Stx3 syntaxin 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Stx3provided by RGD
Official Full Name: syntaxin 3provided by RGD
Primary source: RGD:621005
See related: Ensembl:ENSRNOG00000021013 AllianceGenome:RGD:621005
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: Stx3a
Summary: Enables SNAP receptor activity and arachidonic acid binding activity. Involved in membrane fusion and neuron projection development. Located in growth cone and plasma membrane. Part of SNARE complex. Human ortholog(s) of this gene implicated in congenital diarrhea. Orthologous to human STX3 (syntaxin 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 72.7), Thymus (RPKM 59.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (217940697..218114865, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (208617018..208686240, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (228137781..228195004, complement)

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?

Kv2.1 forms reservoir clusters on the beta-cell plasma membrane and binds Syn-3 via its C-terminal C1b domain, which recruits newcomer insulin secretory granules into this large reservoir.
Title: K(v)2.1 clusters on β-cell plasma membrane act as reservoirs that replenish pools of newcomer insulin granule through their interaction with syntaxin-3.
Munc18-2 and STX3 perform distinct, but complementary, functions to support, respectively, SG translocation and membrane fusion in mast cells.
Title: Munc18-2 and syntaxin 3 control distinct essential steps in mast cell degranulation.
Data showv that complexin 2 interacts with vesicle-associated membrane protein (VAMP) 2, syntaxins 3 and 4.
Title: Complexin 2 modulates vesicle-associated membrane protein (VAMP) 2-regulated zymogen granule exocytosis in pancreatic acini.
syntaxin 3 interacts with CFTR in vivo.
Title: Syntaxin 3 is necessary for cAMP- and cGMP-regulated exocytosis of CFTR: implications for enterotoxigenic diarrhea.
results suggest that complexin II regulates degranulation by interacting with the SNARE complex containing syntaxin-3.
Title: Complexin II regulates degranulation in RBL-2H3 cells by interacting with SNARE complex containing syntaxin-3.
Report interactions between syntaxin 3 and aquaporins in inner medullary collecting ducts.
Title: Syntaxin specificity of aquaporins in the inner medullary collecting duct.
syntaxin 2 cycles between the plasma membrane and the perinuclear compartment whereas syntaxin 3 cycles between the plasma membrane and the trans-Golgi network
Title: Localization of plasma membrane t-SNAREs syntaxin 2 and 3 in intracellular compartments.
Munc18-2 interacting with syntaxin-3 regulates mast cell degranulation positively during the process of membrane fusion between secretory granules and plasma membrane.
Title: Munc18-2 regulates exocytotic membrane fusion positively interacting with syntaxin-3 in RBL-2H3 cells.
This demonstrates a spatial separation between these two types of complexes and suggests that Munc18-2 acts in a step different from SNARE complex formation and fusion.
Title: Munc18-2/syntaxin3 complexes are spatially separated from syntaxin3-containing SNARE complexes.
Deletion analysis showed that the syntaxin-2/3 (or Munc18-1/2)-binding site is a linker domain of Slp4-a.
Title: Slp4-a/granuphilin-a interacts with syntaxin-2/3 in a Munc18-2-dependent manner.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D1Got205 (e-PCR)
- UniSTS:116062

RH138992 (e-PCR)
- UniSTS:221078

RH139783 (e-PCR)
- UniSTS:221867

BE121305 (e-PCR)
- UniSTS:248061

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SNAP receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables SNAP receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables SNAP receptor activity	IEA Inferred from Electronic Annotation more info
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables arachidonic acid binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in exocytic insertion of neurotransmitter receptor to postsynaptic membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in exocytic insertion of neurotransmitter receptor to postsynaptic membrane	IEA Inferred from Electronic Annotation more info
involved_in exocytic insertion of neurotransmitter receptor to postsynaptic membrane	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within exocytosis	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in intracellular transport	TAS Traceable Author Statement more info	PubMed
involved_in long-term synaptic potentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in membrane fusion	IDA Inferred from Direct Assay more info	PubMed
involved_in modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in neuron projection development	IDA Inferred from Direct Assay more info	PubMed
involved_in organelle membrane fusion	ISO Inferred from Sequence Orthology more info
involved_in organelle membrane fusion	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of chemotaxis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to cell surface	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein localization to cell surface	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to plasma membrane	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
involved_in synaptic vesicle docking	TAS Traceable Author Statement more info	PubMed
involved_in synaptic vesicle fusion to presynaptic active zone membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle docking	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vesicle fusion	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	TAS Traceable Author Statement more info	PubMed
involved_in vesicle-mediated transport in synapse	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of SNARE complex	IBA Inferred from Biological aspect of Ancestor more info
part_of SNARE complex	IDA Inferred from Direct Assay more info	PubMed
part_of SNARE complex	IEA Inferred from Electronic Annotation more info
part_of SNARE complex	ISO Inferred from Sequence Orthology more info
located_in Schaffer collateral - CA1 synapse	IEA Inferred from Electronic Annotation more info
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	IEA Inferred from Electronic Annotation more info
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in azurophil granule	IEA Inferred from Electronic Annotation more info
located_in azurophil granule	ISO Inferred from Sequence Orthology more info
located_in cell-cell junction	IEA Inferred from Electronic Annotation more info
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
located_in dendrite	IEA Inferred from Electronic Annotation more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
is_active_in endomembrane system	IBA Inferred from Biological aspect of Ancestor more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in lamellipodium	IEA Inferred from Electronic Annotation more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in melanosome	IEA Inferred from Electronic Annotation more info
located_in melanosome	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in photoreceptor cell terminal bouton	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	IEA Inferred from Electronic Annotation more info
located_in photoreceptor inner segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor inner segment	ISS Inferred from Sequence or Structural Similarity more info
located_in photoreceptor outer segment	IEA Inferred from Electronic Annotation more info
located_in photoreceptor outer segment	ISO Inferred from Sequence Orthology more info
located_in photoreceptor outer segment	ISS Inferred from Sequence or Structural Similarity more info
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
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info	PubMed
is_active_in postsynapse	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynapse	IEA Inferred from Electronic Annotation more info
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info
is_active_in presynaptic active zone membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in ribbon synapse	ISO Inferred from Sequence Orthology more info
located_in secretory granule	ISO Inferred from Sequence Orthology more info
located_in specific granule	IEA Inferred from Electronic Annotation more info
located_in specific granule	ISO Inferred from Sequence Orthology more info
located_in synapse	ISO Inferred from Sequence Orthology more info
is_active_in synaptic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in synaptic vesicle	ISO Inferred from Sequence Orthology more info
located_in zymogen granule membrane	IEA Inferred from Electronic Annotation more info
is_active_in zymogen granule membrane	ISO Inferred from Sequence Orthology more info
located_in zymogen granule membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: syntaxin-3

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_031124.3 → NP_112386.1 syntaxin-3

See identical proteins and their annotated locations for NP_112386.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/Swiss-Prot

Q08849

UniProtKB/TrEMBL

A0A8I5ZL11, B4F7E6

Related

ENSRNOP00000028535.4, ENSRNOT00000028535.6

Conserved Domains (2) summary

pfam00804
Location:32 → 226

Syntaxin

cl22856
Location:194 → 260

SNARE; SNARE motif

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

217940697..218114865 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063275258.1 → XP_063131328.1 syntaxin-3 isoform X1
XM_063275275.1 → XP_063131345.1 syntaxin-3 isoform X8
XM_039092292.2 → XP_038948220.1 syntaxin-3 isoform X7

UniProtKB/TrEMBL

A0A8I6AGY3

Conserved Domains (2) summary

pfam00804
Location:32 → 226

Syntaxin

cl22856
Location:194 → 260

SNARE; SNARE motif
XM_006231097.5 → XP_006231159.1 syntaxin-3 isoform X5

See identical proteins and their annotated locations for XP_006231159.1

UniProtKB/TrEMBL

A0A8I5ZRD1, A6I0B2, A6I0B3

Related

ENSRNOP00000079624.1

Conserved Domains (2) summary

pfam00804
Location:32 → 226

Syntaxin

cl22856
Location:194 → 260

SNARE; SNARE motif
XM_017589775.3 → XP_017445264.1 syntaxin-3 isoform X6

UniProtKB/TrEMBL

A6I0B5

Related

ENSRNOP00000097922.1
XM_008760263.4 → XP_008758485.1 syntaxin-3 isoform X3

UniProtKB/TrEMBL

A0A8I6AGY3, A0A8I6AS91

Related

ENSRNOP00000097210.1

Conserved Domains (3) summary

cd00179
Location:32 → 181

SynN; Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may ...

cd15881
Location:190 → 257

SNARE_syntaxin3; SNARE motif of syntaxin 3

pfam00804
Location:32 → 226

Syntaxin; Syntaxin
XM_063275266.1 → XP_063131336.1 syntaxin-3 isoform X4

UniProtKB/Swiss-Prot

Q08849

UniProtKB/TrEMBL

B4F7E6
XM_008760262.4 → XP_008758484.1 syntaxin-3 isoform X2

Conserved Domains (3) summary

cd00179
Location:32 → 181

SynN; Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may ...

pfam00804
Location:32 → 226

Syntaxin; Syntaxin

cl22856
Location:190 → 258

SNARE; SNARE motif