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SYT11 synaptotagmin 11 [ Homo sapiens (human) ]

Gene ID: 23208, updated on 30-Sep-2018

Summary

Official Symbol
SYT11provided by HGNC
Official Full Name
synaptotagmin 11provided by HGNC
Primary source
HGNC:HGNC:19239
See related
Ensembl:ENSG00000132718 MIM:608741; Vega:OTTHUMG00000014105
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

Genomic context

See SYT11 in Genome Data Viewer
Location:
1q22
Exon count:
4
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (155859469..155885199)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (155829260..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 proteasome 26S subunit, non-ATPase 7 pseudogene Neighboring gene Ras like without CAAX 1 Neighboring gene small nucleolar RNA, H/ACA box 80E Neighboring gene KH domain containing 4, pre-mRNA splicing factor

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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

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

Pathways from BioSystems

  • Cargo recognition for clathrin-mediated endocytosis, organism-specific biosystem (from REACTOME)
    Cargo recognition for clathrin-mediated endocytosis, organism-specific biosystemRecruitment of plasma membrane-localized cargo into clathrin-coated endocytic vesicles is mediated by interaction with a variety of clathrin-interacting proteins collectively called CLASPs (clathrin-...
  • Clathrin-mediated endocytosis, organism-specific biosystem (from REACTOME)
    Clathrin-mediated endocytosis, organism-specific biosystemClathrin-mediated endocytosis (CME) is one of a number of process that control the uptake of material from the plasma membrane, and leads to the formation of clathrin-coated vesicles (Pearse et al, 1...
  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • Parkinsons Disease Pathway, organism-specific biosystem (from WikiPathways)
    Parkinsons Disease Pathway, organism-specific biosystemMost people with Parkinson's disease have idiopathic Parkinson's disease (having no specific known cause). A small proportion of cases, however, can be attributed to known genetic factors. Mutations ...
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0080, MGC10881, MGC17226, DKFZp781D015

Gene Ontology Provided by GOA

Function Evidence Code Pubs
SNARE binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
beta-tubulin binding IEA
Inferred from Electronic Annotation
more info
 
NOT calcium ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
NOT calcium-dependent phospholipid binding ISS
Inferred from Sequence or Structural Similarity
more info
 
clathrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
phosphatidylserine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity ISS
Inferred from Sequence or Structural Similarity
more info
 
translation initiation factor binding IEA
Inferred from Electronic Annotation
more info
 
ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
calcium ion regulated exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
calcium ion regulated lysosome exocytosis ISS
Inferred from Sequence or Structural Similarity
more info
 
calcium ion-regulated exocytosis of neurotransmitter IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular response to calcium ion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of clathrin-coated pit assembly IEA
Inferred from Electronic Annotation
more info
 
negative regulation of clathrin-dependent endocytosis IEA
Inferred from Electronic Annotation
more info
 
negative regulation of interleukin-6 secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of membrane invagination IEA
Inferred from Electronic Annotation
more info
 
negative regulation of neurotransmitter secretion TAS
Traceable Author Statement
more info
PubMed 
negative regulation of phagocytosis IEA
Inferred from Electronic Annotation
more info
 
negative regulation of synaptic vesicle endocytosis IEA
Inferred from Electronic Annotation
more info
 
negative regulation of tumor necrosis factor secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma membrane repair ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of protein localization to phagocytic vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
protein homotetramerization ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of defense response to bacterium IEA
Inferred from Electronic Annotation
more info
 
regulation of dopamine secretion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of phagosome maturation IC
Inferred by Curator
more info
 
vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
Schaffer collateral - CA1 synapse IEA
Inferred from Electronic Annotation
more info
 
axon IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
axon ISS
Inferred from Sequence or Structural Similarity
more info
 
cell body IEA
Inferred from Electronic Annotation
more info
 
cell junction IEA
Inferred from Electronic Annotation
more info
 
dendritic spine ISS
Inferred from Sequence or Structural Similarity
more info
 
early phagosome ISS
Inferred from Sequence or Structural Similarity
more info
 
excitatory synapse ISS
Inferred from Sequence or Structural Similarity
more info
 
exocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
inhibitory synapse ISS
Inferred from Sequence or Structural Similarity
more info
 
integral component of presynaptic active zone membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of synaptic vesicle membrane IEA
Inferred from Electronic Annotation
more info
 
lysosome IEA
Inferred from Electronic Annotation
more info
 
neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuron projection IDA
Inferred from Direct Assay
more info
PubMed 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
phagocytic cup IEA
Inferred from Electronic Annotation
more info
 
phagocytic vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
postsynaptic density ISS
Inferred from Sequence or Structural Similarity
more info
 
presynapse ISS
Inferred from Sequence or Structural Similarity
more info
 
presynaptic active zone membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
recycling endosome IEA
Inferred from Electronic Annotation
more info
 
synaptic vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
synaptic vesicle TAS
Traceable Author Statement
more info
PubMed 
terminal bouton IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
synaptotagmin-11
Names
synaptotagmin 12
synaptotagmin XI

NCBI Reference Sequences (RefSeq)

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_152280.4NP_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
    Q9BT88
    Related
    ENSP00000357307.4, OTTHUMP00000015934, ENST00000368324.4, OTTHUMT00000039597
    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: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p12 Primary Assembly

    Range
    155859469..155885199
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017000759.2XP_016856248.1  synaptotagmin-11 isoform X1

  2. XM_005245014.3XP_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
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