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    SYT15 synaptotagmin 15 [ Homo sapiens (human) ]

    Gene ID: 83849, updated on 9-Dec-2024

    Summary

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    Official Symbol
    SYT15provided by HGNC
    Official Full Name
    synaptotagmin 15provided by HGNC
    Primary source
    HGNC:HGNC:17167
    See related
    Ensembl:ENSG00000204176 MIM:608081; AllianceGenome:HGNC:17167
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    sytXV; SYT15B; CHR10SYT
    Summary
    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]
    Expression
    Broad expression in lung (RPKM 8.5), lymph node (RPKM 2.1) and 18 other tissues See more
    Orthologs
    all
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    Genomic context

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    See SYT15 in Genome Data Viewer
    Location:
    10q11.22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (46579128..46597108)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (47465488..47482877)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (46955444..46970489, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene neuropeptide Y receptor Y4 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:47033702-47034570 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:47034571-47035439 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:47047925-47048424 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:47057528-47058124 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:47021543-47022511 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:47013295-47013796 Neighboring gene uncharacterized LOC124902419 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:47008064-47008694 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:46992923-46993628 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:46991512-46992217 Neighboring gene G protein regulated inducer of neurite outgrowth 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:46975535-46976296 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:46974774-46975534 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:46974012-46974773 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:46969747-46970624 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:46968867-46969746 Neighboring gene Sharpr-MPRA regulatory regions 2784 and 8617 duplicate 1 Neighboring gene SYT15 antisense RNA 1 Neighboring gene uncharacterized LOC105378289 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:46935581-46936424 Neighboring gene shieldin complex subunit 2 pseudogene 1 Neighboring gene long intergenic non-protein coding RNA 2637 Neighboring gene RHEB pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Synaptotagmins: why so many? Südhof TC. J Biol Chem, 2002 Mar 8. PMID 11739399
    2. Molecular cloning and characterization of human, rat, and mouse synaptotagmin XV. Fukuda M. Biochem Biophys Res Commun, 2003 Jun 20. PMID 12788067
    3. Genomic analysis of synaptotagmin genes. Craxton M. Genomics, 2001 Sep. PMID 11543631
    4. SUMO-specific protease 2 (SENP2) suppresses keratinocyte migration by targeting NDR1 for de-SUMOylation. Xiao N, et al. FASEB J, 2019 Jan. PMID 29969578
    5. Hypermethylation of UCHL1 Promotes Metastasis of Nasopharyngeal Carcinoma by Suppressing Degradation of Cortactin (CTTN). Zhao Y, et al. Cells, 2020 Feb 27. PMID 32120844, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. molecular cloning and structure
      Title: Molecular cloning and characterization of human, rat, and mouse synaptotagmin XV.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables SNARE binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium ion sensor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium-dependent phospholipid binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of calcium ion-dependent exocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in exocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    synaptotagmin-15
    Names
    chr10 synaptotagmin
    synaptotagmin XV
    synaptotagmin XV-a

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_031912.5 → NP_114118.2  synaptotagmin-15 isoform a

      See identical proteins and their annotated locations for NP_114118.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (a) encodes the longer isoform (a).
      Source sequence(s)
      AA878734, AB109022, AJ303363, AL356056, DB158555
      Consensus CDS
      CCDS73103.1
      UniProtKB/Swiss-Prot
      A5D6W8, Q5VY53, Q5VY55, Q7Z439, Q7Z440, Q9BQS2
      UniProtKB/TrEMBL
      A8K2C1
      Related
      ENSP00000363441.4, ENST00000374321.9
      Conserved Domains (2) summary
      cd08390
      Location:149 → 269
      C2A_Synaptotagmin-15-17; C2A domain first repeat present in Synaptotagmins 15 and 17
      cd08409
      Location:279 → 416
      C2B_Synaptotagmin-15; C2 domain second repeat present in Synaptotagmin 15

    2. NM_181519.3 → NP_852660.1  synaptotagmin-15 isoform b

      See identical proteins and their annotated locations for NP_852660.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (b) contains an alternate 3' sequence, compared to variant a. The resulting isoform (b) contains a shorter and distinct C-terminus compared to isoform a.
      Source sequence(s)
      AL356056
      Consensus CDS
      CCDS73104.1
      UniProtKB/TrEMBL
      A8K2C1
      Conserved Domains (2) summary
      cd08390
      Location:149 → 269
      C2A_Synaptotagmin-15-17; C2A domain first repeat present in Synaptotagmins 15 and 17
      cl14603
      Location:279 → 378
      C2; C2 domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      46579128..46597108
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047425825.1 → XP_047281781.1  synaptotagmin-15 isoform X3

      UniProtKB/TrEMBL
      A8K2C1

    2. XM_047425826.1 → XP_047281782.1  synaptotagmin-15 isoform X3

      UniProtKB/TrEMBL
      A8K2C1

    3. XM_047425827.1 → XP_047281783.1  synaptotagmin-15 isoform X3

      UniProtKB/TrEMBL
      A8K2C1

    4. XM_047425828.1 → XP_047281784.1  synaptotagmin-15 isoform X3

      UniProtKB/TrEMBL
      A8K2C1

    5. XM_017016751.3 → XP_016872240.1  synaptotagmin-15 isoform X4

      UniProtKB/TrEMBL
      A8K2C1
      Conserved Domains (2) summary
      cd08390
      Location:149 → 269
      C2A_Synaptotagmin-15-17; C2A domain first repeat present in Synaptotagmins 15 and 17
      cl14603
      Location:279 → 378
      C2; C2 domain

    6. XM_006718011.3 → XP_006718074.1  synaptotagmin-15 isoform X4

      See identical proteins and their annotated locations for XP_006718074.1

      UniProtKB/TrEMBL
      A8K2C1
      Related
      ENSP00000427607.1, ENST00000503753.5
      Conserved Domains (2) summary
      cd08390
      Location:149 → 269
      C2A_Synaptotagmin-15-17; C2A domain first repeat present in Synaptotagmins 15 and 17
      cl14603
      Location:279 → 378
      C2; C2 domain

    7. XM_047425829.1 → XP_047281785.1  synaptotagmin-15 isoform X5

    8. XM_017016750.3 → XP_016872239.1  synaptotagmin-15 isoform X1

      UniProtKB/TrEMBL
      A8K2C1
      Conserved Domains (2) summary
      cd08390
      Location:156 → 276
      C2A_Synaptotagmin-15-17; C2A domain first repeat present in Synaptotagmins 15 and 17
      cd08409
      Location:286 → 423
      C2B_Synaptotagmin-15; C2 domain second repeat present in Synaptotagmin 15

    9. XM_047425830.1 → XP_047281786.1  synaptotagmin-15 isoform X6

      UniProtKB/TrEMBL
      A8K2C1

    10. XM_047425831.1 → XP_047281787.1  synaptotagmin-15 isoform X7

      UniProtKB/TrEMBL
      A8K2C1

    11. XM_047425824.1 → XP_047281780.1  synaptotagmin-15 isoform X2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      47465488..47482877
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054366895.1 → XP_054222870.1  synaptotagmin-15 isoform X3

      UniProtKB/TrEMBL
      A8K2C1

    2. XM_054366894.1 → XP_054222869.1  synaptotagmin-15 isoform X3

      UniProtKB/TrEMBL
      A8K2C1

    3. XM_054366900.1 → XP_054222875.1  synaptotagmin-15 isoform X6

      UniProtKB/TrEMBL
      A8K2C1

    4. XM_054366896.1 → XP_054222871.1  synaptotagmin-15 isoform X4

      UniProtKB/TrEMBL
      A8K2C1

    5. XM_054366897.1 → XP_054222872.1  synaptotagmin-15 isoform X4

      UniProtKB/TrEMBL
      A8K2C1

    6. XM_054366901.1 → XP_054222876.1  synaptotagmin-15 isoform X7

      UniProtKB/TrEMBL
      A8K2C1

    7. XM_054366899.1 → XP_054222874.1  synaptotagmin-15 isoform X5

    8. XM_054366898.1 → XP_054222873.1  synaptotagmin-15 isoform X8

    RNA

    1. XR_008488296.1 RNA Sequence

    2. XR_008488297.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9BQS2.3 GenPept UniProtKB/Swiss-Prot:Q9BQS2
    X6R8R1.1 GenPept UniProtKB/Swiss-Prot:X6R8R1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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