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SYT15 synaptotagmin 15 [ Homo sapiens (human) ]

Gene ID: 83849, updated on 11-Apr-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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Location:
10q11.22
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (46579128..46597108)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (47465488..47482877)
105.20220307 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 (12) 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)

Genotypes

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 binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium-dependent phospholipid binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables clathrin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables phosphatidylserine binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in calcium-ion regulated exocytosis 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_2023_10

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

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

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

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

  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

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

  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

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

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

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

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

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

  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

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