SPARCL1 SPARC like 1 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SPARCL1provided by HGNC
Official Full Name: SPARC like 1provided by HGNC
Primary source: HGNC:HGNC:11220
See related: Ensembl:ENSG00000152583 MIM:606041; AllianceGenome:HGNC:11220
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: SC1; MAST9; PIG33; MAST 9
Summary: Predicted to enable calcium ion binding activity; collagen binding activity; and extracellular matrix binding activity. Predicted to be involved in anatomical structure development and regulation of synapse organization. Located in extracellular space. [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in brain (RPKM 777.2), endometrium (RPKM 500.6) and 20 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 4q22.1

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	4	NC_000004.12 (87473335..87529376, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	4	NC_060928.1 (90802350..90858405, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	4	NC_000004.11 (88394487..88450528, complement)

Chromosome 4 - NC_000004.12 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?

Identifying liver metastasis-related hub genes in breast cancer and characterizing SPARCL1 as a potential prognostic biomarker.
Title: Identifying liver metastasis-related hub genes in breast cancer and characterizing SPARCL1 as a potential prognostic biomarker.
The Matricellular Protein Hevin Is Involved in Alcohol Use Disorder.
Title: The Matricellular Protein Hevin Is Involved in Alcohol Use Disorder.
Circular_0086414 induces SPARC like 1 (SPARCL1) production to inhibit esophageal cancer cell proliferation, invasion and glycolysis and induce cell apoptosis by sponging miR-1290.
Title: Circular_0086414 induces SPARC like 1 (SPARCL1) production to inhibit esophageal cancer cell proliferation, invasion and glycolysis and induce cell apoptosis by sponging miR-1290.
The KDM6A-SPARCL1 axis blocks metastasis and regulates the tumour microenvironment of gastrointestinal stromal tumours by inhibiting the nuclear translocation of p65.
Title: The KDM6A-SPARCL1 axis blocks metastasis and regulates the tumour microenvironment of gastrointestinal stromal tumours by inhibiting the nuclear translocation of p65.
Association of Tumor Suppressor Sparcl1 with Clinical Staging and Prognosis of NSCLC.
Title: Association of Tumor Suppressor Sparcl1 with Clinical Staging and Prognosis of NSCLC.
SPARCL1 exhibits different expressions in left- and right-sided colon cancer and is downregulated via DNA methylation.
Title: SPARCL1 exhibits different expressions in left- and right-sided colon cancer and is downregulated via DNA methylation.
SPARCL1 Is a Novel Prognostic Biomarker and Correlates with Tumor Microenvironment in Colorectal Cancer.
Title: SPARCL1 Is a Novel Prognostic Biomarker and Correlates with Tumor Microenvironment in Colorectal Cancer.
Interplay between hevin, SPARC, and MDGAs: Modulators of neurexin-neuroligin transsynaptic bridges.
Title: Interplay between hevin, SPARC, and MDGAs: Modulators of neurexin-neuroligin transsynaptic bridges.
Characterization of Hevin (SPARCL1) Immunoreactivity in Postmortem Human Brain Homogenates.
Title: Characterization of Hevin (SPARCL1) Immunoreactivity in Postmortem Human Brain Homogenates.
SPARCL1 impedes trophoblast migration and invasion by down-regulating ERK phosphorylation and AP-1 production and altering EMT-related molecule expression.
Title: SPARCL1 impedes trophoblast migration and invasion by down-regulating ERK phosphorylation and AP-1 production and altering EMT-related molecule expression.

Submit: New GeneRIF Correction See all GeneRIFs (41)

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
A genome-wide association study identifies new susceptibility loci for esophageal adenocarcinoma and Barrett's esophagus. 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

SPARCL1 (e-PCR)
- UniSTS:279130

WI-21135 (e-PCR)
- UniSTS:69515

SHGC-59409 (e-PCR)
- UniSTS:72942

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables calcium ion binding	IBA Inferred from Biological aspect of Ancestor more info
enables collagen binding	IBA Inferred from Biological aspect of Ancestor more info
enables extracellular matrix binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in anatomical structure development	IBA Inferred from Biological aspect of Ancestor more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info
involved_in synaptic membrane adhesion	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in collagen-containing extracellular matrix	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum lumen	TAS Traceable Author Statement more info
located_in extracellular region	HDA more info	PubMed
located_in extracellular space	HDA more info	PubMed
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: SPARC-like protein 1

Names: SPARC-like 1 (hevin); high endothelial venule protein; proliferation-inducing protein 33

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_001128310.3 → NP_001121782.1 SPARC-like protein 1 isoform 1 precursor

See identical proteins and their annotated locations for NP_001121782.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1). Variants 1 and 2 encode the same isoform (1).

Source sequence(s)

BC022484, DC403565, DC421365, X86693

Consensus CDS

CCDS3622.1

UniProtKB/Swiss-Prot

B4E2Z0, E7ESU2, Q14515, Q14800

UniProtKB/TrEMBL

Q8N4S1

Related

ENSP00000414856.1, ENST00000418378.5

Conserved Domains (3) summary

cd00252
Location:514 → 662

SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...

pfam10591
Location:513 → 648

SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

cl00097
Location:433 → 512

KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
NM_001291976.2 → NP_001278905.1 SPARC-like protein 1 isoform 2

See identical proteins and their annotated locations for NP_001278905.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. Variants 3 and 4 encode the same isoform (2), which has a shorter N-terminus compared to isoform 1.

Source sequence(s)

AK316533, AL833430, DA283085, DC403565, X86693

Consensus CDS

CCDS77939.1

UniProtKB/TrEMBL

B7ZB68

Related

ENSP00000422903.1, ENST00000503414.5

Conserved Domains (3) summary

cd00252
Location:389 → 537

SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...

pfam10591
Location:388 → 523

SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

cl00097
Location:308 → 387

KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
NM_001291977.2 → NP_001278906.1 SPARC-like protein 1 isoform 2

See identical proteins and their annotated locations for NP_001278906.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. Variants 3 and 4 encode the same isoform (2), which has a shorter N-terminus compared to isoform 1.

Source sequence(s)

AK304494, DC403565, X86693

Consensus CDS

CCDS77939.1

UniProtKB/TrEMBL

B7ZB68

Conserved Domains (3) summary

cd00252
Location:389 → 537

SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...

pfam10591
Location:388 → 523

SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

cl00097
Location:308 → 387

KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...
NM_004684.6 → NP_004675.3 SPARC-like protein 1 isoform 1 precursor

See identical proteins and their annotated locations for NP_004675.3

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same isoform (1).

Source sequence(s)

AK304494, BC022484, BC033721, DA283085, DC403565, X86693

Consensus CDS

CCDS3622.1

UniProtKB/Swiss-Prot

B4E2Z0, E7ESU2, Q14515, Q14800

UniProtKB/TrEMBL

Q8N4S1

Related

ENSP00000282470.6, ENST00000282470.11

Conserved Domains (3) summary

cd00252
Location:514 → 662

SPARC_EC; SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate ...

pfam10591
Location:513 → 648

SPARC_Ca_bdg; Secreted protein acidic and rich in cysteine Ca binding region

cl00097
Location:433 → 512

KAZAL_FS; Kazal type serine protease inhibitors and follistatin-like domains. Kazal inhibitors inhibit serine proteases, such as, trypsin, chyomotrypsin, avian ovomucoids, and elastases. The inhibitory domain has one reactive site peptide bond, which serves the ...