Rtn3 reticulon 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rtn3provided by MGI
Official Full Name: reticulon 3provided by MGI
Primary source: MGI:MGI:1339970
See related: Ensembl:ENSMUSG00000024758 AllianceGenome:MGI:1339970
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: RTN3-A1
Summary: Involved in endoplasmic reticulum tubular network formation. Is active in synapse. Is expressed in several structures, including genitourinary system; nervous system; olfactory epithelium; retina; and vibrissa. Used to study chronic kidney disease. Orthologous to human RTN3 (reticulon 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in cortex adult (RPKM 114.3), frontal lobe adult (RPKM 104.4) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 19 A; 19 5.32 cM

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	19	NC_000085.7 (7403260..7460656, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	19	NC_000085.6 (7425895..7483291, complement)

Chromosome 19 - NC_000085.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Single-cell transcriptomic profiling reveals decreased ER protein Reticulon3 drives the progression of renal fibrosis.
Title: Single-cell transcriptomic profiling reveals decreased ER protein Reticulon3 drives the progression of renal fibrosis.
Lipid overload-induced RTN3 activation leads to cardiac dysfunction by promoting lipid droplet biogenesis.
Title: Lipid overload-induced RTN3 activation leads to cardiac dysfunction by promoting lipid droplet biogenesis.
Reticulons 1 and 3 are essential for axonal growth and synaptic maintenance associated with intellectual development.
Title: Reticulons 1 and 3 are essential for axonal growth and synaptic maintenance associated with intellectual development.
PGRMC1 acts as a size-selective cargo receptor to drive ER-phagic clearance of mutant prohormones.
Title: PGRMC1 acts as a size-selective cargo receptor to drive ER-phagic clearance of mutant prohormones.
RTN3 inhibits RIG-I-mediated antiviral responses by impairing TRIM25-mediated K63-linked polyubiquitination.
Title: RTN3 inhibits RIG-I-mediated antiviral responses by impairing TRIM25-mediated K63-linked polyubiquitination.
RTN3 has roles in inducing obesity and hypertriglyceridemia via interactions with heat shock protein family A (Hsp70) member 5, which then increases sterol regulatory element-binding protein 1c and AMP-activated kinase activity.
Title: Increased Reticulon 3 (RTN3) Leads to Obesity and Hypertriglyceridemia by Interacting With Heat Shock Protein Family A (Hsp70) Member 5 (HSPA5).
RTN3 expression is a mediator of RBM3-induced neuroprotection, controlled by novel mechanisms of escape from translational inhibition on cooling.
Title: RTN3 Is a Novel Cold-Induced Protein and Mediates Neuroprotective Effects of RBM3.
altered RTN3 levels can impact the axonal transport of BACE1 and demonstrate that reducing axonal transport of BACE1 in axons is a viable strategy for decreasing BACE1 in axonal terminals and, perhaps, reducing amyloid deposition.
Title: Increased expression of reticulon 3 in neurons leads to reduced axonal transport of β site amyloid precursor protein-cleaving enzyme 1.
RTN3 negatively regulates autophagy to block the clearance of cytoplasmic PrP aggregates.
Title: Reticulon 3 attenuates the clearance of cytosolic prion aggregates via inhibiting autophagy.
results show that reticulon 3 may play a role in the trafficking of the synaptic adhesion-like molecules family of adhesion molecules
Title: Reticulon 3 is an interacting partner of the SALM family of adhesion molecules.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:237880

AI848741 (e-PCR)
- UniSTS:181187

AW558451 (e-PCR)
- UniSTS:181189

Rtn3 (e-PCR), detects polymorphism
- UniSTS:547531

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
involved_in endoplasmic reticulum tubular network formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in endoplasmic reticulum tubular network formation	IDA Inferred from Direct Assay more info	PubMed
involved_in endoplasmic reticulum tubular network formation	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum tubular network organization	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of amyloid-beta formation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of amyloid-beta formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISS Inferred from Sequence or Structural Similarity more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
is_active_in postsynaptic density	IBA Inferred from Biological aspect of Ancestor more info
is_active_in presynapse	ISO Inferred from Sequence Orthology more info
is_active_in synapse	EXP Inferred from Experiment more info	PubMed
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: reticulon-3

Names: Nsp-like II

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_001003933.2 → NP_001003933.1 reticulon-3 isoform 2

See identical proteins and their annotated locations for NP_001003933.1

Status: VALIDATED

Description

Transcript Variant: This variant (2, also known as RTN3-A2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.

Source sequence(s)

AC129188, AY427822, BY295849

Consensus CDS

CCDS29525.1

UniProtKB/Swiss-Prot

Q9ES97

Related

ENSMUSP00000085496.5, ENSMUST00000088171.12

Conserved Domains (1) summary

pfam02453
Location:757 → 921

Reticulon; Reticulon
NM_001003934.2 → NP_001003934.1 reticulon-3 isoform 1

See identical proteins and their annotated locations for NP_001003934.1

Status: VALIDATED

Description

Transcript Variant: This variant (1, also known as Rtn3-A1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC129188, AY750849, BY295849

Consensus CDS

CCDS37906.1

UniProtKB/Swiss-Prot

Q3UF62, Q544J1, Q68FE4, Q6IM69, Q6R8K6, Q6R8K7, Q6T929, Q8C6D5, Q8CCU2, Q9ES97

Related

ENSMUSP00000065810.6, ENSMUST00000065304.13

Conserved Domains (1) summary

pfam02453
Location:776 → 940

Reticulon; Reticulon
NM_001271486.1 → NP_001258415.1 reticulon-3 isoform 5

See identical proteins and their annotated locations for NP_001258415.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.

Source sequence(s)

AC129188, AK032109, AY427822, BY295849

Consensus CDS

CCDS89331.1

UniProtKB/Swiss-Prot

Q9ES97

Related

ENSMUSP00000158024.2, ENSMUST00000235593.2

Conserved Domains (1) summary

pfam02453
Location:455 → 619

Reticulon; Reticulon
NM_001271487.1 → NP_001258416.1 reticulon-3 isoform 6

See identical proteins and their annotated locations for NP_001258416.1

Status: VALIDATED

Description

Transcript Variant: This variant (6, also known as RTN3-B2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (6) is shorter than isoform 1.

Source sequence(s)

AC129188, AY750849, BY295849

Consensus CDS

CCDS70927.1

UniProtKB/Swiss-Prot

Q9ES97

Related

ENSMUSP00000025667.8, ENSMUST00000025667.14

Conserved Domains (1) summary

pfam02453
Location:68 → 232

Reticulon; Reticulon
NM_053076.3 → NP_444306.1 reticulon-3 isoform 4

See identical proteins and their annotated locations for NP_444306.1

Status: VALIDATED

Description

Transcript Variant: This variant (4, also known as RTN3-B1) lacks two alternate in-frame exons, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.

Source sequence(s)

AC129188, AK036892, BY295849

Consensus CDS

CCDS29526.1

UniProtKB/Swiss-Prot

Q9ES97

Related

ENSMUSP00000085494.7, ENSMUST00000088169.7

Conserved Domains (1) summary

pfam02453
Location:49 → 213

Reticulon

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000085.7 Reference GRCm39 C57BL/6J

Range

7403260..7460656 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017318088.2 → XP_017173577.1 reticulon-3 isoform X1

Conserved Domains (1) summary

pfam02453
Location:48 → 212

Reticulon

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001003930.1: Suppressed sequence

Description

NM_001003930.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.