Syt9 synaptotagmin 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Syt9provided by RGD
Official Full Name: synaptotagmin 9provided by RGD
Primary source: RGD:621169
See related: EnsemblRapid:ENSRNOG00000019613 AllianceGenome:RGD:621169
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: Sytv
Summary: Predicted to enable several functions, including calcium ion sensor activity; identical protein binding activity; and phospholipid binding activity. Involved in positive regulation of calcium ion-dependent exocytosis and regulation of insulin secretion. Located in dense core granule. Orthologous to human SYT9 (synaptotagmin 9). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 21.1), Adrenal (RPKM 13.1) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q33

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (170687666..170868146)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (161275882..161456384)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (171592703..171769780)

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?

Syt-9 regulates endogenous APP-CTF and Abeta levels in PC12 cells.
Title: Synaptotagmins interact with APP and promote Aβ generation.
In contrast to PC12 cells and the pancreatic beta cell line INS-1, Syt9 was not immunodetected in large dense-core vesicles in rat chromaffin cells.
Title: Differential distribution of synaptotagmin-1, -4, -7, and -9 in rat adrenal chromaffin cells.
Data show that Syt I produced more rapid dilation of fusion pores than syt VII or syt IX, consistent with its role in synchronous synaptic release.
Title: Regulation of exocytosis and fusion pores by synaptotagmin-effector interactions.
Syt I and Syt IX function redundantly in Ca(2+)-sensing and fusion pore dilation on large dense core vesicles in PC12 cells.
Title: Synaptotagmin I and IX function redundantly in controlling fusion pore of large dense core vesicles.
Syt IX binds directly the small GTPase ARF1 and associates with the clathrin adaptor complex AP-1.
Title: Synaptotagmin (Syt) IX is an essential determinant for protein sorting to secretory granules in mast cells.
Data suggest that synaptotagmin 9 may act as Ca(2+) sensor for beta-cell secretion.
Title: Adenovirus-mediated silencing of synaptotagmin 9 inhibits Ca2+-dependent insulin secretion in islets.

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

D1Rat277 (e-PCR), detects polymorphism
- UniSTS:227093

fb80e06.x1 (e-PCR)
- UniSTS:191561

D1Rat423 (e-PCR), detects polymorphism
- UniSTS:227207

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables SNARE binding	IEA Inferred from Electronic Annotation more info
enables SNARE binding	ISO Inferred from Sequence Orthology 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 identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol-4,5-bisphosphate binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol-4,5-bisphosphate binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylserine binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylserine binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in calcium-dependent activation of synaptic vesicle fusion	IEA Inferred from Electronic Annotation more info
involved_in calcium-dependent activation of synaptic vesicle fusion	ISO Inferred from Sequence Orthology more info
involved_in chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in detection of calcium ion	IC Inferred by Curator more info	PubMed
involved_in positive regulation of calcium ion-dependent exocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
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	IEA Inferred from Electronic Annotation 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 insulin secretion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
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	IEA Inferred from Electronic Annotation 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 hippocampal mossy fiber to CA3 synapse	IEA Inferred from Electronic Annotation more info
is_active_in hippocampal mossy fiber to CA3 synapse	ISO Inferred from Sequence Orthology 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
located_in secretory granule	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle membrane	IEA Inferred from Electronic Annotation more info
is_active_in synaptic vesicle membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: synaptotagmin-9

Names: synaptogamin V; synaptotagmin 5; synaptotagmin IX; synaptotagmin V; sytIX

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_053324.1 → NP_445776.1 synaptotagmin-9

See identical proteins and their annotated locations for NP_445776.1

Status: PROVISIONAL

Source sequence(s)

AF375461

UniProtKB/Swiss-Prot

Q62748, Q925C0

UniProtKB/TrEMBL

A0A8L2QF44, A6I7R8

Related

ENSRNOP00000083409.2, ENSRNOT00000119170.2

Conserved Domains (2) summary

cd08403
Location:354 → 487

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

cl14603
Location:221 → 345

C2; C2 domain