Syt1 synaptotagmin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Syt1provided by RGD
Official Full Name: synaptotagmin 1provided by RGD
Primary source: RGD:3803
See related: EnsemblRapid:ENSRNOG00000006426 AllianceGenome:RGD:3803
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: P65
Summary: Enables several functions, including calcium ion sensor activity; phospholipid binding activity; and syntaxin binding activity. Involved in several processes, including detection of calcium ion; positive regulation of dopamine secretion; and regulation of vesicle-mediated transport. Located in several cellular components, including excitatory synapse; neuron projection terminus; and secretory vesicle. Is active in several cellular components, including hippocampal mossy fiber to CA3 synapse; postsynaptic cytosol; and presynaptic cytosol. Biomarker of visual epilepsy. Orthologous to human SYT1 (synaptotagmin 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 991.0) See more
Orthologs: human mouse all
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Genomic context

Location:: 7q21

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (45699649..46244460, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (43813204..44358020, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (50084063..50638996, complement)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Synaptotagmin-1 is a bidirectional Ca(2+) sensor for neuronal endocytosis.
Title: Synaptotagmin-1 is a bidirectional Ca(2+) sensor for neuronal endocytosis.
Synaptotagmin-1-, Munc18-1-, and Munc13-1-dependent liposome fusion with a few neuronal SNAREs.
Title: Synaptotagmin-1-, Munc18-1-, and Munc13-1-dependent liposome fusion with a few neuronal SNAREs.
Downregulation of Synaptotagmin 1 in the Prelimbic Cortex Drives Alcohol-Associated Behaviors in Rats.
Title: Downregulation of Synaptotagmin 1 in the Prelimbic Cortex Drives Alcohol-Associated Behaviors in Rats.
Synergistic roles of Synaptotagmin-1 and complexin in calcium-regulated neuronal exocytosis.
Title: Synergistic roles of Synaptotagmin-1 and complexin in calcium-regulated neuronal exocytosis.
Conserved arginine residues in synaptotagmin 1 regulate fusion pore expansion through membrane contact.
Title: Conserved arginine residues in synaptotagmin 1 regulate fusion pore expansion through membrane contact.
Ca(2+)-dependent release of synaptotagmin-1 from the SNARE complex on phosphatidylinositol 4,5-bisphosphate-containing membranes.
Title: Ca(2+)-dependent release of synaptotagmin-1 from the SNARE complex on phosphatidylinositol 4,5-bisphosphate-containing membranes.
Synaptotagmin 1 Is Involved in Neuropathic Pain and Electroacupuncture-Mediated Analgesic Effect.
Title: Synaptotagmin 1 Is Involved in Neuropathic Pain and Electroacupuncture-Mediated Analgesic Effect.
Phosphatidylinositol 4,5 Bisphosphate Controls the cis and trans Interactions of Synaptotagmin 1.
Title: Phosphatidylinositol 4,5 Bisphosphate Controls the cis and trans Interactions of Synaptotagmin 1.
During assembly of synaptic vesicle (SV) fusion pores, the major Ca2+ sensor for SV exocytosis, synaptotagmin 1(syt1), directly regulates the occurrence, size, and dynamics of fusion pores by promoting SNARE zippering into a functionally committed state. Syt1-PIP2 interactions stabilize fusion pores and Ca2+-syt1 commits trans-SNARE complexes.
Title: Resolving kinetic intermediates during the regulated assembly and disassembly of fusion pores.
a point mutation on synaptotagmin, located outside of the BoNT/B-binding segment, inhibited GT1b binding and blocked GT1b-induced potentiation of BoNT/B binding to synaptotagmin-expressing cells.
Title: Gangliosides interact with synaptotagmin to form the high-affinity receptor complex for botulinum neurotoxin B.

Submit: New GeneRIF Correction See all GeneRIFs (100)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Syt1 (e-PCR), detects polymorphism
- UniSTS:546590

AW530700 (e-PCR)
- UniSTS:244555

RH94645 (e-PCR)
- UniSTS:119892

RH78549 (e-PCR)
- UniSTS:63327

BE107999 (e-PCR)
- UniSTS:247143

Syt1 (e-PCR), detects polymorphism
- UniSTS:507257

Syt1 (e-PCR), detects polymorphism
- UniSTS:498326

RH137968 (e-PCR)
- UniSTS:220055

D37792 (e-PCR)
- UniSTS:124827

RH140034 (e-PCR)
- UniSTS:222116

RH138239 (e-PCR)
- UniSTS:220326

D7Got157 (e-PCR)
- UniSTS:113325

d7rat106 (e-PCR)
- UniSTS:122303

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables SNARE binding	IDA Inferred from Direct Assay more info	PubMed
enables SNARE binding	IPI Inferred from Physical Interaction more info	PubMed
enables calcium ion binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium ion binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables calcium ion binding	ISO Inferred from Sequence Orthology more info
enables calcium ion binding	TAS Traceable Author Statement more info	PubMed
enables calcium ion sensor activity	EXP Inferred from Experiment more info	PubMed
enables calcium ion sensor activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion sensor activity	ISO Inferred from Sequence Orthology 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 calcium-dependent protein binding	IDA Inferred from Direct Assay more info	PubMed
enables calcium-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables calmodulin binding	IDA Inferred from Direct Assay more info	PubMed
enables clathrin binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	EXP Inferred from Experiment more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables lipid binding	ISO Inferred from Sequence Orthology more info
enables low-density lipoprotein particle receptor binding	ISO Inferred from Sequence Orthology more info
enables molecular condensate scaffold activity	EXP Inferred from Experiment more info	PubMed
enables molecular condensate scaffold activity	IDA Inferred from Direct Assay more info	PubMed
enables phosphatidylinositol-4,5-bisphosphate binding	IDA Inferred from Direct Assay more info	PubMed
enables phosphatidylserine binding	IDA Inferred from Direct Assay more info	PubMed
enables phospholipid binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables syntaxin binding	IDA Inferred from Direct Assay more info	PubMed
enables syntaxin binding	IPI Inferred from Physical Interaction more info	PubMed
enables syntaxin-1 binding	IDA Inferred from Direct Assay more info	PubMed
enables syntaxin-1 binding	IPI Inferred from Physical Interaction more info	PubMed
enables syntaxin-1 binding	ISO Inferred from Sequence Orthology more info
enables syntaxin-3 binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within calcium ion-regulated exocytosis of neurotransmitter	ISO Inferred from Sequence Orthology more info
involved_in calcium-dependent activation of synaptic vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium-dependent activation of synaptic vesicle fusion	ISO Inferred from Sequence Orthology more info
involved_in calcium-ion regulated exocytosis	TAS Traceable Author Statement more info	PubMed
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cellular response to calcium ion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in detection of calcium ion	IC Inferred by Curator more info	PubMed
involved_in detection of calcium ion	IDA Inferred from Direct Assay more info	PubMed
involved_in fast, calcium ion-dependent exocytosis of neurotransmitter	ISO Inferred from Sequence Orthology more info
involved_in fast, calcium ion-dependent exocytosis of neurotransmitter	ISS Inferred from Sequence or Structural Similarity more info
involved_in membraneless organelle assembly	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within neurotransmitter secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of calcium ion-dependent exocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of calcium ion-dependent exocytosis of neurotransmitter	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of calcium ion-dependent exocytosis of neurotransmitter	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of dendrite extension	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dopamine secretion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of synaptic transmission	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of vesicle fusion	IDA Inferred from Direct Assay more info	PubMed
involved_in protein heterooligomerization	IPI Inferred from Physical Interaction 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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of calcium ion-dependent exocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of dopamine secretion	ISO Inferred from Sequence Orthology more info
involved_in regulation of regulated secretory pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of synaptic transmission, glutamatergic	ISO Inferred from Sequence Orthology more info
involved_in regulation of synaptic transmission, glutamatergic	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of synaptic vesicle exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of synaptic vesicle exocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of vesicle fusion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to calcium ion	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within spontaneous neurotransmitter secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within synaptic vesicle exocytosis	ISO Inferred from Sequence Orthology more info
involved_in synaptic vesicle exocytosis	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within synchronous neurotransmitter secretion	ISO Inferred from Sequence Orthology more info
involved_in vesicle docking	IDA Inferred from Direct Assay more info	PubMed
involved_in vesicle docking	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle fusion	IDA Inferred from Direct Assay more info	PubMed
involved_in vesicle fusion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle organization	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	ISO Inferred from Sequence Orthology more info
located_in chromaffin granule membrane	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in dense core granule	IBA Inferred from Biological aspect of Ancestor more info
located_in dense core granule	IDA Inferred from Direct Assay more info	PubMed
located_in dense core granule	ISO Inferred from Sequence Orthology more info
located_in excitatory synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in hippocampal mossy fiber to CA3 synapse	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuron projection terminus	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic cytosol	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic active zone	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in secretory granule	IDA Inferred from Direct Assay more info	PubMed
located_in secretory granule	ISO Inferred from Sequence Orthology more info
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in synaptic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in synaptic vesicle membrane	ISO Inferred from Sequence Orthology more info
located_in synaptic vesicle membrane	TAS Traceable Author Statement more info	PubMed
located_in terminal bouton	HDA more info	PubMed

General protein information

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Preferred Names: synaptotagmin-1

Names: synaptotagmin I; sytI

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)

NM_001033680.2 → NP_001028852.2 synaptotagmin-1

See identical proteins and their annotated locations for NP_001028852.2

Status: VALIDATED

Source sequence(s)

AA924659, AJ617621, CB615786, CB731032, CO398869

UniProtKB/Swiss-Prot

P21707, Q3S2E6, Q707P5

UniProtKB/TrEMBL

A6IGE2

Related

ENSRNOP00000049624.2, ENSRNOT00000048880.4

Conserved Domains (3) summary

cd08385
Location:142 → 264

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08402
Location:273 → 408

C2B_Synaptotagmin-1; C2 domain second repeat present in Synaptotagmin 1

cd21963
Location:5 → 112

Syt1_N; N-terminal domain of synaptotagmin-1 (Syt1) and similar proteins

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

NC_086025.1 Reference GRCr8

Range

45699649..46244460 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008765353.4 → XP_008763575.2 synaptotagmin-1 isoform X2

UniProtKB/TrEMBL

A6IGE2

Conserved Domains (3) summary

cd08385
Location:139 → 261

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08402
Location:270 → 405

C2B_Synaptotagmin-1; C2 domain second repeat present in Synaptotagmin 1

cd21963
Location:5 → 112

Syt1_N; N-terminal domain of synaptotagmin-1 (Syt1) and similar proteins
XM_063263065.1 → XP_063119135.1 synaptotagmin-1 isoform X3
XM_017594679.3 → XP_017450168.1 synaptotagmin-1 isoform X1

UniProtKB/Swiss-Prot

P21707, Q3S2E6, Q707P5

UniProtKB/TrEMBL

A6IGE2

Conserved Domains (3) summary

cd08385
Location:142 → 264

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08402
Location:273 → 408

C2B_Synaptotagmin-1; C2 domain second repeat present in Synaptotagmin 1

cd21963
Location:5 → 112

Syt1_N; N-terminal domain of synaptotagmin-1 (Syt1) and similar proteins
XM_063263063.1 → XP_063119133.1 synaptotagmin-1 isoform X2
XM_063263062.1 → XP_063119132.1 synaptotagmin-1 isoform X2
XM_039078497.2 → XP_038934425.1 synaptotagmin-1 isoform X1

UniProtKB/Swiss-Prot

P21707, Q3S2E6, Q707P5

UniProtKB/TrEMBL

A6IGE2

Conserved Domains (3) summary

cd08385
Location:142 → 264

C2A_Synaptotagmin-1-5-6-9-10; C2A domain first repeat present in Synaptotagmins 1, 5, 6, 9, and 10

cd08402
Location:273 → 408

C2B_Synaptotagmin-1; C2 domain second repeat present in Synaptotagmin 1

cd21963
Location:5 → 112

Syt1_N; N-terminal domain of synaptotagmin-1 (Syt1) and similar proteins
XM_063263064.1 → XP_063119134.1 synaptotagmin-1 isoform X2