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

SYT15 Gene

protein-coding   GIFtS: 45
GCID: GC10M046955

synaptotagmin XV

 Explore 1 disease affiliated with
SYT15 via our new
 Human Malady Compendium 
Biological research products
for SYT15
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Synaptotagmin XV1 2 3     Synaptotagmin-151
CHR10SYT1 2     SytXV3
Chr10 Synaptotagmin2     Chr10Syt3
Synaptotagmin XV-A2     SytXV3

External Ids:    HGNC: 171671   Entrez Gene: 838492   Ensembl: ENSG000002041767   OMIM: 6080815   UniProtKB: Q9BQS23   

Export aliases for SYT15 gene to outside databases

Previous GC identifers: GC10U900263 GC10M046339 GC10M046378 GC10M042810


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

Entrez Gene summary for SYT15:
This gene encodes a member of the Synaptotagmin (Syt) family of membrane trafficking proteins. Members of this family
contain a transmembrane region and a C-terminal-type tandem C2 domain. Unlike related family members, the encoded
protein may be involved in membrane trafficking in non-neuronal tissues. Two trancript variants encoding distinct
isoforms have been identified for this gene. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: SYT15_HUMAN, Q9BQS2
Function: May be involved in the trafficking and exocytosis of secretory vesicles in non-neuronal tissues (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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NC_018921.1  NT_031847.8  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SYT15 gene promoter:
         RFX1   USF1   AML1a   GATA-2   E2F-1   E2F   USF-1   STAT3   c-Myb   En-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSYT15 promoter sequence
   Search SABiosciences Chromatin IP Primers for SYT15

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SYT15


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

Entrez Gene cytogenetic band: 10q11.1   Ensembl cytogenetic band:  10q11.22   HGNC cytogenetic band: 10q11.1

SYT15 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SYT15 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10M046955:  view genomic region     (about GC identifiers)

Start:
46,955,444 bp from pter      End:
46,971,400 bp from pter
Size:
15,957 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: SYT15_HUMAN, Q9BQS2 (See protein sequence)
Recommended Name: Synaptotagmin-15  
Size: 421 amino acids; 47375 Da
Subunit: Homodimer (By similarity)
Subcellular location: Isoform 1: Cell membrane; Single-pass type III membrane protein (By similarity)
Subcellular location: Isoform 2: Cell membrane; Single-pass type III membrane protein (By similarity)
Subcellular location: Isoform 4: Cell membrane; Single-pass type III membrane protein (By similarity)
Secondary accessions: A5D6W8 Q5VY53 Q5VY55 Q7Z439 Q7Z440
Alternative splicing: 4 isoforms:  Q9BQS2-1   Q9BQS2-2   Q9BQS2-3   Q9BQS2-4   

Explore the universe of human proteins at neXtProt for SYT15: NX_Q9BQS2

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BQS2

  • SYT15 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_114118.2  NP_852660.1  

    ENSEMBL proteins: 
     ENSP00000363448   ENSP00000427607   ENSP00000363443   ENSP00000363441   ENSP00000424803  
     ENSP00000363445  

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    Uscn Proteins for SYT15

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000299integral to membrane of membrane fraction ----
    GO:0005886plasma membrane IEA--
    GO:0008021synaptic vesicle ----
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--


    SYT15 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    SYT15 for domains           About GeneDecksing

    3 InterPro domains/families:
     IPR008973 C2_Ca/lipid-bd_dom_CaLB
     IPR018029 C2_membr_targeting
     IPR000008 C2_Ca-dep

    Graphical View of Domain Structure for InterPro Entry Q9BQS2

    ProtoNet protein and cluster: Q9BQS2

    2 Blocks protein families:
    IPB000008 C2 domain
    IPB000595 Cyclic nucleotide-binding domain


    UniProtKB/Swiss-Prot: SYT15_HUMAN, Q9BQS2
    Domain: Neither C2 domains mediates Ca(2+)-dependent or -independent phospholipid binding (By similarity)
    Similarity: Belongs to the synaptotagmin family
    Similarity: Contains 2 C2 domains


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: SYT15_HUMAN, Q9BQS2
    Function: May be involved in the trafficking and exocytosis of secretory vesicles in non-neuronal tissues (By
    similarity)

    miRNA
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    Inhib. RNA
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005215transporter activity ----


    SYT15 for ontologies           About GeneDecksing



    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SYT15

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for SYT15 (ENSP000003634414) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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 SYT15
    Search CenterWatch for drugs/clinical trials and news about SYT15 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SYT15 gene (2 alternative transcripts): 
    NM_031912.4  NM_181519.2  

    Unigene Cluster for SYT15:

    Synaptotagmin XV
    Hs.696346  [show with all ESTs]
    Unigene Representative Sequence: NM_031912
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000374328 ENST00000449358 ENST00000503753 ENST00000374323(uc001jea.3 uc001jeb.3 uc010qfp.1)
    ENST00000374321 ENST00000512997 ENST00000374325(uc001jdz.2)

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    hsa-miR-942 hsa-miR-149 hsa-miR-3138 hsa-miR-583
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    Inhib. RNA
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    Additional cDNA sequence: 

    AB109022.1 AB109023.1 AJ303363.1 AK127436.1 AK128634.1 AK131036.1 AK290186.1 AK293632.1 
    BC139914.1 

    15 DOTS entries:

    DT.91945032  DT.75117030  DT.102825061  DT.101965568  DT.121288878  DT.121289001  DT.92036846  DT.99998900 
    DT.121288873  DT.121288950  DT.302919  DT.121289181  DT.437615  DT.91677843  DT.97801736 

    24/30 AceView cDNA sequences (see all 30):

    CA425176 AJ303363 NM_031912 NM_181519 AK131036 AL698054 AB109022 AA776148 
    AB109023 AK128634 BV197806 BV193985 AK130877 AI685755 AI266028 AK127436 
    BV193971 AI971263 BE549611 BX483311 BG546774 BU160363 BG538970 AI796878 

    GeneLoc Exon Structure


    (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

    SYT15 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    SYT15 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    PureStem™ progenitor E69 (Embryonic Progenitor Cell)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See SYT15 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SYT15

    SOURCE GeneReport for Unigene cluster: Hs.696346
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SYT15

    (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 SYT15 gene from 6/15 species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves SYT151 synaptotagmin XV 63.4(n)
    62.2(a)
      423614  XM_421499.3  XP_421499.3 
    lizard
    (Anolis carolinensis)
    Reptilia SYT156
    --
    58(a)
    1 ↔ 1
    GL343199.1(4021987-4038002)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.90572 Transcribed sequence with weak similarity to protein more 75.65(n)    CF784112.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC7980211 synaptotagmin-15-like 54.08(n)
    43.88(a)
      798021  XM_001338439.2  XP_001338475.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Sytalpha6
    Synaptotagmin alpha
    18(a)
    possible ortholog
    2L(17592260-17603640)
    worm
    (Caenorhabditis elegans)
    Secernentea snt-66
    SyNapTotagmin family member (snt-6)
    20(a)
    possible ortholog
    II(745469-750171)


    ENSEMBL Gene Tree for SYT15 (if available)
    TreeFam Gene Tree for SYT15 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SYT15 gene
    SYT42  SYT52  SYT82  SYT92  SYT32  SYT102  SYT62  SYT172  
    SYT112  SYT22  SYT122  SYT72  SYT12  
    12 SIMAP similar genes for SYT15 using alignment to 3 protein entries:     SYT15_HUMAN (see all proteins):
    SYT10    SYT2    SYT7    SYT9    SYTL4    SYT5
    SYT1    DOC2A    SYTL3    CHR11SYT    PIK3C2A    SYT17

    SYT15 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SYT15
    PGOHUM00000258499


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/317 NCBI SNPs in SYT15 are shown (see all 317    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs5283111,2
    C--46954997(-) TGCTGC/ACTTTG 1 -- ds50012Minor allele frequency- A:0.00NA 4
    rs105452411,2
    C,--46955005(+) GCAGA-/GTCGTCTT 1 -- ds50010--------
    rs31277701,2
    C,F--46955073(+) GGGCCG/AAGATA 1 -- ds50012Minor allele frequency- A:0.50NA 4
    rs5046951,2
    C,--46955251(-) CTGAGT/CGTCTG 1 -- ds50012Minor allele frequency- C:0.00NA 4
    rs5046631,2
    --46955257(-) TTCCAA/GCTGAG 1 -- ds50010--------
    rs5045731,2
    --46955290(-) TGCCCG/ATCTAT 1 -- ds50012Minor allele frequency- A:0.00NA 4
    rs1890355211,2
    --46955448(+) GTTTCC/GTGGAG 1 -- ut310--------
    rs31204351,2
    C,F--46955632(+) ATCTAT/CAAGAA 1 -- int14Minor allele frequency- C:0.42NA 12
    rs1923463211,2
    --46955770(+) ACTCTA/GAGCTG 1 -- int10--------
    rs31277721,2
    C,H,--46955833(+) TGGGAA/GGTGGT 1 -- int110Minor allele frequency- G:0.00NS EA NA WA CSA 433

    HapMap Linkage Disequilibrium report for SYT15 (46955444 - 46971400 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 24 variations for SYT15
         15/24 CNVs (see all 24): 34603 9150 8652 48536 3798 8647 65654 8646 34572 34600 34456 48538 4682 48539 4683

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

    SYT15 for disorders           About GeneDecksing

    OMIM gene information: 608081    OMIM disorders: --

    1 disease for SYT15:    About MalaCards
    neuronitis


    Export disorders for SYT15 gene to outside databases

    (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 SYT15 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SYT15)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genomic analysis of synaptotagmin genes. (PubMed id 11543631)1, 2, 3 Craxton M.A. (2001)
    2. Molecular cloning and characterization of human, rat, and mouse synaptotagmin XV. (PubMed id 12788067)1, 2, 9 Fukuda M. (2003)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    6. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    7. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)2 Deloukas P.... Rogers J. (2004)
    8. 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)
    9. Synaptotagmins: why so many? (PubMed id 11739399)1 Sudhof T.C. (2002)

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

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 83849 HGNC: 17167 AceView: SYT15 Ensembl:ENSG00000204176 euGenes: HUgn83849
    ECgene: SYT15 H-InvDB: SYT15

    (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 SYT15 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 SYT15 gene:
    Search GeneIP for patents involving SYT15

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



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    In Situ Hybridization Assays from
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