SPP1 secreted phosphoprotein 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SPP1provided by HGNC
Official Full Name: secreted phosphoprotein 1provided by HGNC
Primary source: HGNC:HGNC:11255
See related: Ensembl:ENSG00000118785 MIM:166490; AllianceGenome:HGNC:11255
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: OPN; BNSP; BSPI; ETA-1
Summary: The protein encoded by this gene is involved in the attachment of osteoclasts to the mineralized bone matrix. The encoded protein is secreted and binds hydroxyapatite with high affinity. The osteoclast vitronectin receptor is found in the cell membrane and may be involved in the binding to this protein. This protein is also a cytokine that upregulates expression of interferon-gamma and interleukin-12. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]
Expression: Biased expression in placenta (RPKM 1043.5), gall bladder (RPKM 1025.4) and 3 other tissues See more
Orthologs: mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 4q22.1

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	4	NC_000004.12 (87975714..87983411)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	4	NC_060928.1 (91302203..91309899)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	4	NC_000004.11 (88896866..88904563)

Chromosome 4 - NC_000004.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Extracellular vesicle dynamics in COPD: understanding the role of miR-422a, SPP1 and IL-17 A in smoking-related pathology.
Title: Extracellular vesicle dynamics in COPD: understanding the role of miR-422a, SPP1 and IL-17 A in smoking-related pathology.
ASSESSMENT OF OSTEOPONTIN, SCLEROSTIN, AND OSTEOCALCIN LEVELS IN PATIENTS WITH HYPOTHYROIDISM ON MEDICAL THERAPY.
Title: ASSESSMENT OF OSTEOPONTIN, SCLEROSTIN, AND OSTEOCALCIN LEVELS IN PATIENTS WITH HYPOTHYROIDISM ON MEDICAL THERAPY.
Crosstalk of platelets with macrophages and fibroblasts aggravates inflammation, aortic wall stiffening, and osteopontin release in abdominal aortic aneurysm.
Title: Crosstalk of platelets with macrophages and fibroblasts aggravates inflammation, aortic wall stiffening, and osteopontin release in abdominal aortic aneurysm.
Common Variants in Osteopontin and CD44 Genes as Predictors of Treatment Outcome in Radiotherapy and Chemoradiotherapy for Non-Small Cell Lung Cancer.
Title: Common Variants in Osteopontin and CD44 Genes as Predictors of Treatment Outcome in Radiotherapy and Chemoradiotherapy for Non-Small Cell Lung Cancer.
SPP1 is associated with adverse prognosis and predicts immunotherapy efficacy in penile cancer.
Title: SPP1 is associated with adverse prognosis and predicts immunotherapy efficacy in penile cancer.
METTL3/16-mediated m[6]A modification of ZNNT1 promotes hepatocellular carcinoma progression by activating ZNNT1/osteopontin/S100A9 positive feedback loop-mediated crosstalk between macrophages and tumour cells.
Title: METTL3/16-mediated m(6)A modification of ZNNT1 promotes hepatocellular carcinoma progression by activating ZNNT1/osteopontin/S100A9 positive feedback loop-mediated crosstalk between macrophages and tumour cells.
Osteopontin is associated with neutrophil extracellular trap formation in elderly patients with severe sepsis.
Title: Osteopontin is associated with neutrophil extracellular trap formation in elderly patients with severe sepsis.
Osteopontin, osteoprotegerin and musculoskeletal ultrasound findings in first-degree relatives of rheumatoid arthritis: potential markers of preclinical disease.
Title: Osteopontin, osteoprotegerin and musculoskeletal ultrasound findings in first-degree relatives of rheumatoid arthritis: potential markers of preclinical disease.
Osteopontin interacts with dendritic cells and macrophages in pulp inflammation: Comprehensive transcriptomic analysis and laboratory investigations.
Title: Osteopontin interacts with dendritic cells and macrophages in pulp inflammation: Comprehensive transcriptomic analysis and laboratory investigations.
Serum secreted phosphoprotein 1 level is associated with plaque vulnerability in patients with coronary artery disease.
Title: Serum secreted phosphoprotein 1 level is associated with plaque vulnerability in patients with coronary artery disease.

Submit: New GeneRIF Correction See all GeneRIFs (1083)

Phenotypes

Go to the top of the page Help

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
GWAS of dental caries patterns in the permanent dentition. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

D4S3132 (e-PCR)
- UniSTS:81923

SHGC-105963 (e-PCR)
- UniSTS:169547

PMC351321P4 (e-PCR)
- UniSTS:273245

SHGC-112251 (e-PCR)
- UniSTS:168565

SHGC4-1078 (e-PCR)
- UniSTS:77951

SHGC-36594 (e-PCR)
- UniSTS:4033

PMC317379P2 (e-PCR)
- UniSTS:273090

SHGC-59479 (e-PCR)
- UniSTS:41951

SPP1_3239 (e-PCR)
- UniSTS:462569

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables cytokine activity	IEA Inferred from Electronic Annotation more info
enables extracellular matrix binding	IBA Inferred from Biological aspect of Ancestor more info
enables integrin binding	IPI Inferred from Physical Interaction more info	PubMed
enables ion binding	EXP Inferred from Experiment more info	PubMed
enables ion binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables small molecule binding	EXP Inferred from Experiment more info	PubMed

Process	Evidence Code	Pubs
involved_in androgen catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in biomineral tissue development	IEA Inferred from Electronic Annotation more info
involved_in cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to testosterone stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in decidualization	TAS Traceable Author Statement more info	PubMed
involved_in embryo implantation	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of collateral sprouting of intact axon in response to injury	IEA Inferred from Electronic Annotation more info
involved_in osteoblast differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of bone resorption	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of estradiol secretion	IDA Inferred from Direct Assay more info	PubMed
involved_in response to macrophage colony-stimulating factor	IEA Inferred from Electronic Annotation more info
involved_in response to steroid hormone	IEA Inferred from Electronic Annotation more info
involved_in response to vitamin D	IDA Inferred from Direct Assay more info	PubMed
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum lumen	TAS Traceable Author Statement more info
located_in extracellular exosome	HDA more info	PubMed
located_in extracellular region	TAS Traceable Author Statement more info
located_in extracellular space	HDA more info	PubMed
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

Go to the top of the page Help

Preferred Names: osteopontin

Names: SPP1/CALPHA1 fusion; early T-lymphocyte activation 1; lnc-PKD2-2-3; nephropontin; osteopontin/immunoglobulin alpha 1 heavy chain constant region fusion protein; secreted phosphoprotein 1 (osteopontin, bone sialoprotein I, early T-lymphocyte activation 1); urinary stone protein; uropontin

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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.

Genomic

NG_030362.1 RefSeqGene

Range

5065..12762

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_000582.3 → NP_000573.1 osteopontin isoform OPN-b precursor

See identical proteins and their annotated locations for NP_000573.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 5. The resulting isoform (OPN-b, as described in PubMed: 7837791) has a shorter and distinct N-terminus and lacks an alternate internal segment compared to isoform e.

Source sequence(s)

AF052124, BX648003

Consensus CDS

CCDS3626.1

UniProtKB/TrEMBL

A6XMV6

Related

ENSP00000237623.7, ENST00000237623.11

Conserved Domains (1) summary

pfam00865
Location:21 → 300

Osteopontin; Osteopontin
NM_001040058.2 → NP_001035147.1 osteopontin isoform OPN-a precursor

See identical proteins and their annotated locations for NP_001035147.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) differs in the 5' UTR and coding sequence compared to variant 5. The resulting isoform (OPN-a, as described in PubMed: 7837791) has a shorter and distinct N-terminus compared to isoform e.

Source sequence(s)

AA665210, BC017387, CB117856

Consensus CDS

CCDS43250.1

UniProtKB/Swiss-Prot

B2RDA1, P10451, Q15681, Q15682, Q15683, Q4W597, Q567T5, Q8NBK2, Q96IZ1

UniProtKB/TrEMBL

A6XMV6

Related

ENSP00000378517.3, ENST00000395080.8

Conserved Domains (1) summary

pfam00865
Location:21 → 314

Osteopontin
NM_001040060.2 → NP_001035149.1 osteopontin isoform OPN-c precursor

See identical proteins and their annotated locations for NP_001035149.1

Status: REVIEWED

Description

Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence and lacks an alternate in-frame exon compared to variant 5. The resulting isoform (OPN-c, as described in PubMed: 7837791) has a shorter and distinct N-terminus and lacks an alternate internal segment compared to isoform e.

Source sequence(s)

AA665210, AC131944, BC093033

Consensus CDS

CCDS34027.1

UniProtKB/TrEMBL

C4B6Q2

Related

ENSP00000354042.4, ENST00000360804.4

Conserved Domains (1) summary

pfam00865
Location:21 → 287

Osteopontin; Osteopontin
NM_001251829.2 → NP_001238758.1 osteopontin isoform 4 precursor

See identical proteins and their annotated locations for NP_001238758.1

Status: REVIEWED

Description

Transcript Variant: This variant (4) differs in the 5' UTR and coding sequence and lacks two alternate in-frame exons compared to variant 5. The resulting isoform (4) has a shorter and distinct N-terminus and lacks an alternate internal segment compared to isoform e.

Source sequence(s)

AB209987, AC131944, CB117856, JF412667

Consensus CDS

CCDS93558.1

UniProtKB/TrEMBL

C4B6Q2, D6R9C5, Q3LGB0

Related

ENSP00000422973.2, ENST00000508233.6

Conserved Domains (1) summary

pfam00865
Location:26 → 273

Osteopontin; Osteopontin
NM_001251830.2 → NP_001238759.1 osteopontin isoform 5

See identical proteins and their annotated locations for NP_001238759.1

Status: REVIEWED

Description

Transcript Variant: This variant (5) represents the longest transcript and encodes the longest isoform (5).

Source sequence(s)

AC131944, AK295491, CB117856, JF412667

UniProtKB/TrEMBL

A6XMV6, B7Z351

Related

ENST00000509659.5

Conserved Domains (1) summary

pfam00865
Location:43 → 327

Osteopontin; Osteopontin