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SCG3 secretogranin III [ Homo sapiens (human) ]

Gene ID: 29106, updated on 5-Mar-2024

Summary

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Official Symbol
SCG3provided by HGNC
Official Full Name
secretogranin IIIprovided by HGNC
Primary source
HGNC:HGNC:13707
See related
Ensembl:ENSG00000104112 MIM:611796; AllianceGenome:HGNC:13707
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
SGIII
Summary
The protein encoded by this gene is a member of the chromogranin/secretogranin family of neuroendocrine secretory proteins. Granins may serve as precursors for biologically active peptides. Some granins have been shown to function as helper proteins in sorting and proteolytic processing of prohormones; however, the function of this protein is unknown. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2009]
Expression
Biased expression in brain (RPKM 94.6), adrenal (RPKM 8.5) and 1 other tissue See more
Orthologs
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Genomic context

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See SCG3 in Genome Data Viewer
Location:
15q21.2
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (51681503..51721026)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (49488960..49528517)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (51973700..52013223)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr15:51741640-51742839 Neighboring gene Dmx like 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:51861014-51861520 Neighboring gene Sharpr-MPRA regulatory region 1269 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9404 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6432 Neighboring gene uncharacterized LOC105370816 Neighboring gene CRISPRi-validated cis-regulatory element chr15.1149 Neighboring gene CRISPRi-validated cis-regulatory element chr15.1151 Neighboring gene Sharpr-MPRA regulatory region 12802 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6433 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9405 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9406 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6434 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6435 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6436 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9407 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6438 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6439 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6440 Neighboring gene LysM domain containing 2 Neighboring gene tropomodulin 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:52079467-52079967 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_39634

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. SCG3 Protein Expression in Glioma Associates With less Malignancy and Favorable Clinical Outcomes. Wang Y, et al. Pathol Oncol Res, 2021. PMID 34257545, Free PMC Article
  2. Glycobiomarker, Fucosylated Short-Form Secretogranin III Levels Are Increased in Serum of Patients with Small Cell Lung Carcinoma. Togayachi A, et al. J Proteome Res, 2017 Dec 1. PMID 28949141
  3. Dysregulated expression of secretogranin III is involved in neurotoxin-induced dopaminergic neuron apoptosis. Li F, et al. J Neurosci Res, 2012 Dec. PMID 22987761
  4. Functional single-nucleotide polymorphisms in the secretogranin III (SCG3) gene that form secretory granules with appetite-related neuropeptides are associated with obesity. Tanabe A, et al. J Clin Endocrinol Metab, 2007 Mar. PMID 17200173
  5. Immunocytochemical localization of secretogranin III in the anterior lobe of male rat pituitary glands. Sakai Y, et al. J Histochem Cytochem, 2003 Feb. PMID 12533531

See all (38) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SCG3 Protein Expression in Glioma Associates With less Malignancy and Favorable Clinical Outcomes.
    Title: SCG3 Protein Expression in Glioma Associates With less Malignancy and Favorable Clinical Outcomes.
  2. Concurrent Physiological and Pathological Angiogenesis in Retinopathy of Prematurity and Emerging Therapies.
    Title: Concurrent Physiological and Pathological Angiogenesis in Retinopathy of Prematurity and Emerging Therapies.
  3. SCG3 may be involved in PQinduced astrocyte activation via regulation of the expression and selective recruitment of cellular factors, thus suggesting that SCG3 may represent an indicator of astrocyte activation.
    Title: Secretogranin III may be an indicator of paraquat-induced astrocyte activation and affects the recruitment of BDNF during this process.
  4. This review summarizes our current knowledge of Scg3 as a regulatory protein of secretory granules, highlights its new role as a highly disease-selective angiogenic factor, and envisions Scg3 inhibitors as "selective angiogenesis blockers" for targeted therapy of diabetic retinopathy. [review]
    Title: Secretogranin III: a diabetic retinopathy-selective angiogenic factor.
  5. results suggested an association between the fucosylated glycoform of short-form SgIII and Small Cell Lung Carcinoma
    Title: Glycobiomarker, Fucosylated Short-Form Secretogranin III Levels Are Increased in Serum of Patients with Small Cell Lung Carcinoma.
  6. HBXIP facilitates the proliferation of hepatoma cells by up-regulating SCG3 via E2F1 and miR-509-3p modulation.
    Title: The oncoprotein HBXIP up-regulates SCG3 through modulating E2F1 and miR-509-3p in hepatoma cells.
  7. SCG3 is essential in the process and targeting of neuropeptides and neurotrophins, its participation in the pathological progression of Alzheimer's disease may be suggested
    Title: Secretory sorting receptors carboxypeptidase E and secretogranin III in amyloid β-associated neural degeneration in Alzheimer's disease.
  8. SCG3 may be involved in apoptosis signal transduction as a caspase substrate.It may be a pivotal component of the neuroendocrine pathway & play an important role in neuronal communication & neurotransmitter release.
    Title: Dysregulated expression of secretogranin III is involved in neurotoxin-induced dopaminergic neuron apoptosis.
  9. Our data suggest that genetic variations in the FTO, SCG3 and MTMR9 genes independently influence the risk of metabolic syndrome.
    Title: Association of variations in the FTO, SCG3 and MTMR9 genes with metabolic syndrome in a Japanese population.
  10. This short review deals with investigations in neuroendocrine tumors (NETs) with antibodies against defined epitopes of chromogranins (Cgs) A and B and secretogranins (Sgs) II and III.
    Title: Immunohistochemical and biochemical studies with region-specific antibodies to chromogranins A and B and secretogranins II and III in neuroendocrine tumors.
Submit: New GeneRIF Correction See all GeneRIFs (15)

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
Genome-wide association study of asthma identifies RAD50-IL13 and HLA-DR/DQ regions.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ90833

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in protein localization to secretory granule IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
  
located_in extracellular region TAS
Traceable Author Statement
more info
  
located_in secretory granule lumen TAS
Traceable Author Statement
more info
  
is_active_in secretory granule membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in transport vesicle membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
secretogranin-3

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.

Genomic

  1. NG_013214.1 RefSeqGene

    Range
    5151..44674
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001165257.2 → NP_001158729.1  secretogranin-3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks the alternate exon containing the translation intiation site compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AF453583, AK296466, BI552493
    Consensus CDS
    CCDS53947.1
    UniProtKB/Swiss-Prot
    Q8WXD2
    Related
    ENSP00000445205.2, ENST00000542355.6
    Conserved Domains (1) summary
    pfam15467
    Location:1 → 236
    SGIII; Secretogranin-3

  2. NM_013243.4 → NP_037375.2  secretogranin-3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_037375.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AF453583
    Consensus CDS
    CCDS10142.1
    UniProtKB/Swiss-Prot
    A8K2B0, B3KQP6, B4DK99, F5H3R8, Q8WXD2, Q96C83, Q96GE8, Q9Y6G7
    Related
    ENSP00000220478.3, ENST00000220478.8
    Conserved Domains (1) summary
    pfam15467
    Location:17 → 468
    SGIII; Secretogranin-3

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    51681503..51721026
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    49488960..49528517
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8WXD2.3 GenPept UniProtKB/Swiss-Prot:Q8WXD2

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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