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Aliases for SYT9 Gene

Aliases for SYT9 Gene

  • Synaptotagmin 9 2 3 5
  • Synaptotagmin IX 2 3 4
  • SytIX 3 4
  • Synaptotagmin-9 3

External Ids for SYT9 Gene

Previous GeneCards Identifiers for SYT9 Gene

  • GC00U906273
  • GC11P007229
  • GC11P007273
  • GC11P006931

Summaries for SYT9 Gene

GeneCards Summary for SYT9 Gene

SYT9 (Synaptotagmin 9) is a Protein Coding gene. Diseases associated with SYT9 include Diabetes Mellitus, Permanent Neonatal. Among its related pathways are Protein-protein interactions at synapses and Vesicle-mediated transport. GO annotations related to this gene include calcium ion binding and transporter activity. An important paralog of this gene is SYT10.

UniProtKB/Swiss-Prot for SYT9 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.

Gene Wiki entry for SYT9 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYT9 Gene

Genomics for SYT9 Gene

Regulatory Elements for SYT9 Gene

Enhancers for SYT9 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH11G007405 0.4 FANTOM5 1.5 +166.3 166347 0.1 NR2F2 OLFML1 SYT9 GC11M007412 GC11M007377
GH11G007251 0.8 ENCODE 0.4 +13.3 13284 1.4 ZNF76 GLIS2 ZNF366 SCRT2 SP3 ZNF398 REST MIER2 ZNF341 ZBTB26 GC11P007252 SYT9
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYT9 on UCSC Golden Path with GeneCards custom track

Genomic Location for SYT9 Gene

Chromosome:
11
Start:
7,238,778 bp from pter
End:
7,469,045 bp from pter
Size:
230,268 bases
Orientation:
Plus strand

Genomic View for SYT9 Gene

Genes around SYT9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYT9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYT9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYT9 Gene

Proteins for SYT9 Gene

  • Protein details for SYT9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86SS6-SYT9_HUMAN
    Recommended name:
    Synaptotagmin-9
    Protein Accession:
    Q86SS6

    Protein attributes for SYT9 Gene

    Size:
    491 amino acids
    Molecular mass:
    56188 Da
    Cofactor:
    Name=Ca(2+); Xref=ChEBI:CHEBI:29108;
    Quaternary structure:
    • Homodimer; disulfide-linked via the cysteine motif. Can also form heterodimers with SYT3, SYT6, SYT7 and SYT10.

neXtProt entry for SYT9 Gene

Post-translational modifications for SYT9 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SYT9 Gene

Domains & Families for SYT9 Gene

Gene Families for SYT9 Gene

Protein Domains for SYT9 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SYT9 Gene

Graphical View of Domain Structure for InterPro Entry

Q86SS6

UniProtKB/Swiss-Prot:

SYT9_HUMAN :
  • The cysteine motif mediates homo- or heterodimer formation via formation of disulfide bonds.
  • Belongs to the synaptotagmin family.
Domain:
  • The cysteine motif mediates homo- or heterodimer formation via formation of disulfide bonds.
Family:
  • Belongs to the synaptotagmin family.
genes like me logo Genes that share domains with SYT9: view

Function for SYT9 Gene

Molecular function for SYT9 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.

Gene Ontology (GO) - Molecular Function for SYT9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001786 phosphatidylserine binding IEA --
GO:0005509 calcium ion binding IBA --
GO:0005544 calcium-dependent phospholipid binding IBA --
GO:0005546 phosphatidylinositol-4,5-bisphosphate binding IEA --
GO:0019905 syntaxin binding IBA --
genes like me logo Genes that share ontologies with SYT9: view
genes like me logo Genes that share phenotypes with SYT9: view

Animal Model Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SYT9 Gene

Localization for SYT9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYT9 Gene

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

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 SYT9 gene
Compartment Confidence
plasma membrane 4
cytosol 3
nucleus 1

Gene Ontology (GO) - Cellular Components for SYT9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030054 cell junction IEA --
GO:0030141 secretory granule IEA --
genes like me logo Genes that share ontologies with SYT9: view

Pathways & Interactions for SYT9 Gene

genes like me logo Genes that share pathways with SYT9: view

Gene Ontology (GO) - Biological Process for SYT9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006906 vesicle fusion IBA --
GO:0017158 regulation of calcium ion-dependent exocytosis IEA,IBA --
GO:0045956 positive regulation of calcium ion-dependent exocytosis IEA --
GO:0048791 calcium ion-regulated exocytosis of neurotransmitter IBA --
GO:0050796 regulation of insulin secretion IEA --
genes like me logo Genes that share ontologies with SYT9: view

No data available for SIGNOR curated interactions for SYT9 Gene

Drugs & Compounds for SYT9 Gene

(1) Drugs for SYT9 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with SYT9: view

Transcripts for SYT9 Gene

Unigene Clusters for SYT9 Gene

Synaptotagmin IX:
Representative Sequences:

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYT9 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10
SP1:
SP2: - - -
SP3: - - - -

Relevant External Links for SYT9 Gene

GeneLoc Exon Structure for
SYT9
ECgene alternative splicing isoforms for
SYT9

Expression for SYT9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYT9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYT9 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x7.2), Brain - Cerebellum (x5.7), and Brain - Spinal cord (cervical c-1) (x4.3).

NURSA nuclear receptor signaling pathways regulating expression of SYT9 Gene:

SYT9

SOURCE GeneReport for Unigene cluster for SYT9 Gene:

Hs.177193

Evidence on tissue expression from TISSUES for SYT9 Gene

  • Nervous system(4.4)
  • Pancreas(2.1)
genes like me logo Genes that share expression patterns with SYT9: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SYT9 Gene

Orthologs for SYT9 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYT9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYT9 34 35
  • 99.73 (n)
dog
(Canis familiaris)
Mammalia SYT9 34 35
  • 94.43 (n)
cow
(Bos Taurus)
Mammalia SYT9 34 35
  • 94.1 (n)
mouse
(Mus musculus)
Mammalia Syt9 34 16 35
  • 90.77 (n)
rat
(Rattus norvegicus)
Mammalia Syt9 34
  • 90.29 (n)
oppossum
(Monodelphis domestica)
Mammalia SYT9 35
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYT9 34 35
  • 81.09 (n)
lizard
(Anolis carolinensis)
Reptilia SYT9 35
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia syt9 34
  • 75.72 (n)
zebrafish
(Danio rerio)
Actinopterygii syt9b 34 35
  • 69.13 (n)
syt9a 35
  • 66 (a)
OneToMany
sbcb844 34
fruit fly
(Drosophila melanogaster)
Insecta Syt1 35
  • 33 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea snt-3 35
  • 44 (a)
ManyToMany
snt-1 35
  • 34 (a)
ManyToMany
snt-2 35
  • 33 (a)
ManyToMany
Species where no ortholog for SYT9 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)
  • platypus (Ornithorhynchus anatinus)
  • 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)

Evolution for SYT9 Gene

ENSEMBL:
Gene Tree for SYT9 (if available)
TreeFam:
Gene Tree for SYT9 (if available)

Paralogs for SYT9 Gene

Paralogs for SYT9 Gene

(15) SIMAP similar genes for SYT9 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with SYT9: view

Variants for SYT9 Gene

Sequence variations from dbSNP and Humsavar for SYT9 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
VAR_036390 A colorectal cancer sample
rs1000001245 -- 7,270,100(+) TTGAC(A/T)GTCTG intron-variant
rs1000051028 -- 7,262,916(+) CAAGG(C/G)TTGTA intron-variant
rs1000053869 -- 7,401,668(+) TCTTG(A/T)CATAA intron-variant
rs1000063979 -- 7,237,845(+) CATGA(A/T)TTGAA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SYT9 Gene

Variant ID Type Subtype PubMed ID
dgv319e212 CNV loss 25503493
dgv57n21 CNV loss 19592680
esv2288433 CNV deletion 18987734
esv23862 CNV gain 19812545
esv2448178 CNV deletion 19546169
esv2450231 CNV insertion 19546169
esv2663215 CNV deletion 23128226
esv2744079 CNV deletion 23290073
esv2759802 CNV loss 17122850
esv3305587 CNV mobile element insertion 20981092
esv3323613 CNV insertion 20981092
esv3547279 CNV deletion 23714750
esv3579331 CNV loss 25503493
esv3579332 CNV loss 25503493
esv3625289 CNV loss 21293372
esv3625291 CNV loss 21293372
nsv1069556 CNV deletion 25765185
nsv1070006 CNV deletion 25765185
nsv1113357 CNV deletion 24896259
nsv467702 CNV gain 19166990
nsv499766 OTHER inversion 21111241
nsv525638 CNV gain 19592680
nsv553405 CNV gain 21841781
nsv7215 OTHER inversion 18451855
nsv958601 CNV deletion 24416366

Variation tolerance for SYT9 Gene

Residual Variation Intolerance Score: 36.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.11; 61.16% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYT9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYT9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYT9 Gene

Disorders for SYT9 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SYT9 Gene - From: DISEASES

Disorder Aliases PubMed IDs
diabetes mellitus, permanent neonatal
  • diabetes, permanent neonatal
- elite association - COSMIC cancer census association via MalaCards
Search SYT9 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SYT9

Genetic Association Database (GAD)
SYT9
Human Genome Epidemiology (HuGE) Navigator
SYT9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYT9
genes like me logo Genes that share disorders with SYT9: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SYT9 Gene

Publications for SYT9 Gene

  1. Genome-wide association study identifies novel loci associated with circulating phospho- and sphingolipid concentrations. (PMID: 22359512) Demirkan A. … Schmitz G. (PLoS Genet. 2012) 3 46 64
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  3. 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 64
  4. Synaptotagmin IX regulates Ca2+-dependent secretion in PC12 cells. (PMID: 11751925) Fukuda M. … Mikoshiba K. (J. Biol. Chem. 2002) 3 22 64
  5. Genomic analysis of synaptotagmin genes. (PMID: 11543631) Craxton M.A. (Genomics 2001) 2 3 64

Products for SYT9 Gene

Sources for SYT9 Gene

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