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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
    mouse all
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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

    Gene LinkOut

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