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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SYT10 Gene

protein-coding   GIFtS: 45
GCID: GC12M033528

Synaptotagmin X

  Search for SYT10
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Synaptotagmin X1 2 3
Synaptotagmin 102
synaptotagmin-102
sytX2
SytX3

External Ids:    HGNC: 192661   Entrez Gene: 3413592   Ensembl: ENSG000001109757   UniProtKB: Q6XYQ83   

Export aliases for SYT10 gene to outside databases

Previous GC identifers: GC00U906274 GC12M033421 GC12M033419 GC12M033268


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SYT10 Gene: 
SYT10 (synaptotagmin X) is a protein-coding gene. GO annotations related to this gene include transporter activity and protein homodimerization activity. An important paralog of this gene is DOC2B.

UniProtKB/Swiss-Prot: SYT10_HUMAN, Q6XYQ8
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)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000012.11  NC_018923.2  NT_009714.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SYT10 gene promoter:
         SRF   Pbx1a   SRF (504 AA)   p300   FOXD3   CUTL1   YY1   Evi-1   Max   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSYT10 promoter sequence
   Search SABiosciences Chromatin IP Primers for SYT10

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYT10


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 12p11.1   Ensembl cytogenetic band:  12p11.1   HGNC cytogenetic band: 12p11

SYT10 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SYT10 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12M033528:  view genomic region     (about GC identifiers)

Start:
33,527,173 bp from pter      End:
33,592,754 bp from pter
Size:
65,582 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SYT10_HUMAN, Q6XYQ8 (See protein sequence)
Recommended Name: Synaptotagmin-10  
Size: 523 amino acids; 59127 Da
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)
Secondary accessions: Q495U2

Explore the universe of human proteins at neXtProt for SYT10: NX_Q6XYQ8

Explore proteomics data for SYT10 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q6XYQ8

  • SYT10 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SYT10 Protein Expression
    REFSEQ proteins: NP_945343.1  
    ENSEMBL proteins: 
     ENSP00000228567   ENSP00000444577   ENSP00000438691  

    Human Recombinant Protein Products for SYT10: 
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    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SYT10 

    Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008021synaptic vesicle ----
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--
    GO:0030054cell junction IEA--
    GO:0030672synaptic vesicle membrane IEA--

    SYT10 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    SYT: Synaptotagmins

    5 InterPro protein domains:
     IPR008973 C2_Ca/lipid-bd_dom_CaLB
     IPR001565 Synaptotagmin
     IPR018029 C2_membr_targeting
     IPR020477 C2_dom
     IPR000008 C2_Ca-dep

    Graphical View of Domain Structure for InterPro Entry Q6XYQ8

    ProtoNet protein and cluster: Q6XYQ8

    1 Blocks protein domain: IPB000008 C2 domain

    UniProtKB/Swiss-Prot: SYT10_HUMAN, Q6XYQ8
    Similarity: Belongs to the synaptotagmin family
    Similarity: Contains 2 C2 domains


    SYT10 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SYT10_HUMAN, Q6XYQ8
    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)

         Gene Ontology (GO): 5/6 molecular function terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005215transporter activity IEA--
    GO:0005515protein binding ----
    GO:0042802identical protein binding ----
    GO:0042803protein homodimerization activity IEA--
    GO:0046872metal ion binding IEA--
         
    SYT10 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SYT10:
     Decreased Wnt reporter activit 

         2 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Syt10):
     behavior/neurological  normal 

    SYT10 for phenotypes           About GeneDecksing

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for SYT10 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SYT10 
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    SwitchGear 3'UTR luciferase reporter plasmidSYT10 3' UTR sequence
    Inhib. RNA
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section




    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SYT10

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006950response to stress IEA--

    SYT10 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SYT10

    1 HMDB Compound for SYT10    About this table
    CompoundSynonyms CAS #PubMed Ids
    CalciumCa (see all 2)7440-70-2--

    Search CenterWatch for drugs/clinical trials and news about SYT10

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SYT10 gene: 
    NM_198992.3  

    Unigene Cluster for SYT10:

    Synaptotagmin X
    Hs.118703  [show with all ESTs]
    Unigene Representative Sequence: AY198413
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000228567(uc001rll.1 uc009zju.1) ENST00000539102 ENST00000567656
    ENST00000535526
    miRNA
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    hsa-miR-448 hsa-miR-15a hsa-miR-548v hsa-miR-301a hsa-miR-221 hsa-miR-3133 hsa-miR-650 hsa-miR-103a
    SwitchGear 3'UTR luciferase reporter plasmidSYT10 3' UTR sequence
    Inhib. RNA
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    Primer
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SYT10

    Additional mRNA sequence: 

    AY198413.1 BC101024.2 BC101025.1 

    1 DOTS entry:

    DT.101977138 

    5 AceView cDNA sequences:

    BQ787948 AY198413 BQ777247 BX479479 NM_198992 

    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for SYT10    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9
    SP1:                                                      
    SP2:              -     -                                 


    ECgene alternative splicing isoforms for SYT10

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SYT10 expression in normal human tissues (normalized intensities)      SYT10 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TAAAAACTAT
    SYT10 Expression
    About this image


    SYT10 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/5 selected tissues (see all 5) fully expand
     
     Brain (Nervous System)    fully expand to see all 3 entries
             Medulla Oblongata
             brain/hindbrain   
     
     Neural Tube (Nervous System)    fully expand to see all 2 entries
             Metencephalon
     
     Limb (Muscoskeletal System)
             limb/hindlimb   
     
     Gut Tube (Gastrointestinal Tract)
             Definitive endoderm-like cells ( A scalable, suspension protocol for derivation of...
     
     Spinal Cord (Nervous System)

    See SYT10 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.118703

    UniProtKB/Swiss-Prot: SYT10_HUMAN, Q6XYQ8
    Tissue specificity: Expressed only in pancreas, lung and kidney

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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for SYT10 gene from 5/10 species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Syt101 , 5 synaptotagmin X1, 5 87.19(n)1
    92.93(a)1
      15 (44.96 cM)5
    545261  NM_018803.21  NP_061273.11 
     897823935 
    chicken
    (Gallus gallus)
    Aves SYT101 synaptotagmin X 81.55(n)
    88.51(a)
      418129  XM_416361.3  XP_416361.2 
    lizard
    (Anolis carolinensis)
    Reptilia SYT106
    Uncharacterized protein
    86(a)
    1 ↔ 1
    GL343678.1(171178-220237)
    zebrafish
    (Danio rerio)
    Actinopterygii syt101 synaptotagmin X 68.59(n)
    76.54(a)
      564226  NM_001082842.1  NP_001076311.1 
    worm
    (Caenorhabditis elegans)
    Secernentea snt-26
    snt-16
    (see all 3)
    Synaptotagmin-1
    (see all 3)
    34(a)
    32(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    III(786698-793687)
    II(6810963-6816454)


    ENSEMBL Gene Tree for SYT10 (if available)
    TreeFam Gene Tree for SYT10 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SYT10 gene
    DOC2B2  SYT42  SYT52  SYT92  SYT82  SYT32  SYT62  SYT172  
    SYT112  SYT122  SYT22  DOC2A2  SYT72  RPH3A2  SYT12  
    18 SIMAP similar genes for SYT10 using alignment to 4 protein entries:     SYT10_HUMAN (see all proteins):
    SYT6    SYT9    SYT2    SYT1    SYT5    SYT7
    SYT3    PRKCG    SYT11    SYTL2    SYT4    DKFZp434D2429
    SYT12    SYT15    CHR11SYT    RPH3A    SYT17    SYT8

    SYT10 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1405 SNPs in SYT10 are shown (see all 1405)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1120720441,2
    F--33527899(+) TGTCAT/CTCTAT 1 -- ds50012Minor allele frequency- C:0.04CSA WA 120
    rs123097851,2
    F--33528143(+) GCAGAA/TCTGTG 1 -- ds50013Minor allele frequency- T:0.08CSA WA 122
    rs1482129361,2
    --33528178(+) AAAATA/TTTTAC 1 -- ds50010--------
    rs2020912511,2
    C--33528281(-) TTTTTG/TTAAAA 1 -- ds50010--------
    rs1419535461,2
    --33528296(+) AATTTC/TATAAC 1 -- ds50010--------
    rs1461342511,2
    C--33528499(+) ACTTAA/GAAGAA 1 -- ut310--------
    rs1859226151,2
    --33528560(+) ACCTTA/GATCCT 1 -- ut310--------
    rs1891393021,2
    --33528602(+) GGAGGC/TCTGGG 1 -- ut310--------
    rs1401190981,2
    C--33528772(+) TGTGTA/GCAATC 1 -- ut310--------
    rs1810803021,2
    --33528884(+) ATACAC/TGTCAC 1 -- ut310--------

    HapMap Linkage Disequilibrium report for SYT10 (33527173 - 33592754 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 7 variations for SYT10:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv820253CNV Loss19587683
    nsv818908CNV Gain17921354
    esv34883CNV Gain17911159
    nsv832368CNV Gain17160897
    nsv469348CNV Gain19166990
    essv5432CNV CNV17122850
    dgv496e1CNV Complex17122850

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SYT10 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SYT10)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    2. Cloning and characterization of human synaptotagmin 10 gene. (PubMed id 14756426)1, 2 Zhao E.... Mao Y. (2003)
    3. Identification of heart rate-associated loci and their effects on cardiac conduction and rhythm disorders. (PubMed id 23583979)1 den Hoed M....Loos R.J. (2013)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    5. Conserved N-terminal cysteine motif is essential for homo- and heterodimer formation of synaptotagmins III, V, VI, and X. (PubMed id 10531343)1 Fukuda M....Mikoshiba K. (1999)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 341359 HGNC: 19266 AceView: SYT10 Ensembl:ENSG00000110975 euGenes: HUgn341359
    ECgene: SYT10 H-InvDB: SYT10

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SYT10 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SYT10 gene:
    Search GeneIP for patents involving SYT10

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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