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Aliases for RTN3 Gene

Aliases for RTN3 Gene

  • Reticulon 3 2 3 5
  • Neuroendocrine-Specific Protein-Like 2 2 3 4
  • Homolog Of ASY Protein 2 3 4
  • NSP-Like Protein II 2 3 4
  • Neuroendocrine-Specific Protein-Like II 3 4
  • ASY Interacting Protein 2 3
  • NSP-Like Protein 2 3 4
  • NSPLII 3 4
  • ASYIP 3 4
  • NSPL2 3 4
  • HAP 3 4
  • Isoforme III 2
  • Reticulon-3 3
  • RTN3-A1 3

External Ids for RTN3 Gene

Previous GeneCards Identifiers for RTN3 Gene

  • GC11P065970
  • GC11P065024
  • GC11P063224
  • GC11P063205
  • GC11P063448
  • GC11P059778

Summaries for RTN3 Gene

Entrez Gene Summary for RTN3 Gene

  • This gene belongs to the reticulon family of highly conserved genes that are preferentially expressed in neuroendocrine tissues. This family of proteins interact with, and modulate the activity of beta-amyloid converting enzyme 1 (BACE1), and the production of amyloid-beta. An increase in the expression of any reticulon protein substantially reduces the production of amyloid-beta, suggesting that reticulon proteins are negative modulators of BACE1 in cells. Alternatively spliced transcript variants encoding different isoforms have been found for this gene, and pseudogenes of this gene are located on chromosomes 4 and 12. [provided by RefSeq, May 2012]

GeneCards Summary for RTN3 Gene

RTN3 (Reticulon 3) is a Protein Coding gene. Diseases associated with RTN3 include West Nile Virus and Alzheimer Disease. Among its related pathways are Protein-protein interactions at synapses and Transmission across Chemical Synapses. An important paralog of this gene is RTN4.

UniProtKB/Swiss-Prot for RTN3 Gene

  • May be involved in membrane trafficking in the early secretory pathway. Inhibits BACE1 activity and amyloid precursor protein processing. May induce caspase-8 cascade and apoptosis. May favor BCL2 translocation to the mitochondria upon endoplasmic reticulum stress. In case of enteroviruses infection, RTN3 may be involved in the viral replication or pathogenesis. Induces the formation of endoplasmic reticulum tubules (PubMed:25612671).

Gene Wiki entry for RTN3 Gene

Additional gene information for RTN3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RTN3 Gene

Genomics for RTN3 Gene

GeneHancer (GH) Regulatory Elements for RTN3 Gene

Promoters and enhancers for RTN3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11J063680 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 650.7 +0.7 723 3.4 PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B YY1 GC11M063550 RTN3 NXF1 ATL3 IMMP1LP1 TAF6L LOC105369332 PLCB3 STX5 TMEM179B
GH11J063865 Enhancer 1.4 Ensembl ENCODE dbSUPER 10.2 +189.0 189015 9.8 HDGF FOXA2 PKNOX1 SMAD1 ARID4B SIN3A FEZF1 IRF4 YY1 SLC30A9 NAA40 MARK2 SPINDOC RTN3 PLA2G16 LOC105369340 GC11M063862 RNU6-1306P
GH11J063862 Enhancer 1.3 Ensembl ENCODE dbSUPER 10.2 +181.6 181582 1.4 ELF3 FOXA2 MLX ARID4B ZNF48 ZSCAN9 RAD21 RARA YY1 ZNF614 GC11M063862 MARK2 NAA40 SPINDOC RTN3 ENSG00000256341 COX8A RNU6-1306P
GH11J063478 Enhancer 1.2 Ensembl ENCODE dbSUPER 10.2 -202.3 -202305 0.3 HDGF RB1 ARNT RAD21 RFX5 YY1 E2F8 ARID2 ZNF143 ZFP91 NXF1 CSKMT GANAB SNHG1 EML3 INTS5 STX5 MTA2 ENSG00000256789 TUT1
GH11J063937 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 5.1 +257.5 257539 2.8 HDGF PKNOX1 CLOCK ARID4B SIN3A DMAP1 IRF4 ZNF213 ZNF207 ZNF143 NAA40 SF1 RTN3 RCOR2 GC11M063921 GC11P063909 GC11P063911
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RTN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RTN3 gene promoter:
  • ATF6
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5

Genomic Locations for RTN3 Gene

Genomic Locations for RTN3 Gene
78,532 bases
Plus strand
78,446 bases
Plus strand

Genomic View for RTN3 Gene

Genes around RTN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTN3 Gene

Proteins for RTN3 Gene

  • Protein details for RTN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B3KQS2
    • B7Z308
    • B7Z4M0
    • F5H774
    • Q147U9
    • Q496K2
    • Q53GN3
    • Q59EP0
    • Q5UEP2
    • Q6T930
    • Q7RTM7
    • Q7RTM8
    • Q7RTN3

    Protein attributes for RTN3 Gene

    1032 amino acids
    Molecular mass:
    112611 Da
    Quaternary structure:
    • Homodimer. Interacts with ATL1 (By similarity). Interacts with RTN4. Isoform 3 interacts with BACE1, BACE2, BCL2 and FADD. Interacts with ATL2. Interacts with TMEM33 (By similarity). Interacts with ZFYVE27 and with KIF5A in a ZFYVE27-dependent manner (PubMed:21976701).
    • (Microbial infection) Interacts with Coxsackievirus A16, enterovirus 71 and poliovirus P2C proteins (PubMed:17182608). Interacts with protein West Nile virus NS4A (PubMed:29117567).
    • Sequence=BAD93008.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for RTN3 Gene

neXtProt entry for RTN3 Gene

Post-translational modifications for RTN3 Gene

  • Ubiquitination at posLast=10181018 and posLast=998998
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for RTN3 Gene

Domains & Families for RTN3 Gene

Gene Families for RTN3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for RTN3 Gene


Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with RTN3: view

No data available for UniProtKB/Swiss-Prot for RTN3 Gene

Function for RTN3 Gene

Molecular function for RTN3 Gene

UniProtKB/Swiss-Prot Function:
May be involved in membrane trafficking in the early secretory pathway. Inhibits BACE1 activity and amyloid precursor protein processing. May induce caspase-8 cascade and apoptosis. May favor BCL2 translocation to the mitochondria upon endoplasmic reticulum stress. In case of enteroviruses infection, RTN3 may be involved in the viral replication or pathogenesis. Induces the formation of endoplasmic reticulum tubules (PubMed:25612671).
UniProtKB/Swiss-Prot Induction:
By endoplasmic reticulum stress (at protein level).
GENATLAS Biochemistry:
reticulon 3,neuroendocrine protein,associated with the endoplasmic reticulum,expressed in neural tissues,particularly in the macular region of the retina

Gene Ontology (GO) - Molecular Function for RTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with RTN3: view
genes like me logo Genes that share phenotypes with RTN3: view

Animal Model Products

Clone Products

  • Addgene plasmids for RTN3

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for RTN3 Gene

Localization for RTN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RTN3 Gene

Endoplasmic reticulum membrane; Multi-pass membrane protein. Golgi apparatus membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RTN3 gene
Compartment Confidence
plasma membrane 5
extracellular 5
endoplasmic reticulum 5
golgi apparatus 3
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0005615 extracellular space TAS 10331947
GO:0005783 endoplasmic reticulum IDA,IEA --
GO:0005789 endoplasmic reticulum membrane IEA,IDA 24262037
GO:0005794 Golgi apparatus IEA --
genes like me logo Genes that share ontologies with RTN3: view

Pathways & Interactions for RTN3 Gene

genes like me logo Genes that share pathways with RTN3: view

Pathways by source for RTN3 Gene

Gene Ontology (GO) - Biological Process for RTN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process IEA --
GO:0016032 viral process IEA --
GO:0016192 vesicle-mediated transport IEA --
GO:0071786 endoplasmic reticulum tubular network organization IMP 18779370
GO:0071787 endoplasmic reticulum tubular network formation IDA 25612671
genes like me logo Genes that share ontologies with RTN3: view

No data available for SIGNOR curated interactions for RTN3 Gene

Drugs & Compounds for RTN3 Gene

No Compound Related Data Available

Transcripts for RTN3 Gene

Unigene Clusters for RTN3 Gene

Reticulon 3:
Representative Sequences:

Clone Products

  • Addgene plasmids for RTN3

Alternative Splicing Database (ASD) splice patterns (SP) for RTN3 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b · 4c · 4d · 4e · 4f ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b · 8c ^ 9 ^ 10 ^ 11a · 11b · 11c
SP1: - - - - - - - - - -
SP2: - - - - - - - - - - -
SP3: - - - - - - - - -
SP4: - - - - - - - - -
SP5: - - - - - - -
SP7: - - -
SP9: - - - -
SP10: - -
SP11: - - -

Relevant External Links for RTN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for RTN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RTN3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RTN3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x4.7) and Brain - Anterior cingulate cortex (BA24) (x4.2).

Protein differential expression in normal tissues from HIPED for RTN3 Gene

This gene is overexpressed in Nasal epithelium (20.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RTN3 Gene

Protein tissue co-expression partners for RTN3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of RTN3 Gene:


SOURCE GeneReport for Unigene cluster for RTN3 Gene:


mRNA Expression by UniProt/SwissProt for RTN3 Gene:

Tissue specificity: Isoform 3 is widely expressed, with highest levels in brain, where it is enriched in neuronal cell bodies from gray matter (at protein level). Three times more abundant in macula than in peripheral retina. Isoform 1 is expressed at high levels in brain and at low levels in skeletal muscle. Isoform 2 is only found in melanoma.

Evidence on tissue expression from TISSUES for RTN3 Gene

  • Nervous system(5)
  • Kidney(4.8)
  • Eye(4.7)
  • Lung(3.4)
  • Intestine(3.1)
  • Blood(3)
  • Pancreas(2.9)
  • Skin(2.8)
genes like me logo Genes that share expression patterns with RTN3: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for RTN3 Gene

Orthologs for RTN3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RTN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia RTN3 34 33
  • 99.34 (n)
(Mus musculus)
Mammalia Rtn3 16 34 33
  • 80.43 (n)
(Rattus norvegicus)
Mammalia Rtn3 33
  • 78.72 (n)
(Bos Taurus)
Mammalia RTN3 34
  • 75 (a)
(Canis familiaris)
Mammalia RTN3 34
  • 74 (a)
(Monodelphis domestica)
Mammalia RTN3 34
  • 58 (a)
(Ornithorhynchus anatinus)
Mammalia RTN3 34
  • 44 (a)
(Anolis carolinensis)
Reptilia RTN3 34
  • 39 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.1940 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.19053 33
(Danio rerio)
Actinopterygii rtn3 34 34
  • 65 (a)
zgc56439 33
fruit fly
(Drosophila melanogaster)
Insecta Rtnl2 34
  • 26 (a)
Rtnl1 34
  • 24 (a)
CG42853 34
  • 16 (a)
(Caenorhabditis elegans)
Secernentea ret-1 34
  • 6 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10170 34
  • 29 (a)
Species where no ortholog for RTN3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RTN3 Gene

Gene Tree for RTN3 (if available)
Gene Tree for RTN3 (if available)
Evolutionary constrained regions (ECRs) for RTN3: view image

Paralogs for RTN3 Gene

Paralogs for RTN3 Gene

(3) SIMAP similar genes for RTN3 Gene using alignment to 6 proteins:

  • B7Z4M1_HUMAN
  • F5H617_HUMAN
  • F5H891_HUMAN
  • Q7RTN4_HUMAN Pseudogenes for RTN3 Gene

genes like me logo Genes that share paralogs with RTN3: view

Variants for RTN3 Gene

Sequence variations from dbSNP and Humsavar for RTN3 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000018794 -- 63,698,501(+) C/T intron_variant
rs1000029911 -- 63,705,233(+) A/T intron_variant
rs1000034711 -- 63,735,455(+) G/C genic_downstream_transcript_variant, intron_variant
rs1000067106 -- 63,691,965(+) C/T intron_variant
rs1000071214 -- 63,698,117(+) G/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RTN3 Gene

Variant ID Type Subtype PubMed ID
esv2673702 CNV deletion 23128226
esv3626650 CNV loss 21293372
esv3626651 CNV loss 21293372
nsv1145539 CNV deletion 24896259
nsv555180 CNV loss 21841781
nsv825940 CNV loss 20364138
nsv832183 CNV loss 17160897
nsv975941 CNV duplication 23825009

Variation tolerance for RTN3 Gene

Residual Variation Intolerance Score: 6.01% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.21; 69.87% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RTN3 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RTN3 Gene

Disorders for RTN3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RTN3 Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
west nile virus
  • west nile virus, susceptibility to
alzheimer disease
  • ad
- elite association - COSMIC cancer census association via MalaCards
Search RTN3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for RTN3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with RTN3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RTN3 Gene

Publications for RTN3 Gene

  1. Cloning of a novel member of the reticulon gene family (RTN3): gene structure and chromosomal localization to 11q13. (PMID: 10331947) Moreira EF … Rodriguez IR (Genomics 1999) 2 3 4 22 58
  2. Reticulon 3 mediates Bcl-2 accumulation in mitochondria in response to endoplasmic reticulum stress. (PMID: 17191123) Wan Q … Liu Y (Apoptosis : an international journal on programmed cell death 2007) 3 4 22 58
  3. Tissue specificity and regulation of the N-terminal diversity of reticulon 3. (PMID: 15350194) Di Scala F … Loeffler JP (The Biochemical journal 2005) 3 4 22 58
  4. Identification of a new RTN3 transcript, RTN3-A1, and its distribution in adult mouse brain. (PMID: 15946766) Cai Y … Yu L (Brain research. Molecular brain research 2005) 3 4 22 58
  5. Pro-apoptotic ASY/Nogo-B protein associates with ASYIP. (PMID: 12811824) Qi B … Yutsudo M (Journal of cellular physiology 2003) 3 4 22 58

Products for RTN3 Gene

  • Addgene plasmids for RTN3

Sources for RTN3 Gene

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