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Aliases for SYN3 Gene

Aliases for SYN3 Gene

  • Synapsin III 2 3 4
  • CN28H9.2 (Synapsin III) 3
  • Synapsin-3 3

External Ids for SYN3 Gene

Previous GeneCards Identifiers for SYN3 Gene

  • GC22M029604
  • GC22M031233
  • GC22M032908
  • GC22M015865

Summaries for SYN3 Gene

Entrez Gene Summary for SYN3 Gene

  • This gene is a member of the synapsin gene family. Synapsins encode neuronal phosphoproteins which associate with the cytoplasmic surface of synaptic vesicles. Family members are characterized by common protein domains, and they are implicated in synaptogenesis and the modulation of neurotransmitter release, suggesting a potential role in several neuropsychiatric diseases. The protein encoded by this gene shares the synapsin family domain model, with domains A, C, and E exhibiting the highest degree of conservation. The protein contains a unique domain J, located between domains C and E. Based on this gene's localization to 22q12.3, a possible schizophrenia susceptibility locus, and the established neurobiological roles of the synapsins, this family member may represent a candidate gene for schizophrenia. The TIMP3 gene is located within an intron of this gene and is transcribed in the opposite direction. Alternative splicing of this gene results in multiple splice variants that encode different isoforms. [provided by RefSeq, Oct 2008]

GeneCards Summary for SYN3 Gene

SYN3 (Synapsin III) is a Protein Coding gene. Diseases associated with SYN3 include vulvitis and schizophrenia. Among its related pathways are Transmission across Chemical Synapses and Transmission across Chemical Synapses. An important paralog of this gene is SYN1.

UniProtKB/Swiss-Prot for SYN3 Gene

  • May be involved in the regulation of neurotransmitter release and synaptogenesis

Gene Wiki entry for SYN3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYN3 Gene

Genomics for SYN3 Gene

Regulatory Elements for SYN3 Gene

Genomic Location for SYN3 Gene

32,512,552 bp from pter
33,058,391 bp from pter
545,840 bases
Minus strand

Genomic View for SYN3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SYN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYN3 Gene

Proteins for SYN3 Gene

  • Protein details for SYN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B1B1F9

    Protein attributes for SYN3 Gene

    580 amino acids
    Molecular mass:
    63303 Da
    Quaternary structure:
    • Interacts with CAPON.
    • Regulated by calcium. Calcium inhibits ATP binding to the C-domain

    Three dimensional structures from OCA and Proteopedia for SYN3 Gene

neXtProt entry for SYN3 Gene

Proteomics data for SYN3 Gene at MOPED

Post-translational modifications for SYN3 Gene

  • Phosphorylation at Ser-9 dissociates synapsins from synaptic vesicles.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYN3 Gene

Antibody Products

No data available for DME Specific Peptides for SYN3 Gene

Domains for SYN3 Gene

Graphical View of Domain Structure for InterPro Entry



  • The A region binds phospholipids with a preference for negatively charged species.
  • Belongs to the synapsin family.
  • The A region binds phospholipids with a preference for negatively charged species.
  • Belongs to the synapsin family.
genes like me logo Genes that share domains with SYN3: view

No data available for Gene Families for SYN3 Gene

Function for SYN3 Gene

Molecular function for SYN3 Gene

GENATLAS Biochemistry:
synapsin IIIa,synaptic vesicle-associated phosphoprotein,involved in the regulation of neurotransmitter release,synaptogenesis and synaptic plasticity,with six transcripts (SYN3A to SYN3F),SYN3A,3B,3C deleted in fetal and adult brain,SYN30 only in fetal CNS,SYN3E and 3F non neuronal
UniProtKB/Swiss-Prot Function:
May be involved in the regulation of neurotransmitter release and synaptogenesis

Gene Ontology (GO) - Molecular Function for SYN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003824 catalytic activity IEA --
GO:0005515 protein binding --
GO:0005524 ATP binding TAS 15217342
genes like me logo Genes that share ontologies with SYN3: view
genes like me logo Genes that share phenotypes with SYN3: view

Animal Models for SYN3 Gene

MGI Knock Outs for SYN3:

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targets and HOMER Transcription for SYN3 Gene

Localization for SYN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYN3 Gene

Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Note=Peripheral membrane protein localized to the cytoplasmic surface of synaptic vesicles.

Subcellular locations from

Jensen Localization Image for SYN3 Gene COMPARTMENTS Subcellular localization image for SYN3 gene
Compartment Confidence
cytosol 3
nucleus 2
cytoskeleton 1
mitochondrion 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for SYN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008021 synaptic vesicle TAS 9539796
GO:0030054 cell junction IEA --
GO:0030672 synaptic vesicle membrane IEA --
GO:0045202 synapse --
genes like me logo Genes that share ontologies with SYN3: view

Pathways for SYN3 Gene

genes like me logo Genes that share pathways with SYN3: view

Gene Ontology (GO) - Biological Process for SYN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007269 neurotransmitter secretion IEA --
GO:0008152 metabolic process IEA --
GO:0032228 regulation of synaptic transmission, GABAergic TAS 15217342
genes like me logo Genes that share ontologies with SYN3: view

Drugs for SYN3 Gene

(1) HMDB Compounds for SYN3 Gene

Compound Synonyms Cas Number PubMed IDs
  • Ca
genes like me logo Genes that share compounds with SYN3: view

Transcripts for SYN3 Gene

Unigene Clusters for SYN3 Gene

Synapsin III:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SYN3 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b
SP1: - -
SP2: - -

Relevant External Links for SYN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SYN3 Gene

mRNA expression in normal human tissues for SYN3 Gene

mRNA differential expression in normal tissues according to GTEx for SYN3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (5.9), Brain - Cortex (4.8), and Brain - Anterior cingulate cortex (BA24) (4.5).

Protein differential expression in normal tissues for SYN3 Gene

This gene is overexpressed in Frontal cortex (31.7), Brain (25.9), and Fetal Brain (6.6).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for SYN3 Gene

SOURCE GeneReport for Unigene cluster for SYN3 Gene Hs.608750

mRNA Expression by UniProt/SwissProt for SYN3 Gene

Tissue specificity: Neuron specific. Detected predominantly in brain
genes like me logo Genes that share expressions with SYN3: view

Expression partners for SYN3 Gene

* - Elite partner

Primer Products

In Situ Assay Products

Orthologs for SYN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia SYN3 35
  • 90.95 (n)
  • 94.46 (a)
SYN3 36
  • 94 (a)
(Canis familiaris)
Mammalia SYN3 35
  • 90.2 (n)
  • 94.12 (a)
-- 36
  • 84 (a)
-- 36
  • 93 (a)
(Mus musculus)
Mammalia Syn3 35
  • 87.85 (n)
  • 92.4 (a)
Syn3 16
Syn3 36
  • 92 (a)
(Pan troglodytes)
Mammalia SYN3 35
  • 99.37 (n)
  • 99.48 (a)
(Rattus norvegicus)
Mammalia Syn3 35
  • 87.33 (n)
  • 92.23 (a)
(Monodelphis domestica)
Mammalia SYN3 36
  • 83 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 64 (a)
-- 36
  • 62 (a)
-- 36
  • 73 (a)
(Gallus gallus)
Aves SYN3 35
  • 76.42 (n)
  • 79.62 (a)
SYN3 36
  • 76 (a)
(Anolis carolinensis)
Reptilia SYN3 36
  • 76 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia syn3 35
  • 70.27 (n)
  • 72.08 (a)
African clawed frog
(Xenopus laevis)
Amphibia syn3-A 35
(Danio rerio)
Actinopterygii SYN3 36
  • 32 (a)
fruit fly
(Drosophila melanogaster)
Insecta Syn 37
  • 43 (a)
Syn 35
  • 54.18 (n)
  • 46.37 (a)
Syn 36
  • 33 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003318 35
(Caenorhabditis elegans)
Secernentea snn-1 35
  • 46.46 (n)
  • 34.29 (a)
snn-1 36
  • 26 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 65 (a)
-- 36
  • 46 (a)
Species with no ortholog for SYN3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for SYN3 Gene

Gene Tree for SYN3 (if available)
Gene Tree for SYN3 (if available)

Paralogs for SYN3 Gene

Paralogs for SYN3 Gene

(3) SIMAP similar genes for SYN3 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with SYN3: view

Variants for SYN3 Gene

Sequence variations from dbSNP and Humsavar for SYN3 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type MAF
rs4422 -- 32,762,629(+) GTCGC(-/G)GAAAC intron-variant
rs4446 -- 32,875,500(+) ATGTC(A/G)AGGTC intron-variant
rs4447 -- 32,879,153(-) CAGCT(A/G)CAGAG intron-variant
rs4448 -- 32,881,012(+) CCCAC(A/G)TGGTG intron-variant
rs4449 -- 32,882,215(-) TGACC(C/T)GACCG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SYN3 Gene

Variant ID Type Subtype PubMed ID
nsv914981 CNV Loss 21882294
esv23339 CNV Gain 19812545
esv2724149 CNV Deletion 23290073
esv2724150 CNV Deletion 23290073
esv2529621 CNV Insertion 19546169
esv2724152 CNV Deletion 23290073
esv2666744 CNV Deletion 23128226
esv2724153 CNV Deletion 23290073
esv2742642 CNV Deletion 23290073
esv2724154 CNV Deletion 23290073
esv1328555 CNV Insertion 17803354
esv1395557 CNV Insertion 17803354
nsv459875 CNV Gain 19166990
nsv191249 CNV Insertion 16902084
esv1085289 CNV Insertion 17803354
nsv3599 CNV Loss 18451855
esv2638943 CNV Deletion 19546169
dgv20e194 CNV Deletion 18987734
esv3917 CNV Deletion 18987735
nsv191235 CNV Loss 16902084
esv2724155 CNV Deletion 23290073
esv998207 CNV Deletion 20482838
esv2476031 CNV Deletion 19546169
esv1664547 CNV Deletion 17803354
esv6171 CNV Loss 19470904
nsv3600 CNV Insertion 18451855
nsv507934 CNV Insertion 20534489

Relevant External Links for SYN3 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYN3 Gene

Disorders for SYN3 Gene

MalaCards: The human disease database

MalaCards: The human disease database.

Search for SYN3 Gene in MalaCards »

(2) Diseases for SYN3 Gene

(2) University of Copenhagen DISEASES for SYN3 Gene

Relevant External Links for SYN3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with SYN3: view

No data available for OMIM , UniProtKB/Swiss-Prot , Novoseek inferred disease relationships and Genatlas for SYN3 Gene

Publications for SYN3 Gene

  1. Association between synapsin III gene promoter SNPs and multiple sclerosis in Basque patients. (PMID: 18755822) Otaegui D. … Lopez de Munain A. (Mult. Scler. 2009) 3 23 48
  2. Association and expression study of synapsin III and schizophrenia. (PMID: 19766700) Chen Q. … Chen X. (Neurosci. Lett. 2009) 3 23 48
  3. A third member of the synapsin gene family. (PMID: 9539796) Kao H.-T. … Greengard P. (Proc. Natl. Acad. Sci. U.S.A. 1998) 2 3 4
  4. A genome annotation-driven approach to cloning the human ORFeome. (PMID: 15461802) Collins J.E. … Dunham I. (Genome Biol. 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for SYN3 Gene

  • Addgene plasmids for SYN3

Sources for SYN3 Gene

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