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Aliases for SYT4 Gene

Aliases for SYT4 Gene

  • Synaptotagmin 4 2 3 5
  • Synaptotagmin IV 2 3 4
  • SytIV 3 4
  • Synaptotagmin-4 3
  • KIAA1342 4
  • HsT1192 3

External Ids for SYT4 Gene

Previous GeneCards Identifiers for SYT4 Gene

  • GC18M041053
  • GC18M040634
  • GC18M040735
  • GC18M039099
  • GC18M039101
  • GC18M040847
  • GC18M037706

Summaries for SYT4 Gene

GeneCards Summary for SYT4 Gene

SYT4 (Synaptotagmin 4) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding and syntaxin binding. An important paralog of this gene is SYT11.

UniProtKB/Swiss-Prot for SYT4 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 (By similarity). Plays a role in dendrite formation by melanocytes (PubMed:23999003).

Gene Wiki entry for SYT4 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYT4 Gene

Genomics for SYT4 Gene

Regulatory Elements for SYT4 Gene

Enhancers for SYT4 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
GH18G043237 0.4 ENCODE 10.4 +40.5 40540 0.2 FOXA2 SYT4 GC18P043239 GC18P043232
GH18G043320 0.4 FANTOM5 1.8 -42.9 -42902 0.3 ZNF366 SYT4 GC18P043280 GC18M043391
GH18G043276 0.7 ENCODE 0.7 +0.4 380 1.0 ZNF263 CTCF MAZ MXI1 MNT MIER2 REST RAD21 YY1 HDAC2 SYT4 GC18P043239
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYT4 on UCSC Golden Path with GeneCards custom track

Genomic Location for SYT4 Gene

Chromosome:
18
Start:
43,267,878 bp from pter
End:
43,277,650 bp from pter
Size:
9,773 bases
Orientation:
Minus strand

Genomic View for SYT4 Gene

Genes around SYT4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYT4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYT4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYT4 Gene

Proteins for SYT4 Gene

  • Protein details for SYT4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H2B2-SYT4_HUMAN
    Recommended name:
    Synaptotagmin-4
    Protein Accession:
    Q9H2B2
    Secondary Accessions:
    • B4DEU3
    • Q9P2K4

    Protein attributes for SYT4 Gene

    Size:
    425 amino acids
    Molecular mass:
    47958 Da
    Cofactor:
    Name=Ca(2+); Xref=ChEBI:CHEBI:29108;
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA92580.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SYT4 Gene

    Alternative splice isoforms for SYT4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SYT4 Gene

Post-translational modifications for SYT4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYT4 Gene

Antibody Products

No data available for DME Specific Peptides for SYT4 Gene

Domains & Families for SYT4 Gene

Gene Families for SYT4 Gene

Protein Domains for SYT4 Gene

Suggested Antigen Peptide Sequences for SYT4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H2B2

UniProtKB/Swiss-Prot:

SYT4_HUMAN :
  • Belongs to the synaptotagmin family.
Family:
  • Belongs to the synaptotagmin family.
genes like me logo Genes that share domains with SYT4: view

Function for SYT4 Gene

Molecular function for SYT4 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 (By similarity). Plays a role in dendrite formation by melanocytes (PubMed:23999003).

Gene Ontology (GO) - Molecular Function for SYT4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001786 phosphatidylserine binding IEA --
GO:0005509 NOT calcium ion binding IBA --
GO:0005515 protein binding IPI 16189514
GO:0005544 NOT calcium-dependent phospholipid binding IBA --
GO:0017075 syntaxin-1 binding IEA --
genes like me logo Genes that share ontologies with SYT4: view
genes like me logo Genes that share phenotypes with SYT4: view

Animal Models for SYT4 Gene

MGI Knock Outs for SYT4:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SYT4 Gene

Localization for SYT4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYT4 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 SYT4 gene
Compartment Confidence
plasma membrane 5
golgi apparatus 5
extracellular 3
cytosol 3
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for SYT4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005794 Golgi apparatus IEA --
GO:0005886 plasma membrane IDA --
GO:0008021 synaptic vesicle IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SYT4: view

Pathways & Interactions for SYT4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SYT4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006887 exocytosis IEA --
GO:0006906 vesicle fusion IBA --
GO:0007269 neurotransmitter secretion IEA --
GO:0007420 brain development IEA --
GO:0007613 memory IEA --
genes like me logo Genes that share ontologies with SYT4: view

No data available for Pathways by source and SIGNOR curated interactions for SYT4 Gene

Drugs & Compounds for SYT4 Gene

(3) Drugs for SYT4 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0

(4) Additional Compounds for SYT4 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SYT4: view

Transcripts for SYT4 Gene

Unigene Clusters for SYT4 Gene

Synaptotagmin IV:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SYT4 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b · 5c
SP1: -
SP2: - - - - - -
SP3: -
SP4: -
SP5:

Relevant External Links for SYT4 Gene

GeneLoc Exon Structure for
SYT4
ECgene alternative splicing isoforms for
SYT4

Expression for SYT4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYT4 Gene

mRNA differential expression in normal tissues according to GTEx for SYT4 Gene

This gene is overexpressed in Brain - Cerebellar Hemisphere (x11.8), Brain - Cerebellum (x7.7), Brain - Frontal Cortex (BA9) (x5.3), Brain - Hypothalamus (x4.8), and Brain - Anterior cingulate cortex (BA24) (x4.6).

Protein differential expression in normal tissues from HIPED for SYT4 Gene

This gene is overexpressed in Heart (61.9) and Adipocyte (7.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SYT4 Gene



Protein tissue co-expression partners for SYT4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYT4 Gene:

SYT4

SOURCE GeneReport for Unigene cluster for SYT4 Gene:

Hs.8059

mRNA Expression by UniProt/SwissProt for SYT4 Gene:

Q9H2B2-SYT4_HUMAN
Tissue specificity: Expressed in melanocytes (PubMed:23999003). Expressed in brain. Within brain, expression is highest in hippocampus, with substantial levels also detected in amygdala and thalamus (PubMed:23999003).

Evidence on tissue expression from TISSUES for SYT4 Gene

  • Nervous system(5)
  • Adrenal gland(2.3)
genes like me logo Genes that share expression patterns with SYT4: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for SYT4 Gene

Orthologs for SYT4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SYT4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYT4 34 35
  • 99.84 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SYT4 35
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SYT4 34 35
  • 91.92 (n)
oppossum
(Monodelphis domestica)
Mammalia SYT4 35
  • 91 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SYT4 34 35
  • 90.12 (n)
rat
(Rattus norvegicus)
Mammalia Syt4 34
  • 86.12 (n)
mouse
(Mus musculus)
Mammalia Syt4 34 16 35
  • 85.88 (n)
chicken
(Gallus gallus)
Aves SYT4 34 35
  • 80.94 (n)
lizard
(Anolis carolinensis)
Reptilia SYT4 35
  • 64 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia syt4 34
  • 75.16 (n)
Str.9043 34
zebrafish
(Danio rerio)
Actinopterygii syt4 34 35
  • 64.61 (n)
wufj05d11 34
fruit fly
(Drosophila melanogaster)
Insecta SytIV 36
  • 49 (a)
Syt4 35
  • 35 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea T23H2.2 36
  • 38 (a)
snt-4 35
  • 32 (a)
OneToMany
Species where no ortholog for SYT4 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)

Evolution for SYT4 Gene

ENSEMBL:
Gene Tree for SYT4 (if available)
TreeFam:
Gene Tree for SYT4 (if available)

Paralogs for SYT4 Gene

Paralogs for SYT4 Gene

genes like me logo Genes that share paralogs with SYT4: view

Variants for SYT4 Gene

Sequence variations from dbSNP and Humsavar for SYT4 Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type
rs1000122280 -- 43,275,611(+) CCCCC(A/C)AAATC intron-variant
rs1000141691 -- 43,272,358(+) CCTGG(C/G)CCAGA intron-variant
rs1000616580 -- 43,272,078(+) TGGCC(A/T)CACCC intron-variant
rs1000649872 -- 43,277,415(+) GGAAC(A/G)GGGAG utr-variant-5-prime
rs1001336951 -- 43,273,524(+) GACAC(C/T)AAAAT intron-variant

Variation tolerance for SYT4 Gene

Residual Variation Intolerance Score: 40.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.96; 59.80% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYT4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYT4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SYT4 Gene

Disorders for SYT4 Gene

Relevant External Links for SYT4

Genetic Association Database (GAD)
SYT4
Human Genome Epidemiology (HuGE) Navigator
SYT4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYT4

No disorders were found for SYT4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYT4 Gene

Publications for SYT4 Gene

  1. The human synaptotagmin IV gene defines an evolutionary break point between syntenic mouse and human chromosome regions but retains ligand inducibility and tissue specificity. (PMID: 10938284) Ferguson G.D. … Herschman H.R. (J. Biol. Chem. 2000) 3 4 22 64
  2. SYT14L, especially its C2 domain, is involved in regulating melanocyte differentiation. (PMID: 23999003) Yoo J.C. … Yoon T.J. (J. Dermatol. Sci. 2013) 3 4 64
  3. Pharmacogenetics of antipsychotic response in the CATIE trial: a candidate gene analysis. (PMID: 19156168) Need A.C. … Goldstein D.B. (Eur. J. Hum. Genet. 2009) 3 46 64
  4. 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
  5. Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10718198) Nagase T. … Ohara O. (DNA Res. 2000) 3 4 64

Products for SYT4 Gene

Sources for SYT4 Gene

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