules (CAMs), conserved biosystemCell adhesion molecules are (glyco)proteins expressed on the cell surface and play a critical role in a wide array of biologic processes that include hemostasis, the immune response, inflammation, em...
  • Cell surface interactions at the vascular wall, organism-specific biosystem (from REACTOME)
    Cell surface interactions at the vascular wall, organism-specific biosystemLeukocyte extravasation is a rigorously controlled process that guides white cell movement from the vascular lumen to sites of tissue inflammation. The powerful adhesive interactions that are require...
  • Epstein-Barr virus infection, organism-specific biosystem (from KEGG)
    Epstein-Barr virus infection, organism-specific biosystemEpstein-Barr virus (EBV) is a ubiquitous human herpesvirus that is associated with oncogenesis. EBV infection to primary human B lymphocytes leads to induction of EBV-specific HLA-restricted cytotoxi...
  • Epstein-Barr virus infection, conserved biosystem (from KEGG)
    Epstein-Barr virus infection, conserved biosystemEpstein-Barr virus (EBV) is a ubiquitous human herpesvirus that is associated with oncogenesis. EBV infection to primary human B lymphocytes leads to induction of EBV-specific HLA-restricted cytotoxi...
  • Hemostasis, organism-specific biosystem (from REACTOME)
    Hemostasis, organism-specific biosystemHemostasis is a physiological response that culminates in the arrest of bleeding from an injured vessel. Under normal conditions the vascular endothelium supports vasodilation, inhibits platelet adhe...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
Hsp70 protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
heat shock protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transmembrane signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
T-helper 1 cell lineage commitment IDA
Inferred from Direct Assay
more info
PubMed 
cellular defense response TAS
Traceable Author Statement
more info
PubMed 
chemotaxis TAS
Traceable Author Statement
more info
PubMed 
defense response to bacterium IDA
Inferred from Direct Assay
more info
PubMed 
establishment or maintenance of cell polarity TAS
Traceable Author Statement
more info
PubMed 
immune response TAS
Traceable Author Statement
more info
PubMed 
interferon-gamma production IDA
Inferred from Direct Assay
more info
PubMed 
leukocyte migration TAS
Traceable Author Statement
more info
 
leukocyte tethering or rolling ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of T cell proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell adhesion TAS
Traceable Author Statement
more info
PubMed 
positive regulation of T cell migration ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of tumor necrosis factor biosynthetic process IDA
Inferred from Direct Assay
more info
PubMed 
regulation of T cell migration ISS
Inferred from Sequence or Structural Similarity
more info
 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
PML body IEA
Inferred from Electronic Annotation
more info
 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
membrane HDA PubMed 
microvillus ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
uropod ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
leukosialin
Names
galactoglycoprotein
leukocyte sialoglycoprotein
sialophorin (gpL115, leukosialin, CD43)

NCBI Reference Sequences (RefSeq)

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_001030288.3NP_001025459.1  leukosialin precursor

    See identical proteins and their annotated locations for NP_001025459.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC009086, BQ774811, DA951208, X60502
    Consensus CDS
    CCDS10650.1
    UniProtKB/Swiss-Prot
    P16150
    UniProtKB/TrEMBL
    A0A024R629
    Related
    ENSP00000378787.2, ENST00000395389.2
    Conserved Domains (1) summary
    pfam15782
    Location:80224
    GREB1; Gene regulated by oestrogen in breast cancer
  2. NM_003123.6NP_003114.1  leukosialin precursor

    See identical proteins and their annotated locations for NP_003114.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC009086, AK292626, BQ774811
    Consensus CDS
    CCDS10650.1
    UniProtKB/Swiss-Prot
    P16150
    UniProtKB/TrEMBL
    A0A024R629
    Related
    ENSP00000498852.1, ENST00000652691.1
    Conserved Domains (1) summary
    pfam15782
    Location:80224
    GREB1; Gene regulated by oestrogen in breast cancer

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p12 Primary Assembly

    Range
    29662950..29670876
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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