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    SYT11 synaptotagmin 11 [ Homo sapiens (human) ]

    Gene ID: 23208, updated on 9-Dec-2024

    Summary

    Official Symbol
    SYT11provided by HGNC
    Official Full Name
    synaptotagmin 11provided by HGNC
    Primary source
    HGNC:HGNC:19239
    See related
    Ensembl:ENSG00000132718 MIM:608741; AllianceGenome:HGNC:19239
    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
    SYT12; sytXI
    Summary
    This gene is a member of the synaptotagmin gene family and encodes a protein similar to other family members that are known calcium sensors and mediate calcium-dependent regulation of membrane trafficking in synaptic transmission. The encoded protein is also a substrate for ubiquitin-E3-ligase parkin. The gene has previously been referred to as synaptotagmin XII but has been renamed synaptotagmin XI to be consistent with mouse and rat official nomenclature. [provided by RefSeq, Apr 2010]
    Annotation information
    Note: In 2002, the HUGO Gene Nomenclature Committee (HGNC) changed the official nomenclature of this locus to be standard with mouse and rat official nomenclature. Therefore, the gene previously known as "synaptotagmin XI" (SYT11, GeneID 23208) became "synaptotagmin XII" (SYT12) and "synaptotagmin XII" (SYT12, GeneID 91683) became "synaptotagmin XI" (SYT11). [13 Feb 2013]
    Expression
    Biased expression in brain (RPKM 160.9), adrenal (RPKM 11.8) and 1 other tissue See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See SYT11 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (155859567..155885199)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (154998435..155023315)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (155829358..155854990)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene gon-4 like Neighboring gene small Cajal body-specific RNA 26B Neighboring gene Sharpr-MPRA regulatory region 7686 Neighboring gene proteasome 26S subunit, non-ATPase 7 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1820 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:155827371-155827958 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1821 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1822 Neighboring gene uncharacterized LOC124904686 Neighboring gene Ras like without CAAX 1

    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?

    Phenotypes

    EBI GWAS Catalog

    Description
    Imputation of sequence variants for identification of genetic risks for Parkinson's disease: a meta-analysis of genome-wide association studies.
    EBI GWAS Catalog
    Large-scale meta-analysis of genome-wide association data identifies six new risk loci for Parkinson's disease.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • KIAA0080, MGC10881, MGC17226, DKFZp781D015

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables SNARE binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables beta-tubulin binding IEA
    Inferred from Electronic Annotation
    more info
     
    NOT enables calcium ion binding ISS
    Inferred from Sequence or Structural Similarity
    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
     
    NOT enables calcium-dependent phospholipid binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables identical protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables translation initiation factor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in autophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in calcium ion regulated lysosome exocytosis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in calcium-dependent activation of synaptic vesicle fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in establishment of vesicle localization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in learning ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in memory ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of cytokine production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of dopamine secretion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of endocytosis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of interleukin-6 production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of microglial cell activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of neurotransmitter secretion TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of phagocytosis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of tumor necrosis factor production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in plasma membrane repair ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of protein localization to phagocytic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of calcium ion-dependent exocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of defense response to bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of phagosome maturation IC
    Inferred by Curator
    more info
     
    involved_in regulation of synaptic vesicle endocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in vesicle fusion 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 axon IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in axon ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in clathrin-coated vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in dendrite ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in dendritic spine ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in dopaminergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    located_in early phagosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in excitatory synapse ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in exocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in inhibitory synapse ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in lysosomal membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in lysosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in neuron projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in perikaryon IEA
    Inferred from Electronic Annotation
    more info
     
    located_in phagocytic cup IEA
    Inferred from Electronic Annotation
    more info
     
    located_in phagocytic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in postsynaptic density ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in presynapse ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in presynaptic active zone membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in recycling endosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in recycling endosome membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    NOT located_in synaptic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in synaptic vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in synaptic vesicle TAS
    Traceable Author Statement
    more info
    PubMed 
    located_in trans-Golgi network ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in vesicle ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    synaptotagmin-11
    Names
    synaptotagmin 12
    synaptotagmin XI

    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_152280.5NP_689493.3  synaptotagmin-11

      See identical proteins and their annotated locations for NP_689493.3

      Status: REVIEWED

      Source sequence(s)
      AA824539, AL139128, BC004291, DA239014
      Consensus CDS
      CCDS1122.1
      UniProtKB/Swiss-Prot
      Q14998, Q5W0D4, Q68CT5, Q8IXU3, Q96SU2, Q9BT88
      Related
      ENSP00000357307.4, ENST00000368324.5
      Conserved Domains (2) summary
      cd08388
      Location:158283
      C2A_Synaptotagmin-4-11; C2A domain first repeat present in Synaptotagmins 4 and 11
      cd08404
      Location:292429
      C2B_Synaptotagmin-4; C2 domain second repeat present in Synaptotagmin 4

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      155859567..155885199
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017000759.3XP_016856248.1  synaptotagmin-11 isoform X1

    2. XM_005245014.4XP_005245071.1  synaptotagmin-11 isoform X2

      Conserved Domains (2) summary
      cd08388
      Location:158283
      C2A_Synaptotagmin-4-11; C2A domain first repeat present in Synaptotagmins 4 and 11
      cd08404
      Location:292428
      C2B_Synaptotagmin-4; C2 domain second repeat present in Synaptotagmin 4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      154998435..155023315
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054335376.1XP_054191351.1  synaptotagmin-11 isoform X1

    2. XM_054335377.1XP_054191352.1  synaptotagmin-11 isoform X2