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    SYT13 synaptotagmin 13 [ Homo sapiens (human) ]

    Gene ID: 57586, updated on 11-Apr-2024

    Summary

    Official Symbol
    SYT13provided by HGNC
    Official Full Name
    synaptotagmin 13provided by HGNC
    Primary source
    HGNC:HGNC:14962
    See related
    Ensembl:ENSG00000019505 MIM:607716; AllianceGenome:HGNC:14962
    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
    Summary
    This gene encodes a member of the large synaptotagmin protein family. Family members have an extracellular N-terminal transmembrane domain and a cytoplasmic C terminus with two tandem C2 domains (C2A and C2B). Synaptotogmin family members can form homo- and heteromeric complexes with each other. They also have different biochemical properties and developmental profiles, and patterns of tissue distribution. Synaptotagmins function as membrane traffickers in multicellular organisms. Two alternatively spliced transcript variants that encode different protein isoforms have been described for this gene. [provided by RefSeq, Oct 2011]
    Expression
    Biased expression in brain (RPKM 27.1), gall bladder (RPKM 14.8) and 7 other tissues See more
    Orthologs
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    Genomic context

    See SYT13 in Genome Data Viewer
    Location:
    11p11.2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (45240302..45286341, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (45397823..45443869, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (45261853..45307892, complement)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376650 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45062883-45063384 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45070929-45071428 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:45072318-45072505 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45096169-45096784 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:45096785-45097399 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3283 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45103805-45104682 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45104683-45105558 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45108817-45109553 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:45122734-45123274 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45123275-45123813 Neighboring gene Sharpr-MPRA regulatory region 3485 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3284 Neighboring gene uncharacterized LOC105376652 Neighboring gene Sharpr-MPRA regulatory region 15340 Neighboring gene PR/SET domain 11 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45149168-45149668 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45149669-45150169 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3286 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3285 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45203073-45203804 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45230951-45231698 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45231699-45232446 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45232447-45233193 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45233771-45234633 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45234634-45235495 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45240557-45241118 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:45241119-45241678 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45265182-45265682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45288476-45288976 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45307287-45308073 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:45320242-45320786 Neighboring gene Sharpr-MPRA regulatory region 11350 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:45368824-45369362 Neighboring gene long intergenic non-protein coding RNA 2696 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:45400447-45400946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:45406257-45406938 Neighboring gene long intergenic non-protein coding RNA 2687

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat FITC-labeled Tat 47-59 peptide downregulates gene expression of synaptotagmin XIII (SYT13) in U-937 macrophages PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA1427

    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
     
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in transport vesicle IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    synaptotagmin-13
    Names
    synaptotagmin XIII
    sytXIII

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001247987.2NP_001234916.1  synaptotagmin-13 isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) contains additional exons in the 5' end, which result in the use of a downstream start codon, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.
      Source sequence(s)
      AC103681, AC103736, AK308841, W45345
      Conserved Domains (2) summary
      cd08407
      Location:144281
      C2B_Synaptotagmin-13; C2 domain second repeat present in Synaptotagmin 13
      cd08677
      Location:16133
      C2A_Synaptotagmin-13; C2 domain
    2. NM_020826.3NP_065877.1  synaptotagmin-13 isoform 1

      See identical proteins and their annotated locations for NP_065877.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer protein (isoform 1).
      Source sequence(s)
      AB037848, AC103681, AC103736, AL512743, BP251101
      Consensus CDS
      CCDS31470.1
      UniProtKB/Swiss-Prot
      A8K4P4, D3DQP1, Q7L8C5, Q9BQS3, Q9H041, Q9P2C0
      Related
      ENSP00000020926.3, ENST00000020926.8
      Conserved Domains (2) summary
      cd08407
      Location:288425
      C2B_Synaptotagmin-13; C2 domain second repeat present in Synaptotagmin 13
      cd08677
      Location:160277
      C2A_Synaptotagmin-13; 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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      45240302..45286341 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047427339.1XP_047283295.1  synaptotagmin-13 isoform X1

    2. XM_047427338.1XP_047283294.1  synaptotagmin-13 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      45397823..45443869 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054369489.1XP_054225464.1  synaptotagmin-13 isoform X1

    2. XM_054369488.1XP_054225463.1  synaptotagmin-13 isoform X1