RTN4 reticulon 4 [Homo sapiens (human)] - Gene

Summary

Official Symbol: RTN4provided by HGNC
Official Full Name: reticulon 4provided by HGNC
Primary source: HGNC:HGNC:14085
See related: Ensembl:ENSG00000115310 MIM:604475; AllianceGenome:HGNC:14085
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: ASY; NSP; NOGO; RTN-X; NSP-CL; RTN4-A; RTN4-C; RTN4-B1; RTN4-B2; NI220/250; Nbla00271; Nbla10545
Summary: This gene belongs to the family of reticulon encoding genes. Reticulons are associated with the endoplasmic reticulum, and are involved in neuroendocrine secretion or in membrane trafficking in neuroendocrine cells. The product of this gene is a potent neurite outgrowth inhibitor which may also help block the regeneration of the central nervous system in higher vertebrates. Alternatively spliced transcript variants derived both from differential splicing and differential promoter usage and encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]
Expression: Ubiquitous expression in fat (RPKM 122.1), brain (RPKM 104.7) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 2p16.1

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	2	NC_000002.12 (54972189..55137831, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	2	NC_060926.1 (54969379..55135031, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	2	NC_000002.11 (55199325..55364967, complement)

Chromosome 2 - NC_000002.12 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: Tissue-specific circular RNA induction during human fetal development
Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
BioProject: PRJNA270632
Publication: PMID 26076956
Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

How does Nogo-A signalling influence mitochondrial function during multiple sclerosis pathogenesis?
Title: How does Nogo-A signalling influence mitochondrial function during multiple sclerosis pathogenesis?
RTN3 and RTN4: Architects of SARS-CoV-2 replication organelles.
Title: RTN3 and RTN4: Architects of SARS-CoV-2 replication organelles.
Association of RTN4 indel polymorphisms with the risk of tumorigenesis in the Chinese Han population.
Title: Association of RTN4 indel polymorphisms with the risk of tumorigenesis in the Chinese Han population.
Nogo-A and LINGO-1: Two Important Targets for Remyelination and Regeneration.
Title: Nogo-A and LINGO-1: Two Important Targets for Remyelination and Regeneration.
Association of Nogo-A Gene Polymorphisms with Cerebral Palsy in Southern China: A Case-Control Study.
Title: Association of Nogo-A Gene Polymorphisms with Cerebral Palsy in Southern China: A Case-Control Study.
Dynamic induction of the myelin-associated growth inhibitor Nogo-A in perilesional plasticity regions after human spinal cord injury.
Title: Dynamic induction of the myelin-associated growth inhibitor Nogo-A in perilesional plasticity regions after human spinal cord injury.
An Rtn4/Nogo-A-interacting micropeptide modulates synaptic plasticity with age.
Title: An Rtn4/Nogo-A-interacting micropeptide modulates synaptic plasticity with age.
Inhibition of high-fat diet-induced obesity via reduction of ER-resident protein Nogo occurs through multiple mechanisms.
Title: Inhibition of high-fat diet-induced obesity via reduction of ER-resident protein Nogo occurs through multiple mechanisms.
Nogo-B promotes invasion and metastasis of nasopharyngeal carcinoma via RhoA-SRF-MRTFA pathway.
Title: Nogo-B promotes invasion and metastasis of nasopharyngeal carcinoma via RhoA-SRF-MRTFA pathway.
CircRTN4 promotes pancreatic cancer progression through a novel CircRNA-miRNA-lncRNA pathway and stabilizing epithelial-mesenchymal transition protein.
Title: CircRTN4 promotes pancreatic cancer progression through a novel CircRNA-miRNA-lncRNA pathway and stabilizing epithelial-mesenchymal transition protein.

Submit: New GeneRIF Correction See all GeneRIFs (121)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Common body mass index-associated variants confer risk of extreme obesity. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Vpr	vpr	A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies downregulation of reticulon 4 (RTN4) expression by HIV-1 Vpr in Vpr transduced macrophages	PubMed
Vpu	vpu	HIV-1 Vpu is identified to have a physical interaction with reticulon 4 (RTN4) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SGC32447 (e-PCR)
- UniSTS:27904

G32670 (e-PCR)
- UniSTS:117252

RH80159 (e-PCR)
- UniSTS:83973

A002P20 (e-PCR)
- UniSTS:11346

D2S1521E (e-PCR)
- UniSTS:150614

A009M26 (e-PCR)
- UniSTS:16733

D2S1981 (e-PCR)
- UniSTS:62317

RH36073 (e-PCR)
- UniSTS:22403

RH11556 (e-PCR)
- UniSTS:19351

SHGC-5636 (e-PCR)
- UniSTS:3994

AB049853 (e-PCR)
- UniSTS:480168

D2S1848 (e-PCR)
- UniSTS:82093

RH103665 (e-PCR)
- UniSTS:97990

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables RNA binding	HDA more info	PubMed
enables cadherin binding	HDA more info	PubMed
enables cadherin binding	IPI Inferred from Physical Interaction more info	PubMed
enables metal ion binding	EXP Inferred from Experiment more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin protein ligase binding	IPI Inferred from Physical Interaction more info	PubMed

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

Component	Evidence Code	Pubs
located_in anchoring junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum	HDA more info	PubMed
located_in endoplasmic reticulum	IDA Inferred from Direct Assay more info
located_in endoplasmic reticulum	NAS Non-traceable Author Statement more info	PubMed
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 tubular network	IDA Inferred from Direct Assay more info	PubMed
located_in endoplasmic reticulum tubular network membrane	IDA Inferred from Direct Assay more info	PubMed
located_in glutamatergic synapse	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	IEA Inferred from Electronic Annotation more info
located_in nuclear envelope	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info
is_active_in postsynaptic density	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: reticulon-4

Names: Human NogoA; My043 protein; foocen; neurite growth inhibitor 220; neurite outgrowth inhibitor; neuroendocrine-specific protein C homolog; reticulon 5

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.

Genomic

NG_029037.2 RefSeqGene

Range

92381..170643

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001321859.2 → NP_001308788.1 reticulon-4 isoform E

Status: REVIEWED

Description

Transcript Variant: This variant (6), along with variants 5, 7, 8, 9, 10, and 11, encodes isoform E.

Source sequence(s)

AC093165, AY123245, BC150182

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Related

ENSP00000385650.1, ENST00000404909.5

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon
NM_001321860.1 → NP_001308789.1 reticulon-4 isoform E

Status: REVIEWED

Description

Transcript Variant: This variant (7), along with variants 5, 6, 8, 9, 10, and 11, encodes isoform E.

Source sequence(s)

AY123246, BC150182

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Related

ENSP00000378109.2, ENST00000394611.6

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon
NM_001321861.2 → NP_001308790.1 reticulon-4 isoform E

Status: REVIEWED

Description

Transcript Variant: This variant (8), along with variants 5, 6, 7, 9, 10, and 11, encodes isoform E.

Source sequence(s)

AY123247, BC150182

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon
NM_001321862.2 → NP_001308791.1 reticulon-4 isoform E

Status: REVIEWED

Description

Transcript Variant: This variant (9), along with variants 5, 6, 7, 8, and 10, encodes isoform E.

Source sequence(s)

AY123249, BC150182, DB094021

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon
NM_001321863.2 → NP_001308792.1 reticulon-4 isoform E

Status: REVIEWED

Description

Transcript Variant: This variant (10), along with variants 5, 6, 7, 8, 9, and 11, encodes isoform E.

Source sequence(s)

AC093165, AY123250, BC150182

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Related

ENSP00000384471.1, ENST00000405240.5

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon
NM_001321904.2 → NP_001308833.1 reticulon-4 isoform E

Status: REVIEWED

Description

Transcript Variant: This variant (11), along with variants 5, 6, 7, 8, 9, and 10, encodes isoform E.

Source sequence(s)

AC013414, AC092461, AC093165, BC150182

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon
NM_007008.3 → NP_008939.1 reticulon-4 isoform C

See identical proteins and their annotated locations for NP_008939.1

Status: REVIEWED

Description

Transcript Variant: This variant (3), also known as Foocen-S and Nogo-C, differs in the 5' UTR and the 5' coding region, compared to variant 1. The resulting isoform (C) contains a distinct N-terminus, compared to isoform A.

Source sequence(s)

AF125103, AF132048, AI671568, AY102276

Consensus CDS

CCDS42685.1

UniProtKB/TrEMBL

A6XGP7

Related

ENSP00000378107.2, ENST00000394609.6

Conserved Domains (1) summary

pfam02453
Location:12 → 176

Reticulon
NM_020532.5 → NP_065393.1 reticulon-4 isoform A

See identical proteins and their annotated locations for NP_065393.1

Status: REVIEWED

Description

Transcript Variant: This variant (1), also known as Nogo-A and RTN-XL, represents the longest transcript, and encodes the longest isoform (A).

Source sequence(s)

AF125103, AF132048, AY123250, BC016165

Consensus CDS

CCDS42684.1

UniProtKB/Swiss-Prot

O94962, Q7L7Q5, Q7L7Q6, Q7L7Q8, Q8IUA4, Q96B16, Q9BXG5, Q9H212, Q9H3I3, Q9NQC3, Q9UQ42, Q9Y293, Q9Y2Y7, Q9Y5U6

Related

ENSP00000337838.6, ENST00000337526.11

Conserved Domains (1) summary

pfam02453
Location:1005 → 1169

Reticulon; Reticulon
NM_153828.3 → NP_722550.1 reticulon-4 isoform B

See identical proteins and their annotated locations for NP_722550.1

Status: REVIEWED

Description

Transcript Variant: This variant (2), also known as Foocen-M, Nogo-B, RTN-XS and RTN4-B1, lacks an in-frame segment of the coding region, compared to variant 1. It encodes a shorter isoform (B), that is missing an internal segment, compared to isoform A.

Source sequence(s)

AF125103, AF132048, AY123250, BC016165

Consensus CDS

CCDS1851.1

UniProtKB/TrEMBL

Q6IPN0

Related

ENSP00000322147.7, ENST00000317610.11

Conserved Domains (1) summary

pfam02453
Location:186 → 350

Reticulon; Reticulon
NM_207520.2 → NP_997403.1 reticulon-4 isoform D

See identical proteins and their annotated locations for NP_997403.1

Status: REVIEWED

Description

Transcript Variant: This variant (4), also known as Foocen-m2 and RTN4-B2, lacks an in-frame segment of the coding region, compared to variant 1. It encodes a shorter isoform (D), that is missing an internal segment, compared to isoform A.

Source sequence(s)

AF125103, AF132048, AY123250, BC016165

Consensus CDS

CCDS42683.1

UniProtKB/TrEMBL

Q6IPN0

Related

ENSP00000350365.4, ENST00000357732.8

Conserved Domains (1) summary

pfam02453
Location:205 → 369

Reticulon; Reticulon
NM_207521.2 → NP_997404.1 reticulon-4 isoform E

See identical proteins and their annotated locations for NP_997404.1

Status: REVIEWED

Description

Transcript Variant: This variant (5), also known as hRTN4-E, differs in the 5' UTR and the 5' coding region, compared to variant 1. The resulting isoform (E) has a shorter N-terminus, compared to isoform A. This variant (5), along with variants 6, 7, 8, 9, 10, and 11, encodes isoform E.

Source sequence(s)

AF125103, AF132048, AF333336, AY123250, BC016165

Consensus CDS

CCDS1852.1

UniProtKB/TrEMBL

Q53RF4

Related

ENSP00000349944.3, ENST00000357376.7

Conserved Domains (1) summary

pfam02453
Location:799 → 963

Reticulon; Reticulon

RNA

NR_135829.2 RNA Sequence

Status: REVIEWED

Source sequence(s)

AY123247, BC150182, CN429712
NR_135830.2 RNA Sequence

Status: REVIEWED

Source sequence(s)

AF333336, BC150182