SGPP1 sphingosine-1-phosphate phosphatase 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SGPP1provided by HGNC
Official Full Name: sphingosine-1-phosphate phosphatase 1provided by HGNC
Primary source: HGNC:HGNC:17720
See related: Ensembl:ENSG00000126821 MIM:612826; AllianceGenome:HGNC:17720
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
Also known as: SPP-1; SPPase1
Summary: Sphingosine-1-phosphate (S1P) is a bioactive sphingolipid metabolite that regulates diverse biologic processes. SGPP1 catalyzes the degradation of S1P via salvage and recycling of sphingosine into long-chain ceramides (Mandala et al., 2000 [PubMed 10859351]; Le Stunff et al., 2007 [PubMed 17895250]).[supplied by OMIM, Jun 2009]
Expression: Ubiquitous expression in kidney (RPKM 17.3), lymph node (RPKM 14.6) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 14q23.2

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	14	NC_000014.9 (63684216..63728065, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	14	NC_060938.1 (57891616..57935465, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	14	NC_000014.8 (64150934..64194783, complement)

Chromosome 14 - NC_000014.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

MicroRNA-656-3p inhibits colorectal cancer cell migration, invasion, and chemo-resistance by targeting sphingosine-1-phosphate phosphatase 1.
Title: MicroRNA-656-3p inhibits colorectal cancer cell migration, invasion, and chemo-resistance by targeting sphingosine-1-phosphate phosphatase 1.
Sevoflurane suppresses cell viability and invasion and promotes cell apoptosis in colon cancer by modulating exosomemediated circHMGCS1 via the miR34a5p/SGPP1 axis.
Title: Sevoflurane suppresses cell viability and invasion and promotes cell apoptosis in colon cancer by modulating exosome‑mediated circ‑HMGCS1 via the miR‑34a‑5p/SGPP1 axis.
the sequential expression and localization of the endogenous S1P regulators SGPP-1 and SGPL-1 and highlight their contribution to the sphingolipid rheostat in inflammation.
Title: Nuclear Translocation of SGPP-1 and Decrease of SGPL-1 Activity Contribute to Sphingolipid Rheostat Regulation of Inflammatory Dendritic Cells.
The two gastric cancer cells transfected with pEF-SGPP1 exhibited a slower rate of growth with less adhesion. Thus, our findings provided evidence that SGPP1 may serve as a prognostic biomarker for patients with advanced gastric cancers.
Title: Inhibition of sphingosine-1-phosphate phosphatase 1 promotes cancer cells migration in gastric cancer: Clinical implications.
Study has revealed miR-27a as a tumor suppressor and has identified SGPP1 and Smad2 as novel targets of miR-27a, linking to STAT3 for regulating cancer cell proliferation, apoptosis and migration in colorectal cancer.
Title: Tumor suppressor microRNA-27a in colorectal carcinogenesis and progression by targeting SGPP1 and Smad2.
The sphingolipid phosphatase SGPP1, an antagonist of sphingosine-1-phosphate signaling, is a target of miR-95 that promotes radiation resistance.
Title: miRNA-95 mediates radioresistance in tumors by targeting the sphingolipid phosphatase SGPP1.
S1P is elevated in patients with IPF, correlates with the lung function and mediates EMT.
Title: Sphingosine-1-phosphate is increased in patients with idiopathic pulmonary fibrosis and mediates epithelial to mesenchymal transition.
doxorubicin switches protective autophagy in SPP1-depleted cells to apoptosis by calpain-mediated Atg5 cleavage.
Title: Autophagy induced by deficiency of sphingosine-1-phosphate phosphohydrolase 1 is switched to apoptosis by calpain-mediated autophagy-related gene 5 (Atg5) cleavage.
Under normal circumstances, the retinal vascular pericytes maintain pericyte-endothelial contacts and vascular barrier function through the secretion of sphingosine 1-phosphate.
Title: Pericyte-derived sphingosine 1-phosphate induces the expression of adhesion proteins and modulates the retinal endothelial cell barrier.
SPP1 by regulating intracellular S1P homeostasis, can control the UPR and ER stress-induced autophagy.
Title: Sphingosine-1-phosphate phosphohydrolase-1 regulates ER stress-induced autophagy.

Submit: New GeneRIF Correction See all GeneRIFs (14)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
An atlas of genetic influences on human blood metabolites. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genetic determinants of circulating sphingolipid concentrations in European populations. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

G35499 (e-PCR)
- UniSTS:36439

RH17831 (e-PCR)
- UniSTS:14748

WI-16352 (e-PCR)
- UniSTS:68832

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables dihydrosphingosine-1-phosphate phosphatase activity	TAS Traceable Author Statement more info
enables sphingosine-1-phosphate phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables sphingosine-1-phosphate phosphatase activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in ER to Golgi ceramide transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in extrinsic apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in intrinsic apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in phospholipid dephosphorylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of epidermis development	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of keratinocyte differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in sphinganine-1-phosphate metabolic process	IEA Inferred from Electronic Annotation more info
involved_in sphingolipid catabolic process	TAS Traceable Author Statement more info
involved_in sphingosine metabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum membrane	TAS Traceable Author Statement more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: sphingosine-1-phosphate phosphatase 1

Names: hSPP1; hSPPase1; sphingosine-1-phosphatase 1; sphingosine-1-phosphate phosphohydrolase 1; spp1

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_030791.4 → NP_110418.1 sphingosine-1-phosphate phosphatase 1

See identical proteins and their annotated locations for NP_110418.1

Status: VALIDATED

Source sequence(s)

AJ293294, BC063839, HY008514

Consensus CDS

CCDS9760.1

UniProtKB/Swiss-Prot

B2RAH0, Q9BX95, Q9H189

Related

ENSP00000247225.6, ENST00000247225.7

Conserved Domains (1) summary

cd03388
Location:126 → 275

PAP2_SPPase1; PAP2_like proteins, sphingosine-1-phosphatase subfamily. Sphingosine-1-phosphatase is an intracellular enzyme located in the endoplasmic reticulum, which regulates the level of sphingosine-1-phosphate (S1P), a bioactive lipid. S1P acts as a second ...