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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 Transmission across Chemical Synapses and Protein-protein interactions at synapses. Gene Ontology (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

Additional gene information 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

GeneHancer (GH) Regulatory Elements for SYT9 Gene

Promoters and enhancers for SYT9 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
GH11I007251 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 550.4 +13.3 13284 1.4 CTCF MXI1 KLF1 ZNF76 SIN3A ZIC2 HIC1 ZNF335 CTBP1 GLIS2 GC11P007252 SYT9
GH11I007405 Enhancer 0.3 FANTOM5 1.6 +166.3 166346 0.1 NR2F2 OLFML1 SYT9 GC11M007412 GC11M007377
GH11I007281 Enhancer 0.6 ENCODE 0.3 +42.5 42507 0.2 JUND GATA3 ZNF629 SCRT2 CREB1 ZNF600 FOS RCOR1 PRDM1 ZBTB17 GC11P007252 GC11P007311 SYT9
GH11I007436 Enhancer 0.8 Ensembl ENCODE 0.1 +198.0 198009 0.8 ZNF133 ZMYM3 ELF1 GABPA ZNF217 ATF7 ZNF24 ETV6 SPI1 OLFML1 OVCH2 PIR51355 GC11M007412 LOC100506258 SYT9
GH11I007442 Enhancer 0.6 ENCODE 0.1 +204.0 203997 0.2 CTCF PKNOX1 ZNF654 TRIM22 REST RAD21 ZNF143 SMC3 ZNF207 DEK PIR54492 OLFML1 LOC100506258 GC11M007460 SYT9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SYT9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SYT9 gene promoter:

Genomic Locations for SYT9 Gene

Genomic Locations for SYT9 Gene
chr11:7,238,778-7,469,045
(GRCh38/hg38)
Size:
230,268 bases
Orientation:
Plus strand
chr11:7,260,009-7,490,276
(GRCh37/hg19)

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

No Post-translational modifications

No data available for DME Specific Peptides for SYT9 Gene

Domains & Families for SYT9 Gene

Gene Families for SYT9 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SYT9 Gene

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.

Phenotypes From GWAS Catalog for SYT9 Gene

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 IBA,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

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SYT9 Gene

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 IBA,IEA --
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 Approved 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 33 34
  • 99.73 (n)
dog
(Canis familiaris)
Mammalia SYT9 33 34
  • 94.43 (n)
cow
(Bos Taurus)
Mammalia SYT9 33 34
  • 94.1 (n)
mouse
(Mus musculus)
Mammalia Syt9 33 16 34
  • 90.77 (n)
rat
(Rattus norvegicus)
Mammalia Syt9 33
  • 90.29 (n)
oppossum
(Monodelphis domestica)
Mammalia SYT9 34
  • 89 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYT9 33 34
  • 81.09 (n)
lizard
(Anolis carolinensis)
Reptilia SYT9 34
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia syt9 33
  • 75.72 (n)
zebrafish
(Danio rerio)
Actinopterygii syt9b 33 34
  • 69.13 (n)
syt9a 34
  • 66 (a)
OneToMany
sbcb844 33
fruit fly
(Drosophila melanogaster)
Insecta Syt1 34
  • 33 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea snt-3 34
  • 44 (a)
ManyToMany
snt-1 34
  • 34 (a)
ManyToMany
snt-2 34
  • 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 Variation AA Info Type
VAR_036390 A colorectal cancer sample p.Asp445Asn
rs1000001245 -- 7,270,100(+) T/A intron_variant
rs1000051028 -- 7,262,916(+) G/C intron_variant
rs1000053869 -- 7,401,668(+) T/A genic_downstream_transcript_variant, intron_variant
rs1000063979 -- 7,237,845(+) A/T upstream_transcript_variant

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)

Additional Variant Information for SYT9 Gene

Human Gene Mutation Database (HGMD)
SYT9
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: HGMD and DISEASES

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

Additional Disease Information for SYT9

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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 … EUROSPAN consortium (PLoS genetics 2012) 3 44 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. 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
  4. Synaptotagmin IX regulates Ca2+-dependent secretion in PC12 cells. (PMID: 11751925) Fukuda M … Mikoshiba K (The Journal of biological chemistry 2002) 3 22 58
  5. Genomic analysis of synaptotagmin genes. (PMID: 11543631) Craxton M (Genomics 2001) 2 3 58

Products for SYT9 Gene

Sources for SYT9 Gene

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