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Aliases for SCG3 Gene

Aliases for SCG3 Gene

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

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. Among its related pathways are Response to elevated platelet cytosolic Ca2+.

Gene Wiki entry for SCG3 Gene

Additional gene information for SCG3 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCG3 Gene

Genomics for SCG3 Gene

GeneHancer (GH) Regulatory Elements for SCG3 Gene

Promoters and enhancers for SCG3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH15J051681 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 662.9 +0.2 241 0.8 PKNOX1 MLX ZFP64 ARID4B SIN3A SLC30A9 ZNF766 ZNF143 SP3 REST SCG3 ENSG00000259241
GH15J051620 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 22.5 -58.9 -58901 4.4 PKNOX1 ARNT ARID4B SIN3A DMAP1 ZBTB7B YY1 POLR2B ZNF766 E2F8 DMXL2 SCG3 LYSMD2 TRPM7 ENSG00000260618 MAPK6 AP4E1 TMOD2 TMOD3 ENSG00000259678
GH15J051728 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.2 +52.5 52523 9.9 PKNOX1 SIN3A IRF4 YY1 ZNF766 ZNF207 ZNF143 JUNB REST ZNF592 LYSMD2 DMXL2 SCG3 TMOD3 MAPK6 TMOD2 ENSG00000259296
GH15J051629 Enhancer 1 Ensembl ENCODE dbSUPER 24.1 -51.7 -51723 1.3 ZNF3 MTA2 CEBPB CEBPG REST CEBPA HMBOX1 ZNF24 SPI1 SCG3 DMXL2 LOC105370816
GH15J051707 Enhancer 0.9 FANTOM5 ENCODE dbSUPER 18.9 +26.9 26850 2.4 ZNF362 FOXA2 ZBTB33 FOXA1 CHAMP1 DMXL2 SCG3 TMOD2 LYSMD2 MAPK6 TMOD3 ENSG00000259296 ENSG00000259241
- 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 UCSC Golden Path with GeneCards custom track

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

Genomic Locations for SCG3 Gene

Genomic Locations for SCG3 Gene
chr15:51,681,353-51,721,031
(GRCh38/hg38)
Size:
39,679 bases
Orientation:
Plus strand
chr15:51,973,550-52,013,223
(GRCh37/hg19)
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.

    Alternative splice isoforms for SCG3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCG3 Gene

Post-translational modifications for SCG3 Gene

  • O-glycosylated.
  • Glycosylation at isoforms=2359, posLast=346346, posLast=231231, isoforms=216, isoforms=144, and isoforms=68
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • SCG3_HUMAN (732)

Other Protein References for SCG3 Gene

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:
ProtoNet:

Suggested Antigen Peptide Sequences for SCG3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

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

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

Function for SCG3 Gene

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
genes like me logo Genes that share ontologies with SCG3: view
genes like me logo Genes that share phenotypes with SCG3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SCG3

CRISPR Products

miRNA for SCG3 Gene

miRTarBase miRNAs that target SCG3

Inhibitory RNA Products

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

No data available for Molecular function , 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 lumen. Cytoplasmic vesicle, secretory vesicle membrane; Peripheral membrane protein. Secreted. Note=Associated with the secretory granule membrane through direct binding to cholesterol-enriched lipid rafts in intragranular conditions (By similarity). Neuroendocrine and endocrine secretory granules. {ECO:0000250}.

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 5
endoplasmic reticulum 5
golgi apparatus 2
plasma membrane 1
mitochondrion 1
peroxisome 1
nucleus 1
cytosol 1

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 TAS --
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0016020 membrane IEA --
GO:0030658 transport vesicle membrane IEA --
GO:0031410 cytoplasmic vesicle 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

Interacting Proteins for SCG3 Gene

Gene Ontology (GO) - Biological Process for SCG3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002576 platelet degranulation TAS --
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

Unigene Clusters for SCG3 Gene

Secretogranin III:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

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
ECgene alternative splicing isoforms for
SCG3

Expression for SCG3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP 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

NURSA nuclear receptor signaling pathways regulating expression of SCG3 Gene:

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)
genes like me logo Genes that share expression patterns with SCG3: view

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 34 33
  • 99.72 (n)
OneToOne
dog
(Canis familiaris)
Mammalia SCG3 34 33
  • 92.2 (n)
OneToOne
cow
(Bos Taurus)
Mammalia SCG3 34 33
  • 90.46 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Scg3 16 34 33
  • 86.25 (n)
rat
(Rattus norvegicus)
Mammalia Scg3 33
  • 85.54 (n)
oppossum
(Monodelphis domestica)
Mammalia SCG3 34
  • 61 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SCG3 34
  • 41 (a)
OneToOne
chicken
(Gallus gallus)
Aves SCG3 34 33
  • 73.22 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SCG3 34
  • 63 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia scg3 33
  • 66.52 (n)
Str.14123 33
African clawed frog
(Xenopus laevis)
Amphibia scg3-A 33
zebrafish
(Danio rerio)
Actinopterygii scg3 34 33
  • 61.83 (n)
OneToOne
zgc73236 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5512 33
Species where no ortholog for SCG3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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 squirt (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

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 from dbSNP and Humsavar for SCG3 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs1000193278 -- 51,689,489(+) G/A intron_variant
rs1000225753 -- 51,689,850(+) G/A intron_variant
rs1000281281 -- 51,721,308(+) C/T downstream_transcript_variant
rs1000290589 -- 51,681,081(+) T/C upstream_transcript_variant
rs1000455944 -- 51,718,628(+) A/G intron_variant

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

SNP Genotyping and Copy Number Assay Products

Disorders for SCG3 Gene

Additional Disease Information for SCG3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SCG3 Gene.

No data available for MalaCards , 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 44 58
  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 58
  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 58
  4. 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 58
  5. 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 58

Products for SCG3 Gene

Sources for SCG3 Gene

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