Human Gene SYT10 (ENST00000228567.7) from GENCODE V44
  Description: Homo sapiens synaptotagmin 10 (SYT10), mRNA. (from RefSeq NM_198992)
Gencode Transcript: ENST00000228567.7
Gencode Gene: ENSG00000110975.8
Transcript (Including UTRs)
   Position: hg38 chr12:33,374,238-33,439,819 Size: 65,582 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg38 chr12:33,376,830-33,439,522 Size: 62,693 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr12:33,374,238-33,439,819)mRNA (may differ from genome)Protein (523 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
PubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Synaptotagmin-10; AltName: Full=Synaptotagmin X; Short=SytX;
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).
COFACTOR: Binds 3 calcium ions per subunit. The ions are bound to the C2 domains (By similarity).
SUBUNIT: Homodimer. Can also form heterodimers with SYT6 (By similarity).
SUBCELLULAR LOCATION: Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Single-pass membrane protein (By similarity).
TISSUE SPECIFICITY: Expressed only in pancreas, lung and kidney.
SIMILARITY: Belongs to the synaptotagmin family.
SIMILARITY: Contains 2 C2 domains.

-  Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1.04 RPKM in Nerve - Tibial
Total median expression: 4.75 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -116.40297-0.392 Picture PostScript Text
3' UTR -545.902592-0.211 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000008 - C2_Ca-dep
IPR008973 - C2_Ca/lipid-bd_dom_CaLB
IPR020477 - C2_dom
IPR018029 - C2_membr_targeting
IPR001565 - Synaptotagmin

Pfam Domains:
PF00168 - C2 domain

ModBase Predicted Comparative 3D Structure on Q6XYQ8
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein SequenceProtein Sequence   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000149 SNARE binding
GO:0001786 phosphatidylserine binding
GO:0005509 calcium ion binding
GO:0005544 calcium-dependent phospholipid binding
GO:0005546 phosphatidylinositol-4,5-bisphosphate binding
GO:0019905 syntaxin binding
GO:0030276 clathrin binding
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding
GO:0046982 protein heterodimerization activity

Biological Process:
GO:0006887 exocytosis
GO:0006906 vesicle fusion
GO:0007268 chemical synaptic transmission
GO:0007608 sensory perception of smell
GO:0017158 regulation of calcium ion-dependent exocytosis
GO:0045956 positive regulation of calcium ion-dependent exocytosis
GO:0048791 calcium ion-regulated exocytosis of neurotransmitter
GO:0016079 synaptic vesicle exocytosis

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030658 transport vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0045202 synapse
GO:0070382 exocytic vesicle
GO:0098793 presynapse

-  Descriptions from all associated GenBank mRNAs
  AY198413 - Homo sapiens synaptotagmin 10 mRNA, complete cds.
BC101024 - Homo sapiens synaptotagmin X, mRNA (cDNA clone MGC:119436 IMAGE:40007421), complete cds.
BC101025 - Homo sapiens synaptotagmin X, mRNA (cDNA clone MGC:119437 IMAGE:40007422), complete cds.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q6XYQ8 (Reactome details) participates in the following event(s):

R-HSA-6794348 NRXNs bind SYTs
R-HSA-6794361 Neurexins and neuroligins
R-HSA-6794362 Protein-protein interactions at synapses
R-HSA-112316 Neuronal System

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000228567.1, ENST00000228567.2, ENST00000228567.3, ENST00000228567.4, ENST00000228567.5, ENST00000228567.6, NM_198992, Q495U2, Q6XYQ8, SYT10_HUMAN, uc001rll.1, uc001rll.2
UCSC ID: ENST00000228567.7
RefSeq Accession: NM_198992
Protein: Q6XYQ8 (aka SYT10_HUMAN or SYTA_HUMAN)
CCDS: CCDS8732.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.