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 en... See more...

Aliases for SCG3 Gene

Aliases for SCG3 Gene

  • Secretogranin III 2 3 4 5
  • Secretogranin-3 3 4
  • SgIII 2 4
  • FLJ90833 2
  • SGIII 3
  • SCG3 5

External Ids for SCG3 Gene

Previous GeneCards Identifiers for SCG3 Gene

  • GC15P047530
  • GC15P045020
  • GC15P049552
  • GC15P049689
  • GC15P049760
  • GC15P051973
  • GC15P028804

Summaries for SCG3 Gene

Entrez Gene Summary for SCG3 Gene

  • 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]

GeneCards Summary for SCG3 Gene

SCG3 (Secretogranin III) is a Protein Coding gene. Diseases associated with SCG3 include Motility-Related Diarrhea. Among its related pathways are Response to elevated platelet cytosolic Ca2+.

UniProtKB/Swiss-Prot Summary for SCG3 Gene

  • Member of the granin protein family that regulates the biogenesis of secretory granules (PubMed:19357184). Acts as a sorting receptor for intragranular proteins including chromogranin A/CHGA (By similarity). May also play a role in angiogenesis. Promotes endothelial proliferation, migration and tube formation through MEK/ERK signaling pathway (PubMed:29154827).

Gene Wiki entry for SCG3 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SCG3 Gene

Genomics for SCG3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SCG3 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SCG3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SCG3

Top Transcription factor binding sites by QIAGEN in the SCG3 gene promoter:
  • AML1a
  • FAC1
  • FOXJ2
  • FOXJ2 (long isoform)
  • IRF-1
  • NRSF form 1
  • NRSF form 2
  • POU3F1
  • SRY
  • STAT5B

Genomic Locations for SCG3 Gene

Latest Assembly
chr15:51,681,492-51,721,026
(GRCh38/hg38)
Size:
39,535 bases
Orientation:
Plus strand

Previous Assembly
chr15:51,973,700-52,013,223
(GRCh37/hg19 by Entrez Gene)
Size:
39,524 bases
Orientation:
Plus strand

chr15:51,973,550-52,013,223
(GRCh37/hg19 by Ensembl)
Size:
39,674 bases
Orientation:
Plus strand

Genomic View for SCG3 Gene

Genes around SCG3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCG3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCG3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCG3 Gene

Proteins for SCG3 Gene

  • Protein details for SCG3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WXD2-SCG3_HUMAN
    Recommended name:
    Secretogranin-3
    Protein Accession:
    Q8WXD2
    Secondary Accessions:
    • A8K2B0
    • B3KQP6
    • B4DK99
    • F5H3R8
    • Q96C83
    • Q96GE8
    • Q9Y6G7

    Protein attributes for SCG3 Gene

    Size:
    468 amino acids
    Molecular mass:
    53005 Da
    Quaternary structure:
    • Interacts with CHGA (PubMed:19357184) (By similarity). Interacts with secretogranin II/SCG2 (PubMed:19357184). Interacts (via C-terminus) with CPE (By similarity).

    Alternative splice isoforms for SCG3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCG3 Gene

Post-translational modifications for SCG3 Gene

  • O-glycosylated.
  • Glycosylation at Asn68, Asn346, Ser359, Thr144, Thr216, and Thr231
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • SCG3_HUMAN (732)

Other Protein References for SCG3 Gene

Antibodies for research

  • Boster Bio Antibodies for SCG3
  • Santa Cruz Biotechnology (SCBT) Antibodies for SCG3

No data available for DME Specific Peptides for SCG3 Gene

Domains & Families for SCG3 Gene

Gene Families for SCG3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for SCG3 Gene

InterPro:

Suggested Antigen Peptide Sequences for SCG3 Gene

GenScript: Design optimal peptide antigens:
  • Secretogranin III (SCG3_HUMAN)
genes like me logo Genes that share domains with SCG3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SCG3 Gene

Function for SCG3 Gene

Molecular function for SCG3 Gene

UniProtKB/Swiss-Prot Function:
Member of the granin protein family that regulates the biogenesis of secretory granules (PubMed:19357184). Acts as a sorting receptor for intragranular proteins including chromogranin A/CHGA (By similarity). May also play a role in angiogenesis. Promotes endothelial proliferation, migration and tube formation through MEK/ERK signaling pathway (PubMed:29154827).

Phenotypes From GWAS Catalog for SCG3 Gene

Gene Ontology (GO) - Molecular Function for SCG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 32296183
genes like me logo Genes that share ontologies with SCG3: view
genes like me logo Genes that share phenotypes with SCG3: view

Animal Models for research

  • Taconic Biosciences Mouse Models for SCG3

miRNA for SCG3 Gene

miRTarBase miRNAs that target SCG3

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SCG3

Clone products for research

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SCG3 Gene

Localization for SCG3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCG3 Gene

Cytoplasmic vesicle, secretory vesicle. Cytoplasmic vesicle, secretory vesicle membrane. Peripheral membrane protein. Secreted. Note=Associated with the secretory granule membrane through direct binding to cholesterol-enriched lipid rafts. {ECO:0000250 UniProtKB:P47868}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SCG3 gene
Compartment Confidence
extracellular 4
endoplasmic reticulum 4
golgi apparatus 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1
nucleus 1
endosome 1
cytosol 1
lysosome 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SCG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA,TAS --
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0016020 membrane IEA --
GO:0030133 transport vesicle IEA --
GO:0030658 transport vesicle membrane IEA --
genes like me logo Genes that share ontologies with SCG3: view

Pathways & Interactions for SCG3 Gene

genes like me logo Genes that share pathways with SCG3: view

Gene Ontology (GO) - Biological Process for SCG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002576 platelet degranulation TAS --
GO:0033366 protein localization to secretory granule IBA 21873635
GO:0043687 post-translational protein modification TAS --
GO:0044267 cellular protein metabolic process TAS --
genes like me logo Genes that share ontologies with SCG3: view

No data available for SIGNOR curated interactions for SCG3 Gene

Drugs & Compounds for SCG3 Gene

(1) Drugs for SCG3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with SCG3: view

Transcripts for SCG3 Gene

mRNA/cDNA for SCG3 Gene

2 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SCG3

Clone products for research

Alternative Splicing Database (ASD) splice patterns (SP) for SCG3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12
SP1:
SP2: -

Relevant External Links for SCG3 Gene

GeneLoc Exon Structure for
SCG3

Expression for SCG3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCG3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SCG3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x6.8), Brain - Cortex (x5.8), Brain - Anterior cingulate cortex (BA24) (x5.7), and Brain - Amygdala (x4.5).

Protein differential expression in normal tissues from HIPED for SCG3 Gene

This gene is overexpressed in Cerebrospinal fluid (54.8) and Nasal epithelium (8.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SCG3 Gene



Protein tissue co-expression partners for SCG3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SCG3

SOURCE GeneReport for Unigene cluster for SCG3 Gene:

Hs.232618

mRNA Expression by UniProt/SwissProt for SCG3 Gene:

Q8WXD2-SCG3_HUMAN
Tissue specificity: Expressed in brain, heart, kidney, liver and skeletal muscle.

Evidence on tissue expression from TISSUES for SCG3 Gene

  • Nervous system(4.9)
  • Lung(4)
  • Pancreas(3.2)
  • Adrenal gland(2.2)
genes like me logo Genes that share expression patterns with SCG3: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for SCG3 Gene

Orthologs for SCG3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCG3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SCG3 29 30
  • 99.72 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SCG3 29 30
  • 92.2 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SCG3 29 30
  • 90.46 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Scg3 29 16 30
  • 86.25 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Scg3 29
  • 85.54 (n)
Oppossum
(Monodelphis domestica)
Mammalia SCG3 30
  • 61 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SCG3 30
  • 41 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SCG3 29 30
  • 73.22 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SCG3 30
  • 63 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia scg3 29
  • 66.52 (n)
Str.14123 29
African clawed frog
(Xenopus laevis)
Amphibia scg3-A 29
Zebrafish
(Danio rerio)
Actinopterygii scg3 29 30
  • 61.83 (n)
OneToOne
zgc73236 29
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5512 29
Species where no ortholog for SCG3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for SCG3 Gene

ENSEMBL:
Gene Tree for SCG3 (if available)
TreeFam:
Gene Tree for SCG3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SCG3: view image
Alliance of Genome Resources:
Additional Orthologs for SCG3

Paralogs for SCG3 Gene

No data available for Paralogs for SCG3 Gene

Variants for SCG3 Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for SCG3 Gene

SCG3_HUMAN-Q8WXD2
Polymorphisms in the 5'-flanking region and in intron 1 may have an effect on transcriptional activity and be associated with an increase in subcutaneous, but not visceral, fat area. Hence, may influence the risk of obesity.

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SCG3 Gene

SNP ID Clinical significance and condition Chr 15 pos Variation AA Info Type
rs35106685 Benign: not provided 51,683,349(+) T/C
NM_013243.4(SCG3):c.312T>C (p.Asn104=)
SYNONYMOUS_VARIANT,FIVE_PRIME_UTR
rs17851186 -- p.Val167Ala
rs2305710 -- p.Ser125Asn
rs35664837 -- p.Met233Val

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for SCG3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for SCG3 Gene

Variant ID Type Subtype PubMed ID
esv3306226 CNV mobile element insertion 20981092
esv3401160 CNV insertion 20981092
nsv457139 CNV loss 19166990
nsv471243 CNV gain 18288195
nsv569407 CNV loss 21841781

Variation tolerance for SCG3 Gene

Residual Variation Intolerance Score: 35.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.71; 73.11% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SCG3 Gene

Human Gene Mutation Database (HGMD)
SCG3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCG3
Leiden Open Variation Database (LOVD)
SCG3

SNP Genotyping and Copy Number Assays for research

Disorders for SCG3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SCG3 Gene - From: COP

Disorder Aliases PubMed IDs
motility-related diarrhea
- elite association - COSMIC cancer census association via MalaCards
Search SCG3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SCG3

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with SCG3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SCG3 Gene

Publications for SCG3 Gene

  1. Functional single-nucleotide polymorphisms in the secretogranin III (SCG3) gene that form secretory granules with appetite-related neuropeptides are associated with obesity. (PMID: 17200173) Tanabe A … Hotta K (The Journal of clinical endocrinology and metabolism 2007) 3 4 22 40
  2. LDL oxidation by THP-1 monocytes: implication of HNP-1, SgIII and DMT-1. (PMID: 19150442) He C … Wu J (Clinica chimica acta; international journal of clinical chemistry 2009) 3 22
  3. Measurements of secretogranins II, III, V and proconvertases 1/3 and 2 in plasma from patients with neuroendocrine tumours. (PMID: 18448176) Stridsberg M … Janson ET (Regulatory peptides 2008) 3 22
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. Characterization of the proteins released from activated platelets leads to localization of novel platelet proteins in human atherosclerotic lesions. (PMID: 14630798) Coppinger JA … Maguire PB (Blood 2004) 3 22

Products for SCG3 Gene

Sources for SCG3 Gene