Rtn4 reticulon 4 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rtn4provided by MGI
Official Full Name: reticulon 4provided by MGI
Primary source: MGI:MGI:1915835
See related: Ensembl:ENSMUSG00000020458 AllianceGenome:MGI:1915835
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: ASY; NgA; NOGO; NSP-CL; Nogo-A; Nogo-B; Nogo-C; mKIAA0886; mKIAA4153; 1110020G17Rik; C130026I10Rik
Summary: Predicted to enable cadherin binding activity; protein homodimerization activity; and ubiquitin protein ligase binding activity. Involved in several processes, including neurogenesis; positive regulation of leukocyte migration; and vasculogenesis. Acts upstream of or within blastocyst formation; circulatory system development; and regulation of cell growth. Located in several cellular components, including dendritic growth cone; neuronal cell body; and postsynaptic density. Is expressed in several structures, including central nervous system; genitourinary system; limb mesenchyme; sensory organ; and skeletal musculature. Orthologous to human RTN4 (reticulon 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in CNS E18 (RPKM 70.4), frontal lobe adult (RPKM 55.5) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 A3.3; 11 16.79 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (29642898..29694414)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (29692898..29744414)

Chromosome 11 - NC_000077.7 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?

Nogo-B mediates endothelial oxidative stress and inflammation to promote coronary atherosclerosis in pressure-overloaded mouse hearts.
Title: Nogo-B mediates endothelial oxidative stress and inflammation to promote coronary atherosclerosis in pressure-overloaded mouse hearts.
Amino-terminal proteolytic fragment of the axon growth inhibitor Nogo-A (Rtn4A) is upregulated by injury and promotes axon regeneration.
Title: Amino-terminal proteolytic fragment of the axon growth inhibitor Nogo-A (Rtn4A) is upregulated by injury and promotes axon regeneration.
Microglial Nogo delays recovery following traumatic brain injury in mice.
Title: Microglial Nogo delays recovery following traumatic brain injury in mice.
Downregulation of Nogo-B ameliorates cerebral ischemia/reperfusion injury in mice through regulating microglia polarization via TLR4/NF-kappaB pathway.
Title: Downregulation of Nogo-B ameliorates cerebral ischemia/reperfusion injury in mice through regulating microglia polarization via TLR4/NF-kappaB pathway.
Nogo-B deficiency suppresses white adipogenesis by regulating beta-catenin signaling.
Title: Nogo-B deficiency suppresses white adipogenesis by regulating β-catenin signaling.
Inhibition of Nogo-A rescues synaptic plasticity and associativity in APP/PS1 animal model of Alzheimer's disease.
Title: Inhibition of Nogo-A rescues synaptic plasticity and associativity in APP/PS1 animal model of Alzheimer's disease.
Lack of Nogo-B expression ameliorates PPARgamma deficiency-aggravated liver fibrosis by regulating TLR4-NF-kappaB-TNF-alpha axis and macrophage polarization.
Title: Lack of Nogo-B expression ameliorates PPARγ deficiency-aggravated liver fibrosis by regulating TLR4-NF-κB-TNF-α axis and macrophage polarization.
MiR-590-5p inhibits pathological hypertrophy mediated heart failure by targeting RTN4.
Title: MiR-590-5p inhibits pathological hypertrophy mediated heart failure by targeting RTN4.
Myelin-associated proteins are potential diagnostic markers in patients with primary brain tumour.
Title: Myelin-associated proteins are potential diagnostic markers in patients with primary brain tumour.
Nogo-A/S1PR2 Signaling Pathway Inactivation Decreases Microvascular Damage and Enhances Microvascular Regeneration in PDMCI Mice.
Title: Nogo-A/S1PR2 Signaling Pathway Inactivation Decreases Microvascular Damage and Enhances Microvascular Regeneration in PDMCI Mice.

Submit: New GeneRIF Correction See all GeneRIFs (108)

Variation

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Alleles

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

Gene trapped (3) 1 citation
Targeted (9) 1 citation
Endonuclease-mediated (4)

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:236545

RH125900 (e-PCR)
- UniSTS:162624

AA960376 (e-PCR)
- UniSTS:160077

AB049853 (e-PCR)
- UniSTS:480168

RH125740 (e-PCR)
- UniSTS:162496

Rtn4 (e-PCR), detects polymorphism
- UniSTS:547532

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables cadherin binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in axonal fasciculation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axonal fasciculation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within blastocyst formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in brain development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cardiac epithelial to mesenchymal transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell adhesion involved in sprouting angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in cell migration involved in vasculogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to hypoxia	IDA Inferred from Direct Assay more info	PubMed
involved_in central nervous system vasculogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cerebral cortex radial glia-guided migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endoplasmic reticulum organization	ISO Inferred from Sequence Orthology 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	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum tubular network membrane organization	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum tubular network organization	ISO Inferred from Sequence Orthology more info
involved_in intracellular sphingolipid homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in leukocyte migration involved in inflammatory response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in modulation of chemical synaptic transmission	EXP Inferred from Experiment more info	PubMed
involved_in modulation of chemical synaptic transmission	IDA Inferred from Direct Assay more info	PubMed
involved_in modulation of chemical synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of amyloid-beta formation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axon extension	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of axon extension	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axon extension	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in negative regulation of axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection regeneration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of vasculogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within nervous system development	IDA Inferred from Direct Assay more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear pore complex assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERBB3 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Rac protein signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of artery morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of dopamine secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of glial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of hepatocyte proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of macrophage cytokine production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of macrophage migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of mammary gland epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neutrophil migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of toll-like receptor 9 signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein localization to lysosome	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein stabilization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of branching morphogenesis of a nerve	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of branching morphogenesis of a nerve	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of postsynapse assembly	EXP Inferred from Experiment more info	PubMed
involved_in regulation of postsynapse assembly	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in anchoring junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell projection	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum membrane	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info	PubMed
located_in endoplasmic reticulum tubular network	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum tubular network membrane	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in nuclear envelope	ISO Inferred from Sequence Orthology more info
located_in nuclear envelope	ISS Inferred from Sequence or Structural Similarity more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic density membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
located_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: reticulon-4

Names: neurite outgrowth inhibitor

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_024226.4 → NP_077188.1 reticulon-4 isoform C

See identical proteins and their annotated locations for NP_077188.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) uses a different segment for its 5' end, compared to variant 1. The resulting protein (isoform C) has a shorter and distinct N-terminus when it is compared to isoform A.

Source sequence(s)

AK034902, BU698622, BU848611, BY251875

Consensus CDS

CCDS24503.1

UniProtKB/Swiss-Prot

Q99P72

UniProtKB/TrEMBL

Q78NS1

Related

ENSMUSP00000053754.5, ENSMUST00000060992.6

Conserved Domains (1) summary

pfam02453
Location:12 → 176

Reticulon; Reticulon
NM_194051.3 → NP_918940.1 reticulon-4 isoform D

See identical proteins and their annotated locations for NP_918940.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) uses a different segment for its 5' end, compared to variant 1. The resulting protein (isoform D) has a shorter and distinct N-terminus when it is compared to isoform A.

Source sequence(s)

AK034902, AL929371, BC032272, BU698622

Consensus CDS

CCDS24502.1

UniProtKB/Swiss-Prot

Q99P72

Related

ENSMUSP00000099905.2, ENSMUST00000102841.8

Conserved Domains (1) summary

pfam02453
Location:859 → 1023

Reticulon; Reticulon
NM_194052.3 → NP_918941.1 reticulon-4 isoform B1

See identical proteins and their annotated locations for NP_918941.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks one alternate exon in the coding region, compared to variant 1. The resulting protein (isoform B1) is shorter when it is compared to isoform A.

Source sequence(s)

AK034902, AL929371, BU698622

Consensus CDS

CCDS24499.1

UniProtKB/TrEMBL

Q8K3G7

Related

ENSMUSP00000077875.5, ENSMUST00000078830.11

Conserved Domains (1) summary

pfam02453
Location:169 → 333

Reticulon; Reticulon
NM_194053.3 → NP_918942.1 reticulon-4 isoform B2

See identical proteins and their annotated locations for NP_918942.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks two alternate exons in the coding region, compared to variant 1. The resulting protein (isoform B2) is shorter when it is compared to isoform A.

Source sequence(s)

AK034902, AL929371, BU698622

Consensus CDS

CCDS24500.1

UniProtKB/TrEMBL

Q8K3G7

Related

ENSMUSP00000099906.4, ENSMUST00000102842.10

Conserved Domains (1) summary

pfam02453
Location:188 → 352

Reticulon; Reticulon
NM_194054.3 → NP_918943.1 reticulon-4 isoform A

See identical proteins and their annotated locations for NP_918943.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform A).

Source sequence(s)

AK034902, AL929371, BC032272, BU698622

Consensus CDS

CCDS24501.1

UniProtKB/Swiss-Prot

Q5DTK9, Q78NS1, Q7TNB7, Q80W95, Q8BGK7, Q8BGM9, Q8BH78, Q8BHF5, Q8K290, Q8K3G8, Q99P72, Q9CTE3

Related

ENSMUSP00000099907.4, ENSMUST00000102843.10

Conserved Domains (1) summary

pfam02453
Location:975 → 1139

Reticulon; Reticulon