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Aliases for SYT12 Gene

Aliases for SYT12 Gene

  • Synaptotagmin 12 2 3 5
  • Synaptotagmin XII 2 4
  • SytXII 3 4
  • Synaptotagmin-XII 3
  • Synaptotagmin-12 3
  • SYT11 3

External Ids for SYT12 Gene

Previous GeneCards Identifiers for SYT12 Gene

  • GC11P069308
  • GC11P068455
  • GC11P066549
  • GC11P066566
  • GC11P066530
  • GC11P066791
  • GC11P063117

Summaries for SYT12 Gene

Entrez Gene Summary for SYT12 Gene

  • This gene is a member of the synaptotagmin gene family and encodes a protein similar to other family members that mediate calcium-dependent regulation of membrane trafficking in synaptic transmission. Studies of the orthologous gene in rat have shown that the encoded protein selectively modulates spontaneous synaptic-vesicle exocytosis and may also be involved in regulating calcium independent secretion in nonneuronal cells. Alternative splicing results in multiple transcript variants. The gene has previously been referred to as synaptotagmin XI but has been renamed synaptotagmin XII to be standard with mouse and rat official nomenclature.[provided by RefSeq, Apr 2010]

GeneCards Summary for SYT12 Gene

SYT12 (Synaptotagmin 12) is a Protein Coding gene. Among its related pathways are Transmission across Chemical Synapses and Protein-protein interactions at synapses. Gene Ontology (GO) annotations related to this gene include calcium ion binding and calcium-dependent phospholipid binding. An important paralog of this gene is SYT13.

UniProtKB/Swiss-Prot for SYT12 Gene

  • May be involved in Ca(2+)-dependent exocytosis of secretory vesicles through Ca(2+) and phospholipid binding to the C2 domain or may serve as Ca(2+) sensors in the process of vesicular trafficking and exocytosis.

Additional gene information for SYT12 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYT12 Gene

Genomics for SYT12 Gene

GeneHancer (GH) Regulatory Elements for SYT12 Gene

Promoters and enhancers for SYT12 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11I067021 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 550.4 +15.9 15917 2 PKNOX1 NEUROD1 SIN3A ZNF2 BRCA1 YY1 GLIS2 ZNF143 FOS RXRA SYT12 RHOD PC CTSF MIR6860
GH11I067006 Enhancer 1 Ensembl ENCODE 550.8 -0.1 -93 1.1 HDAC1 ARNT NFRKB YY1 CHAMP1 CBX5 FOS ZNF362 NFYA CAVIN1 SYT12 LOC105369352 ENSG00000258297 RBM14 ENSG00000254461 RBM4 MRPL11 C11orf86
GH11I067025 Promoter/Enhancer 0.7 EPDnew dbSUPER 550.4 +18.8 18787 0.1 SYT12 RHOD RNU7-23P PC MIR6860
GH11I066949 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 11.6 -55.1 -55086 4.3 HDGF PKNOX1 ARID4B SIN3A YY1 FOS DEK SP3 ZHX2 SMARCB1 ACTN3 ENSG00000258297 SYT12 RBM14 ENSG00000254461 RHOD RPS6KB2 LOC101928069 CLCF1 GRK2
GH11I066903 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE dbSUPER 10.7 -100.1 -100140 5.6 FOXA2 ARID4B DMAP1 YY1 FOS RXRA SP5 NFYC REST ZNF623 PC GC11M066908 GC11M066909 C11orf80 RHOD ACTN3 CTSF RIN1 C11orf86 LRFN4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SYT12 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SYT12 gene promoter:

Genomic Locations for SYT12 Gene

Genomic Locations for SYT12 Gene
44,091 bases
Plus strand

Genomic View for SYT12 Gene

Genes around SYT12 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYT12 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYT12 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYT12 Gene

Proteins for SYT12 Gene

  • Protein details for SYT12 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:

    Protein attributes for SYT12 Gene

    421 amino acids
    Molecular mass:
    46537 Da
    Quaternary structure:
    • Homodimer. Can also form heterodimers (By similarity).

neXtProt entry for SYT12 Gene

Post-translational modifications for SYT12 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SYT12 Gene

Domains & Families for SYT12 Gene

Gene Families for SYT12 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SYT12 Gene


Suggested Antigen Peptide Sequences for SYT12 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the synaptotagmin family.
  • Belongs to the synaptotagmin family.
genes like me logo Genes that share domains with SYT12: view

Function for SYT12 Gene

Molecular function for SYT12 Gene

UniProtKB/Swiss-Prot Function:
May be involved in Ca(2+)-dependent exocytosis of secretory vesicles through Ca(2+) and phospholipid binding to the C2 domain or may serve as Ca(2+) sensors in the process of vesicular trafficking and exocytosis.

Phenotypes From GWAS Catalog for SYT12 Gene

Gene Ontology (GO) - Molecular Function for SYT12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IBA --
GO:0005544 calcium-dependent phospholipid binding IBA --
GO:0019905 syntaxin binding IBA --
GO:0030276 clathrin binding IBA --
genes like me logo Genes that share ontologies with SYT12: view
genes like me logo Genes that share phenotypes with SYT12: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SYT12

miRNA for SYT12 Gene

miRTarBase miRNAs that target SYT12

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SYT12 Gene

Localization for SYT12 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYT12 Gene

Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Single-pass membrane protein.

Subcellular locations from

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 SYT12 gene
Compartment Confidence
plasma membrane 4
peroxisome 1
nucleus 1
endoplasmic reticulum 1
cytosol 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SYT12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
GO:0030672 synaptic vesicle membrane IEA --
genes like me logo Genes that share ontologies with SYT12: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SYT12 Gene

Pathways & Interactions for SYT12 Gene

genes like me logo Genes that share pathways with SYT12: view

Pathways by source for SYT12 Gene

Interacting Proteins for SYT12 Gene

STRING Interaction Network Preview (showing 4 interactants - click image to see details)
Selected Interacting proteins: Q8IV01-SYT12_HUMAN ENSP00000377520 for SYT12 Gene via IID STRING

Gene Ontology (GO) - Biological Process for SYT12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006906 vesicle fusion IBA --
GO:0017158 regulation of calcium ion-dependent exocytosis IBA --
GO:0046928 regulation of neurotransmitter secretion IEA --
GO:0048791 calcium ion-regulated exocytosis of neurotransmitter IBA --
GO:0048792 spontaneous exocytosis of neurotransmitter IEA --
genes like me logo Genes that share ontologies with SYT12: view

No data available for SIGNOR curated interactions for SYT12 Gene

Drugs & Compounds for SYT12 Gene

No Compound Related Data Available

Transcripts for SYT12 Gene

Unigene Clusters for SYT12 Gene

Synaptotagmin XII:
Representative Sequences:

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYT12 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b · 12c · 12d · 12e ^ 13 ^ 14 ^ 15 ^ 16
SP1: - - - - - - -
SP2: - -
SP3: - - -
SP4: - - - - -
SP5: - - - -
SP6: -
SP7: - - -

Relevant External Links for SYT12 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SYT12 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYT12 Gene

mRNA differential expression in normal tissues according to GTEx for SYT12 Gene

This gene is overexpressed in Brain - Cerebellum (x7.8), Brain - Cerebellar Hemisphere (x7.4), Brain - Cortex (x4.9), and Brain - Frontal Cortex (BA9) (x4.0).

Protein differential expression in normal tissues from HIPED for SYT12 Gene

This gene is overexpressed in Frontal cortex (36.7) and Cervix (32.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SYT12 Gene

Protein tissue co-expression partners for SYT12 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYT12 Gene:


SOURCE GeneReport for Unigene cluster for SYT12 Gene:


Evidence on tissue expression from TISSUES for SYT12 Gene

  • Nervous system(4.5)
  • Liver(4.1)
genes like me logo Genes that share expression patterns with SYT12: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYT12 Gene

Orthologs for SYT12 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYT12 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SYT12 33 34
  • 99.27 (n)
(Canis familiaris)
Mammalia SYT12 33 34
  • 90.89 (n)
(Bos Taurus)
Mammalia SYT12 33 34
  • 90.82 (n)
(Ornithorhynchus anatinus)
Mammalia SYT12 34
  • 89 (a)
(Rattus norvegicus)
Mammalia Syt12 33
  • 88.12 (n)
(Mus musculus)
Mammalia Syt12 33 16 34
  • 87.97 (n)
(Monodelphis domestica)
Mammalia SYT12 34
  • 78 (a)
(Gallus gallus)
Aves SYT12 33 34
  • 76.38 (n)
(Anolis carolinensis)
Reptilia SYT12 34
  • 74 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia syt12 33
  • 68.56 (n)
(Danio rerio)
Actinopterygii syt12 33 34
  • 68.04 (n)
fruit fly
(Drosophila melanogaster)
Insecta Syt12 34
  • 16 (a)
Species where no ortholog for SYT12 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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 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 SYT12 Gene

Gene Tree for SYT12 (if available)
Gene Tree for SYT12 (if available)

Paralogs for SYT12 Gene

Paralogs for SYT12 Gene

(6) SIMAP similar genes for SYT12 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SYT12: view

Variants for SYT12 Gene

Sequence variations from dbSNP and Humsavar for SYT12 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000099727 -- 67,043,429(+) G/A intron_variant
rs1000106164 -- 67,032,161(+) G/A intron_variant
rs1000129453 -- 67,027,878(+) G/A intron_variant
rs1000133615 -- 67,017,472(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000183626 -- 67,027,680(+) CCCCC/CCCCCC intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SYT12 Gene

Variant ID Type Subtype PubMed ID
dgv1973n54 CNV loss 21841781
nsv1134147 CNV deletion 24896259
nsv555226 CNV gain 21841781
nsv832194 CNV gain+loss 17160897

Variation tolerance for SYT12 Gene

Residual Variation Intolerance Score: 82.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.86; 67.35% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SYT12 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYT12 Gene

Disorders for SYT12 Gene

Additional Disease Information for SYT12

No disorders were found for SYT12 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYT12 Gene

Publications for SYT12 Gene

  1. 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
  2. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  3. An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome. (PMID: 24275569) Bian Y … Zou H (Journal of proteomics 2014) 4 58
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. (PMID: 22658674) Castello A … Hentze MW (Cell 2012) 3 58
  5. Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4. (PMID: 21926972) Psychiatric GWAS Consortium Bipolar Disorder Working Group (Nature genetics 2011) 3 58

Products for SYT12 Gene

Sources for SYT12 Gene

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