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Syt5 synaptotagmin 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 54309, updated on 4-Jan-2025

Summary

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Official Symbol
Syt5provided by RGD
Official Full Name
synaptotagmin 5provided by RGD
Primary source
RGD:3806
See related
EnsemblRapid:ENSRNOG00000018217 AllianceGenome:RGD:3806
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
SytIX
Summary
Enables calcium-dependent phospholipid binding activity; clathrin binding activity; and syntaxin binding activity. Predicted to be involved in calcium-dependent activation of synaptic vesicle fusion; regulation of calcium ion-dependent exocytosis; and regulation of synaptic vesicle exocytosis. Predicted to be located in neuronal cell body; perinuclear region of cytoplasm; and proximal neuron projection. Predicted to be active in axon; plasma membrane; and secretory vesicle. Orthologous to human SYT5 (synaptotagmin 5). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Brain (RPKM 245.8), Lung (RPKM 34.5) and 1 other tissue See more
Orthologs
human mouse all
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Genomic context

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See Syt5 in Genome Data Viewer
Location:
1q12
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (78320034..78327750)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (69277351..69285071)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (72859806..72867934)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene transmembrane protein 86B Neighboring gene protein tyrosine phosphatase, receptor type, H Neighboring gene uncharacterized LOC108349515 Neighboring gene dynein, axonemal, assembly factor 3 Neighboring gene troponin I3, cardiac type

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Synaptotagmin V: a novel synaptotagmin isoform expressed in rat brain. Craxton M, et al. FEBS Lett, 1995 Mar 20. PMID 7698322
  2. Synaptotagmin V and IX isoforms control Ca2+ -dependent insulin exocytosis. Iezzi M, et al. J Cell Sci, 2004 Jul 1. PMID 15190121
  3. Identification of a nonneuronal isoform of synaptotagmin. Hudson AW, et al. Proc Natl Acad Sci U S A, 1995 Jun 20. PMID 7597049, Free PMC Article
  4. Synaptotagmins I and IX function redundantly in regulated exocytosis but not endocytosis in PC12 cells. Lynch KL, et al. J Cell Sci, 2007 Feb 15. PMID 17264148
  5. Synaptotagmin V is targeted to dense-core vesicles that undergo calcium-dependent exocytosis in PC12 cells. Saegusa C, et al. J Biol Chem, 2002 Jul 5. PMID 12006594

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Syt1 and Syt5 function redundantly in regulated exocytosis but not endocytosis in PC12 cells.
    Title: Synaptotagmins I and IX function redundantly in regulated exocytosis but not endocytosis in PC12 cells.
  2. Syt V is a dense-core vesicle-specific Syt isoform that controls a specific type of Ca2+-regulated secretion
    Title: Synaptotagmin V is targeted to dense-core vesicles that undergo calcium-dependent exocytosis in PC12 cells.
  3. We show that targeting of Syt IX to the ERC involves constitutive trafficking to the plasma membrane followed by internalization and transport to the ERC.
    Title: Classical protein kinase C(s) regulates targeting of synaptotagmin IX to the endocytic recycling compartment.
  4. Syt V and Syt IX are directly involved in the Ca2+ -dependent stimulation of exocytosis [Synaptotagmin IX]
    Title: Synaptotagmin V and IX isoforms control Ca2+ -dependent insulin exocytosis.
  5. Syt IX is involved in regulating transport from the endocytic recycling compartment to the cell surface-( Synaptotagmin IX (Syt IX)
    Title: Synaptotagmin IX, a possible linker between the perinuclear endocytic recycling compartment and the microtubules.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC105442

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables SNARE binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables SNARE binding ISO
Inferred from Sequence Orthology
more info
  
enables calcium ion binding ISO
Inferred from Sequence Orthology
more info
  
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
  
enables calcium-dependent phospholipid binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables calcium-dependent phospholipid binding ISO
Inferred from Sequence Orthology
more info
  
enables clathrin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables phosphatidylinositol-4,5-bisphosphate binding ISO
Inferred from Sequence Orthology
more info
  
enables phosphatidylserine binding ISO
Inferred from Sequence Orthology
more info
  
enables protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables syntaxin binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in calcium-dependent activation of synaptic vesicle fusion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in calcium-ion regulated exocytosis NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in regulation of calcium ion-dependent exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of calcium ion-dependent exocytosis ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synaptic vesicle exocytosis 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
  
is_active_in dense core granule IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in dense core granule ISO
Inferred from Sequence Orthology
more info
  
is_active_in exocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in neuron projection ISO
Inferred from Sequence Orthology
more info
  
located_in neuronal cell body ISO
Inferred from Sequence Orthology
more info
  
is_active_in neuronal dense core vesicle membrane ISO
Inferred from Sequence Orthology
more info
  
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in proximal neuron projection ISO
Inferred from Sequence Orthology
more info
  
located_in recycling endosome membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in synaptic vesicle membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
synaptotagmin-5
Names
synaptotagmin IX
synaptotagmin V
sytV

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_019350.2 → NP_062223.1  synaptotagmin-5

    See identical proteins and their annotated locations for NP_062223.1

    Status: PROVISIONAL

    Source sequence(s)
    BC092198
    UniProtKB/Swiss-Prot
    P47861, Q56A28
    UniProtKB/TrEMBL
    A6KNM3
    Related
    ENSRNOP00000024547.4, ENSRNOT00000024547.6
    Conserved Domains (3) summary
    cd08385
    Location:108 → 230
    C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10
    cd08402
    Location:240 → 374
    C2B_Synaptotagmin-1; C2 domain second repeat present in Synaptotagmin 1
    cl41733
    Location:6 → 76
    Syt1_2_N; N-terminal domain of synaptotagmin-1 and -2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086019.1 Reference GRCr8

    Range
    78320034..78327750
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006228287.5 → XP_006228349.1  synaptotagmin-5 isoform X1

    UniProtKB/TrEMBL
    A6KNM3
    Conserved Domains (2) summary
    cd08385
    Location:108 → 230
    C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10
    cd08402
    Location:239 → 373
    C2B_Synaptotagmin-1; C2 domain second repeat present in Synaptotagmin 1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P47861.1 GenPept UniProtKB/Swiss-Prot:P47861

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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