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SYT4 synaptotagmin 4 [ Homo sapiens (human) ]

Gene ID: 6860, updated on 8-Dec-2022

Summary

Official Symbol
SYT4provided by HGNC
Official Full Name
synaptotagmin 4provided by HGNC
Primary source
HGNC:HGNC:11512
See related
Ensembl:ENSG00000132872 MIM:600103; AllianceGenome:HGNC:11512
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
HsT1192
Summary
Predicted to enable several functions, including calcium ion binding activity; phospholipid binding activity; and syntaxin binding activity. Involved in negative regulation of catecholamine secretion and positive regulation of dendrite extension. Predicted to be located in several cellular components, including microvesicle; perinuclear region of cytoplasm; and secretory vesicle. Predicted to be active in several cellular components, including axon; exocytic vesicle; and glutamatergic synapse. Predicted to be integral component of neuronal dense core vesicle membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in brain (RPKM 34.8), adrenal (RPKM 10.3) and 1 other tissue See more
Orthologs
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Genomic context

See SYT4 in Genome Data Viewer
Location:
18q12.3
Exon count:
4
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (43267892..43277490, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (43459665..43469261, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (40847857..40857455, complement)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 907 Neighboring gene uncharacterized LOC124904351 Neighboring gene Ras like without CAAX 2 Neighboring gene uncharacterized LOC105372088 Neighboring gene uncharacterized LOC105372087 Neighboring gene RNA, U6 small nuclear 443, pseudogene

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
Web-based genome-wide association study identifies two novel loci and a substantial genetic component for Parkinson's disease.
EBI GWAS Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of synaptotagmin IV (SYT4) by siRNA enhances the early stages of HIV-1 replication in HeLa-CD4 cells infected with viral pseudotypes HIV89.6R and HIV8.2N PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1342

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables SNARE binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables calcium-dependent phospholipid binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables clathrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables phosphatidylserine binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in calcium ion-regulated exocytosis of neurotransmitter IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to calcium ion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in dense core granule cytoskeletal transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in memory IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of calcium ion-dependent exocytosis NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of catecholamine secretion IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in negative regulation of protein secretion IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of retrograde trans-synaptic signaling by neuropeptide IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of short-term neuronal synaptic plasticity IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of synaptic vesicle exocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in neurotransmitter secretion IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of calcium ion-dependent exocytosis NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of dendrite extension IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of dense core granule exocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of glutamate secretion IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of calcium ion-dependent exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of dopamine secretion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of endocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of postsynaptic dense core vesicle exocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of trans-synaptic signaling by BDNF, modulating synaptic transmission IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of vesicle fusion IEA
Inferred from Electronic Annotation
more info
 
involved_in vesicle fusion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi membrane NAS
Non-traceable Author Statement
more info
PubMed 
located_in astrocyte projection IEA
Inferred from Electronic Annotation
more info
 
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in dendrite IEA
Inferred from Electronic Annotation
more info
 
located_in dense core granule membrane NAS
Non-traceable Author Statement
more info
PubMed 
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
located_in microvesicle IEA
Inferred from Electronic Annotation
more info
 
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
 
located_in neuronal dense core vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in neuronal dense core vesicle membrane IEA
Inferred from Electronic Annotation
more info
 
located_in perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in synaptic vesicle membrane NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
synaptotagmin-4
Names
synaptotagmin IV
sytIV

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_020783.4NP_065834.1  synaptotagmin-4

    See identical proteins and their annotated locations for NP_065834.1

    Status: VALIDATED

    Source sequence(s)
    AB037763, AI912792, BC036538, BM311221, DB483932
    Consensus CDS
    CCDS11922.1
    UniProtKB/Swiss-Prot
    Q9H2B2, Q9P2K4
    Related
    ENSP00000255224.2, ENST00000255224.8
    Conserved Domains (2) summary
    cd08388
    Location:153279
    C2A_Synaptotagmin-4-11; C2A domain first repeat present in Synaptotagmins 4 and 11
    cd08404
    Location:288423
    C2B_Synaptotagmin-4; C2 domain second repeat present in Synaptotagmin 4

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    43267892..43277490 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    43459665..43469261 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)