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Aliases for SYT13 Gene

Aliases for SYT13 Gene

  • Synaptotagmin 13 2 3 5
  • Synaptotagmin XIII 2 3 4
  • SytXIII 3 4
  • Synaptotagmin-13 3
  • KIAA1427 4

External Ids for SYT13 Gene

Previous GeneCards Identifiers for SYT13 Gene

  • GC11M047006
  • GC11P045773
  • GC11M045293
  • GC11M045226
  • GC11M045218
  • GC11M044971

Summaries for SYT13 Gene

Entrez Gene Summary for SYT13 Gene

  • This gene encodes a member of the large synaptotagmin protein family. Family members have an extracellular N-terminal transmembrane domain and a cytoplasmic C terminus with two tandem C2 domains (C2A and C2B). Synaptotogmin family members can form homo- and heteromeric complexes with each other. They also have different biochemical properties and developmental profiles, and patterns of tissue distribution. Synaptotagmins function as membrane traffickers in multicellular organisms. Two alternatively spliced transcript variants that encode different protein isoforms have been described for this gene. [provided by RefSeq, Oct 2011]

GeneCards Summary for SYT13 Gene

SYT13 (Synaptotagmin 13) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding and calcium-dependent phospholipid binding. An important paralog of this gene is SYT12.

UniProtKB/Swiss-Prot for SYT13 Gene

  • May be involved in transport vesicle docking to the plasma membrane.

Gene Wiki entry for SYT13 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SYT13 Gene

Genomics for SYT13 Gene

Regulatory Elements for SYT13 Gene

Enhancers for SYT13 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
GH11G045264 1.1 Ensembl ENCODE 28.1 +20.2 20226 3.7 CTCF MXI1 CBX3 JUN BACH1 CHD4 RAD21 FOSL1 ZNF316 DIDO1 SYT13 ENSG00000254664 LOC101928812 ENSG00000254497
GH11G045178 1.2 ENCODE dbSUPER 24.6 +105.6 105624 3.5 KLF17 SIN3A DMAP1 GLIS2 RCOR1 PCBP1 FOS SP3 SMARCC1 ZNF398 SYT13 ENSG00000254497 LOC101060179 PIR62216
GH11G045154 1.4 Ensembl ENCODE dbSUPER 20.4 +129.0 129025 5.3 NFIB KLF17 DMAP1 ZNF335 GLIS2 FOS EGR2 SP3 ZNF398 NR2F2 SYT13 ENSG00000254497 ENSG00000254664 PIR62216 LOC101060179
GH11G045207 1.2 Ensembl ENCODE dbSUPER 22.2 +76.3 76325 4.3 CTCF MXI1 RFX1 CEBPB TRIM22 CEBPG RBBP5 NR3C1 EP300 RAD21 SYT13 ENSG00000254664 ENSG00000254497 PRDM11 LOC101060179 PIR62216
GH11G045259 0.9 Ensembl ENCODE 29.2 +26.4 26382 1.8 FOSL1 JUND TAF1 JUN USF2 SMARCC2 CEBPB TCF7L2 SYT13 ENSG00000254497
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SYT13 on UCSC Golden Path with GeneCards custom track

Genomic Location for SYT13 Gene

Chromosome:
11
Start:
45,240,301 bp from pter
End:
45,286,333 bp from pter
Size:
46,033 bases
Orientation:
Minus strand

Genomic View for SYT13 Gene

Genes around SYT13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SYT13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SYT13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SYT13 Gene

Proteins for SYT13 Gene

  • Protein details for SYT13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7L8C5-SYT13_HUMAN
    Recommended name:
    Synaptotagmin-13
    Protein Accession:
    Q7L8C5
    Secondary Accessions:
    • A8K4P4
    • D3DQP1
    • Q9BQS3
    • Q9H041
    • Q9P2C0

    Protein attributes for SYT13 Gene

    Size:
    426 amino acids
    Molecular mass:
    46885 Da
    Quaternary structure:
    • Interacts with NRXN1.
    SequenceCaution:
    • Sequence=BAA92665.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SYT13 Gene

neXtProt entry for SYT13 Gene

Post-translational modifications for SYT13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SYT13 Gene

No data available for DME Specific Peptides for SYT13 Gene

Domains & Families for SYT13 Gene

Gene Families for SYT13 Gene

Protein Domains for SYT13 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SYT13 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7L8C5

UniProtKB/Swiss-Prot:

SYT13_HUMAN :
  • The first C2 domain/C2A does not mediate Ca(2+)-dependent phospholipid binding.
  • Belongs to the synaptotagmin family.
Domain:
  • The first C2 domain/C2A does not mediate Ca(2+)-dependent phospholipid binding.
  • The second C2 domain/C2B domain binds phospholipids regardless of whether calcium is present.
Family:
  • Belongs to the synaptotagmin family.
genes like me logo Genes that share domains with SYT13: view

Function for SYT13 Gene

Molecular function for SYT13 Gene

UniProtKB/Swiss-Prot Function:
May be involved in transport vesicle docking to the plasma membrane.

Gene Ontology (GO) - Molecular Function for SYT13 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 SYT13: view
genes like me logo Genes that share phenotypes with SYT13: view

Animal Model Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SYT13 Gene

Localization for SYT13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SYT13 Gene

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 SYT13 gene
Compartment Confidence
plasma membrane 4
extracellular 2
peroxisome 1
endoplasmic reticulum 1
cytosol 1
lysosome 1

Gene Ontology (GO) - Cellular Components for SYT13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IBA --
GO:0005887 integral component of plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0030133 transport vesicle IDA --
genes like me logo Genes that share ontologies with SYT13: view

Pathways & Interactions for SYT13 Gene

SuperPathways for SYT13 Gene

No Data Available

Interacting Proteins for SYT13 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000020926%0d%0a9606.ENSP00000385142%0d%0a
Selected Interacting proteins: ENSP00000020926 Q7L8C5-SYT13_HUMAN for SYT13 Gene via STRING IID

Gene Ontology (GO) - Biological Process for SYT13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006906 vesicle fusion IBA --
GO:0016192 vesicle-mediated transport IEA --
GO:0017158 regulation of calcium ion-dependent exocytosis IBA --
GO:0048791 calcium ion-regulated exocytosis of neurotransmitter IBA --
genes like me logo Genes that share ontologies with SYT13: view

No data available for Pathways by source and SIGNOR curated interactions for SYT13 Gene

Drugs & Compounds for SYT13 Gene

(1) Drugs for SYT13 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with SYT13: view

Transcripts for SYT13 Gene

Unigene Clusters for SYT13 Gene

Synaptotagmin XIII:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SYT13 Gene

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

Relevant External Links for SYT13 Gene

GeneLoc Exon Structure for
SYT13
ECgene alternative splicing isoforms for
SYT13

Expression for SYT13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SYT13 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SYT13 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x8.0), Brain - Cortex (x6.9), Brain - Anterior cingulate cortex (BA24) (x6.5), Brain - Hypothalamus (x4.4), and Brain - Amygdala (x4.2).

Protein differential expression in normal tissues from HIPED for SYT13 Gene

This gene is overexpressed in Frontal cortex (42.2) and Fetal Brain (26.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SYT13 Gene



Protein tissue co-expression partners for SYT13 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SYT13 Gene:

SYT13

SOURCE GeneReport for Unigene cluster for SYT13 Gene:

Hs.436643

mRNA Expression by UniProt/SwissProt for SYT13 Gene:

Q7L8C5-SYT13_HUMAN
Tissue specificity: Expressed in brain, pancreas and kidney.

Evidence on tissue expression from TISSUES for SYT13 Gene

  • Nervous system(4.7)
genes like me logo Genes that share expression patterns with SYT13: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for SYT13 Gene

Orthologs for SYT13 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SYT13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SYT13 34 35
  • 99.22 (n)
dog
(Canis familiaris)
Mammalia SYT13 34 35
  • 90.77 (n)
cow
(Bos Taurus)
Mammalia SYT13 34 35
  • 89.83 (n)
mouse
(Mus musculus)
Mammalia Syt13 34 16 35
  • 87.17 (n)
rat
(Rattus norvegicus)
Mammalia Syt13 34
  • 86.46 (n)
oppossum
(Monodelphis domestica)
Mammalia SYT13 35
  • 83 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SYT13 35
  • 78 (a)
OneToOne
chicken
(Gallus gallus)
Aves SYT13 35
  • 67 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SYT13 35
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia syt13 34
  • 57.01 (n)
zebrafish
(Danio rerio)
Actinopterygii syt13 34 35
  • 55.23 (n)
Dr.17253 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 26 (a)
OneToOne
Species where no ortholog for SYT13 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for SYT13 Gene

ENSEMBL:
Gene Tree for SYT13 (if available)
TreeFam:
Gene Tree for SYT13 (if available)

Paralogs for SYT13 Gene

Paralogs for SYT13 Gene

genes like me logo Genes that share paralogs with SYT13: view

Variants for SYT13 Gene

Sequence variations from dbSNP and Humsavar for SYT13 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs1000008936 -- 45,247,560(+) AATGA(A/G)GTCTG intron-variant
rs1000096367 -- 45,286,792(+) ATGGG(A/T)TGTTT upstream-variant-2KB
rs1000148865 -- 45,281,966(+) CCAAT(C/T)CTTTA intron-variant
rs1000183804 -- 45,282,389(+) AACAG(C/T)TGGAA intron-variant
rs1000315083 -- 45,241,289(+) TATAT(G/T)AATAT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for SYT13 Gene

Variant ID Type Subtype PubMed ID
esv3388585 CNV insertion 20981092
nsv305 CNV insertion 18451855

Variation tolerance for SYT13 Gene

Residual Variation Intolerance Score: 22.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.25; 24.93% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SYT13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SYT13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SYT13 Gene

Disorders for SYT13 Gene

Relevant External Links for SYT13

Genetic Association Database (GAD)
SYT13
Human Genome Epidemiology (HuGE) Navigator
SYT13
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SYT13

No disorders were found for SYT13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SYT13 Gene

Publications for SYT13 Gene

  1. Characterization of KIAA1427 protein as an atypical synaptotagmin (Syt XIII). (PMID: 11171101) Fukuda M. … Mikoshiba K. (Biochem. J. 2001) 2 3 22 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. Re-expression of tumorigenicity after attenuation of human synaptotagmin 13 in a suppressed microcell hybrid cell line. (PMID: 18202767) Jahn J.E. … Coleman W.B. (Int. J. Oncol. 2008) 3 22 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. Genomic analysis of synaptotagmin genes. (PMID: 11543631) Craxton M.A. (Genomics 2001) 3 4 64

Products for SYT13 Gene

Sources for SYT13 Gene

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