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SYT16 synaptotagmin 16 [ Homo sapiens (human) ]

Gene ID: 83851, updated on 2-Nov-2024

Summary

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Official Symbol
SYT16provided by HGNC
Official Full Name
synaptotagmin 16provided by HGNC
Primary source
HGNC:HGNC:23142
See related
Ensembl:ENSG00000139973 MIM:610950; AllianceGenome:HGNC:23142
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SYT14L; syt14r; Strep14; CHR14SYT
Summary
Predicted to enable phospholipid binding activity. Predicted to be located in membrane. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in brain (RPKM 5.2), prostate (RPKM 0.7) and 2 other tissues See more
Orthologs
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Genomic context

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See SYT16 in Genome Data Viewer
Location:
14q23.2
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (61812162..62112825)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (56019035..56320045)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (62278880..62579268)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene HIF1A antisense RNA 3 Neighboring gene hypoxia inducible factor 1 subunit alpha Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5825 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr14:62221703-62222902 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:62223301-62223886 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:62227132-62227876 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:62227877-62228620 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:62228621-62229364 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:62229365-62230108 Neighboring gene HIF1A antisense RNA 2 Neighboring gene small nuclear RNA activating complex polypeptide 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:62298837-62299336 Neighboring gene cytochrome c oxidase subunit 4I1 pseudogene 1 Neighboring gene molybdenum cofactor synthesis 3 pseudogene 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:62396930-62397782 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5826 Neighboring gene NANOG hESC enhancer GRCh37_chr14:62537700-62538201 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8503 Neighboring gene SERTA domain containing 4B, pseudogene Neighboring gene tubulin alpha 1c pseudogene Neighboring gene long intergenic non-protein coding RNA 644

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 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. SYT16 is a prognostic biomarker and correlated with immune infiltrates in glioma: A study based on TCGA data. Chen J, et al. Int Immunopharmacol, 2020 Jul. PMID 32289666
  2. Purification, crystallization and X-ray diffraction analysis of human synaptotagmin 1 C2A-C2B. Montes M, et al. Acta Crystallogr Sect F Struct Biol Cryst Commun, 2006 Sep 1. PMID 16946482, Free PMC Article
  3. A genome-wide association study of self-rated health. Mosing MA, et al. Twin Res Hum Genet, 2010 Aug. PMID 20707712, Free PMC Article
  4. Genome-wide association meta-analysis of human longevity identifies a novel locus conferring survival beyond 90 years of age. Deelen J, et al. Hum Mol Genet, 2014 Aug 15. PMID 24688116, Free PMC Article
  5. Molecular cloning, expression, and characterization of a novel class of synaptotagmin (Syt XIV) conserved from Drosophila to humans. Fukuda M. J Biochem, 2003 May. PMID 12801916

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SYT16 is a prognostic biomarker and correlated with immune infiltrates in glioma: A study based on TCGA data.
    Title: SYT16 is a prognostic biomarker and correlated with immune infiltrates in glioma: A study based on TCGA data.
  2. SYT16 expression is significantly downregulated in human masticatory mucosa during wound healing
    Title: Human gingiva transcriptome during wound healing.
  3. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  4. Human synaptotagmin tandem C2 domains C2A-C2B have been expressed as a glutathione-S-transferase fusion protein in Escherichia coli, purified, and crystallized and the preliminary X-ray analysis reported.
    Title: Purification, crystallization and X-ray diffraction analysis of human synaptotagmin 1 C2A-C2B.
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

EBI GWAS Catalog

Description
A genome-wide association study of self-rated health.
EBI GWAS Catalog
Genome wide association and linkage analyses identified three loci-4q25, 17q23.2, and 10q11.21-associated with variation in leukocyte telomere length: the Long Life Family Study.
EBI GWAS Catalog
Genome-wide association meta-analysis of human longevity identifies a novel locus conferring survival beyond 90 years of age.
EBI GWAS Catalog

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 identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables phospholipid binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 

General protein information

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Preferred Names
synaptotagmin-16
Names
chr14 synaptotagmin
synaptotagmin 14-like protein
synaptotagmin XIV-related protein
synaptotagmin XVI

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_001367650.1 → NP_001354579.1  synaptotagmin-16 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816

  2. NM_001367652.1 → NP_001354581.1  synaptotagmin-16 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816

  3. NM_001367654.1 → NP_001354583.1  synaptotagmin-16 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816

  4. NM_001367656.1 → NP_001354585.1  synaptotagmin-16 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816
    Consensus CDS
    CCDS45121.1
    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8
    Related
    ENSP00000508274.1, ENST00000683842.1
    Conserved Domains (2) summary
    cd08389
    Location:350 → 473
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:506 → 643
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

  5. NM_001367657.1 → NP_001354586.1  synaptotagmin-16 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816

  6. NM_001367659.1 → NP_001354588.1  synaptotagmin-16 isoform 6

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816

  7. NM_001367661.1 → NP_001354590.1  synaptotagmin-16 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816
    Consensus CDS
    CCDS45121.1
    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8
    Conserved Domains (2) summary
    cd08389
    Location:350 → 473
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:506 → 643
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

  8. NM_001367663.1 → NP_001354592.1  synaptotagmin-16 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816
    Consensus CDS
    CCDS45121.1
    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8
    Conserved Domains (2) summary
    cd08389
    Location:350 → 473
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:506 → 643
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

  9. NM_001387087.1 → NP_001374016.1  synaptotagmin-16 isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10), as well as variants 4, 7, and 9, encodes isoform 4.
    Source sequence(s)
    AL137918, AL356018, AL390816
    Consensus CDS
    CCDS45121.1
    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8
    Conserved Domains (2) summary
    cd08389
    Location:350 → 473
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:506 → 643
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

  10. NM_001387088.1 → NP_001374017.1  synaptotagmin-16 isoform 7

    Status: VALIDATED

    Source sequence(s)
    AL137918, AL356018, AL390816
    Conserved Domains (2) summary
    cd08389
    Location:350 → 473
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cl14603
    Location:506 → 541
    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    61812162..62112825
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017021697.3 → XP_016877186.1  synaptotagmin-16 isoform X5

  2. XM_047431804.1 → XP_047287760.1  synaptotagmin-16 isoform X3

  3. XM_024449730.2 → XP_024305498.1  synaptotagmin-16 isoform X7

    Conserved Domains (2) summary
    cd08389
    Location:44 → 167
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:200 → 337
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

  4. XM_024449729.2 → XP_024305497.1  synaptotagmin-16 isoform X7

    Conserved Domains (2) summary
    cd08389
    Location:44 → 167
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:200 → 337
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

  5. XM_047431802.1 → XP_047287758.1  synaptotagmin-16 isoform X1

    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8

  6. XM_047431803.1 → XP_047287759.1  synaptotagmin-16 isoform X1

    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8

  7. XM_024449726.2 → XP_024305494.1  synaptotagmin-16 isoform X2

    Conserved Domains (2) summary
    cd08389
    Location:350 → 473
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cl14603
    Location:506 → 541
    C2; C2 domain

  8. XM_011537227.2 → XP_011535529.2  synaptotagmin-16 isoform X4

  9. XM_011537229.3 → XP_011535531.1  synaptotagmin-16 isoform X6

    Conserved Domains (2) summary
    cd08389
    Location:129 → 252
    C2A_Synaptotagmin-14_16; C2A domain first repeat present in Synaptotagmins 14 and 16
    cd08408
    Location:285 → 422
    C2B_Synaptotagmin-14_16; C2 domain second repeat present in Synaptotagmins 14 and 16

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    56019035..56320045
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054376801.1 → XP_054232776.1  synaptotagmin-16 isoform X5

  2. XM_054376799.1 → XP_054232774.1  synaptotagmin-16 isoform X3

  3. XM_054376804.1 → XP_054232779.1  synaptotagmin-16 isoform X7

  4. XM_054376803.1 → XP_054232778.1  synaptotagmin-16 isoform X7

  5. XM_054376796.1 → XP_054232771.1  synaptotagmin-16 isoform X1

    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8

  6. XM_054376797.1 → XP_054232772.1  synaptotagmin-16 isoform X1

    UniProtKB/Swiss-Prot
    B4DZH2, B7ZL60, C9J8I3, Q17RD7, Q707N2, Q7Z441, Q8IUU0, Q9BQR8

  7. XM_054376798.1 → XP_054232773.1  synaptotagmin-16 isoform X2

  8. XM_054376800.1 → XP_054232775.1  synaptotagmin-16 isoform X4

  9. XM_054376802.1 → XP_054232777.1  synaptotagmin-16 isoform X6

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_031914.2: Suppressed sequence

    Description
    NM_031914.2: This RefSeq has been removed because currently there is insufficient support for the transcript and protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q17RD7.2 GenPept UniProtKB/Swiss-Prot:Q17RD7

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