SPN sialophorin [Homo sapiens (human)] - Gene

Summary

Official Symbol: SPNprovided by HGNC
Official Full Name: sialophorinprovided by HGNC
Primary source: HGNC:HGNC:11249
See related: Ensembl:ENSG00000197471 MIM:182160; AllianceGenome:HGNC:11249
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; LEU-22
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: mouse all
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Genomic context

Location:: 16p11.2

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	16	NC_000016.10 (29662963..29670876)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	16	NC_060940.1 (29945006..29952917)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	16	NC_000016.9 (29674284..29682197)

Chromosome 16 - NC_000016.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CD43 (sialophorin) is involved in the induction of extracellular matrix remodeling and angiogenesis by lung cancer cells.
Title: CD43 (sialophorin) is involved in the induction of extracellular matrix remodeling and angiogenesis by lung cancer cells.
CD43 in the malignant flow cytometry laboratory in 2020.
Title: CD43 in the malignant flow cytometry laboratory in 2020.
Identification and functional characterization of a Siglec-7 counter-receptor on K562 cells.
Title: Identification and functional characterization of a Siglec-7 counter-receptor on K562 cells.
Determination of CD43 and CD200 surface expression improves accuracy of B-cell lymphoma immunophenotyping.
Title: Determination of CD43 and CD200 surface expression improves accuracy of B-cell lymphoma immunophenotyping.
Virion-incorporated host transmembrane proteins PSGL-1 and CD43 inhibit attachment of HIV-1 particles to target cells. Co-clustering of HIV-1 structural protein Gag with PSGL-1 and subsequent progeny virion release contribute to depletion of PSGL-1 from an infected cell surface. In addition, study reports a previously unidentified role for Gag in viral down-regulation of antiviral proteins.
Title: Virion-incorporated PSGL-1 and CD43 inhibit both cell-free infection and transinfection of HIV-1 by preventing virus-cell binding.
Our results point to the usefulness of CD43 and CD49d, two markers commonly present in B-cell chronic lymphoproliferative disorders (B-CLPD) diagnosis panels, in the identification of dysplastic phenotypic features in the erythroid lineage.
Title: CD43 and CD49d from the B-Cell Chronic Lymphoproliferative Disorders Diagnostic Panel Are Useful to Detect Erythroid Dysplasia.
our data indicate that DLBCL patients with CD5/CD43 coexpression represent a specific subgroup with a significantly worse prognosis than those expressing either marker alone.
Title: Coexpression of CD5 and CD43 predicts worse prognosis in diffuse large B-cell lymphoma.
this study shows that CD43 regulates Th17 cell ICAM1 dependent adhesion, apical migration and transendothelial migration
Title: Sialomucin CD43 regulates T helper type 17 cell intercellular adhesion molecule 1 dependent adhesion, apical migration and transendothelial migration.
CD39, CD43, CD81, and CD95 expressions appear to be helpful to distinguish CD10(+) BCL.
Title: The importance of CD39, CD43, CD81, and CD95 expression for differentiating B cell lymphoma by flow cytometry.
The frequency of CD43-positivity increases sharply with the Moreau score.
Title: Expression of CD43 in chronic lymphoproliferative leukemias.

Submit: New GeneRIF Correction See all GeneRIFs (55)

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)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SPN_423 (e-PCR)
- UniSTS:277767

D11S2921 (e-PCR)
- UniSTS:152074

GDB:196680 (e-PCR)
- UniSTS:66323

GDB:434012 (e-PCR)
- UniSTS:157204

D11S2560 (e-PCR)
- UniSTS:37928

D8S2279 (e-PCR)
- UniSTS:473907

RH93020 (e-PCR)
- UniSTS:93009

RH70827 (e-PCR)
- UniSTS:87890

D16S2670 (e-PCR)
- UniSTS:152419

D10S16 (e-PCR)
- UniSTS:155756

D15S1477 (e-PCR)
- UniSTS:474482

D1S1425 (e-PCR)
- UniSTS:149621

G35510 (e-PCR)
- UniSTS:44150

D7S511 (e-PCR)
- UniSTS:10880

G32839 (e-PCR)
- UniSTS:117418

GDB:626036 (e-PCR)
- UniSTS:158381

GDB:313783 (e-PCR)
- UniSTS:13512

GDB:631802 (e-PCR)
- UniSTS:158429

G15885 (e-PCR)
- UniSTS:32221

GDB:631813 (e-PCR)
- UniSTS:158430

RH67531 (e-PCR)
- UniSTS:86517

GDB:180921 (e-PCR)
- UniSTS:155126

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables Hsp70 protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables heat shock protein binding	IBA Inferred from Biological aspect of Ancestor more info
enables heat shock protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transmembrane signaling receptor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in T cell costimulation	IEA Inferred from Electronic Annotation more info
involved_in T cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in T-helper 1 cell lineage commitment	IDA Inferred from Direct Assay more info	PubMed
involved_in apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular defense response	TAS Traceable Author Statement more info	PubMed
involved_in chemotaxis	TAS Traceable Author Statement more info	PubMed
involved_in defense response to bacterium	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within defense response to bacterium	IDA Inferred from Direct Assay more info	PubMed
involved_in establishment or maintenance of cell polarity	TAS Traceable Author Statement more info	PubMed
involved_in immune response	TAS Traceable Author Statement more info	PubMed
involved_in leukocyte tethering or rolling	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of T cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell adhesion	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of type IV hypersensitivity	IEA Inferred from Electronic Annotation more info
involved_in negative thymic T cell selection	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of T cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of T cell proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of tumor necrosis factor production	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of T cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of defense response to virus	IEA Inferred from Electronic Annotation more info
involved_in regulation of immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to protozoan	IEA Inferred from Electronic Annotation more info
involved_in signal transduction	TAS Traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in PML body	IEA Inferred from Electronic Annotation more info
located_in basement membrane	IEA Inferred from Electronic Annotation more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular exosome	HDA more info	PubMed
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	HDA more info	PubMed
located_in microvillus	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	TAS Traceable Author Statement more info
located_in uropod	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: leukosialin

Names: galactoglycoprotein; leukocyte sialoglycoprotein; sialophorin (gpL115, leukosialin, CD43)

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)

NM_001030288.4 → NP_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

A8K9B1, P16150

UniProtKB/TrEMBL

C9JUK7

Related

ENSP00000378787.2, ENST00000395389.2

Conserved Domains (1) summary

pfam15782
Location:80 → 224

GREB1; Gene regulated by oestrogen in breast cancer
NM_003123.6 → NP_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

A8K9B1, P16150

UniProtKB/TrEMBL

C9JUK7

Related

ENSP00000498852.1, ENST00000652691.1

Conserved Domains (1) summary

pfam15782
Location:80 → 224

GREB1; Gene regulated by oestrogen in breast cancer