Syt3 synaptotagmin 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Syt3provided by RGD
Official Full Name: synaptotagmin 3provided by RGD
Primary source: RGD:3805
See related: EnsemblRapid:ENSRNOG00000019318 AllianceGenome:RGD:3805
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: SIII
Summary: Enables clathrin binding activity; phospholipid binding activity; and syntaxin binding activity. Involved in positive regulation of vesicle fusion; regulation of calcium ion-dependent exocytosis; and response to calcium ion. Is active in synaptic membrane. Orthologous to human SYT3 (synaptotagmin 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 85.2), Heart (RPKM 12.8) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q22

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (104017341..104032046)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (94880835..94895518)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (100379236..100407862)

Chromosome 1 - NC_086019.1 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
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?

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

UniSTS:225321 (e-PCR)
- UniSTS:225321

AI385753 (e-PCR)
- UniSTS:179564

Syt3 (e-PCR), detects polymorphism
- UniSTS:507262

D1Bda19 (e-PCR)
- UniSTS:239766

RH94511 (e-PCR)
- UniSTS:119759

AI060159 (e-PCR)
- UniSTS:248830

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 calcium ion binding	TAS Traceable Author Statement more info	PubMed
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 identical protein binding	ISO Inferred from Sequence Orthology more info
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 protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization 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-ion regulated exocytosis	TAS Traceable Author Statement more info	PubMed
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of dendrite extension	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of dendrite extension	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of vesicle fusion	IDA Inferred from Direct Assay 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 postsynaptic membrane neurotransmitter receptor levels	ISO Inferred from Sequence Orthology more info
involved_in response to calcium ion	IDA Inferred from Direct Assay more info	PubMed
involved_in synaptic vesicle exocytosis	TAS Traceable Author Statement more info	PubMed
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in endosome	ISO Inferred from Sequence Orthology more info
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info
located_in presynapse	IEA Inferred from Electronic Annotation more info
is_active_in synaptic membrane	EXP Inferred from Experiment more info	PubMed
is_active_in synaptic membrane	IDA Inferred from Direct Assay more info	PubMed
located_in transport vesicle membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: synaptotagmin-3

Names: synaptotagmin III; sytIII

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_019122.1 → NP_061995.1 synaptotagmin-3

See identical proteins and their annotated locations for NP_061995.1

Status: PROVISIONAL

Source sequence(s)

D28512

UniProtKB/Swiss-Prot

P40748, Q925B7

UniProtKB/TrEMBL

B1AC44

Conserved Domains (2) summary

cd08385
Location:297 → 422

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

cd08403
Location:431 → 565

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10

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_086019.1 Reference GRCr8

Range

104017341..104032046

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282293.1 → XP_063138363.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7
XM_039102286.2 → XP_038958214.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7, B1AC44

Conserved Domains (2) summary

cd08385
Location:297 → 422

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

cd08403
Location:431 → 565

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_063282281.1 → XP_063138351.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7

Related

ENSRNOP00000026251.2, ENSRNOT00000026251.6
XM_039102263.2 → XP_038958191.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7, B1AC44

Conserved Domains (2) summary

cd08385
Location:297 → 422

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

cd08403
Location:431 → 565

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_039102277.1 → XP_038958205.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7, B1AC44

Conserved Domains (2) summary

cd08385
Location:297 → 422

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

cd08403
Location:431 → 565

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_006228979.5 → XP_006229041.1 synaptotagmin-3 isoform X1

See identical proteins and their annotated locations for XP_006229041.1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7, B1AC44

Conserved Domains (2) summary

cd08385
Location:297 → 422

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

cd08403
Location:431 → 565

C2B_Synaptotagmin-3-5-6-9-10; C2 domain second repeat present in Synaptotagmins 3, 5, 6, 9, and 10
XM_063282299.1 → XP_063138369.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7
XM_063282307.1 → XP_063138377.1 synaptotagmin-3 isoform X1

UniProtKB/TrEMBL

A0A0G2JSR2, A6JAN7