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    RTN4 reticulon 4 [ Homo sapiens (human) ]

    Gene ID: 57142, updated on 22-Apr-2017
    Official Symbol
    RTN4provided by HGNC
    Official Full Name
    reticulon 4provided by HGNC
    Primary source
    HGNC:HGNC:14085
    See related
    Ensembl:ENSG00000115310 MIM:604475; Vega:OTTHUMG00000129337
    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]
    Orthologs
    Location:
    2p16.1
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 2 NC_000002.12 (54972187..55137831, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (55199325..55307770, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374667 Neighboring gene echinoderm microtubule associated protein like 6 Neighboring gene RNA, U7 small nuclear 81 pseudogene Neighboring gene RNA, U6 small nuclear 433, pseudogene Neighboring gene uncharacterized LOC105374662 Neighboring gene uncharacterized LOC105374674 Neighboring gene cysteine rich DPF motif domain containing 1 pseudogene Neighboring gene clathrin heavy chain linker domain containing 1

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    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

    • Alzheimer's disease, organism-specific biosystem (from KEGG)
      Alzheimer's disease, organism-specific biosystemAlzheimer's disease (AD) is a chronic disorder that slowly destroys neurons and causes serious cognitive disability. AD is associated with senile plaques and neurofibrillary tangles (NFTs). Amyloid-b...
    • Alzheimer's disease, conserved biosystem (from KEGG)
      Alzheimer's disease, conserved biosystemAlzheimer's disease (AD) is a chronic disorder that slowly destroys neurons and causes serious cognitive disability. AD is associated with senile plaques and neurofibrillary tangles (NFTs). Amyloid-b...
    • Axonal growth inhibition (RHOA activation), organism-specific biosystem (from REACTOME)
      Axonal growth inhibition (RHOA activation), organism-specific biosystemp75NTR can also form a receptor complex with the Nogo receptor (NgR). Such complexes mediates axonal outgrowth inhibitory signals of MDGIs (myelin-derived growth-inhibitors), such as Nogo66, myelin-a...
    • Signal Transduction, organism-specific biosystem (from REACTOME)
      Signal Transduction, organism-specific biosystemSignal transduction is a process in which extracellular signals elicit changes in cell state and activity. Transmembrane receptors sense changes in the cellular environment by binding ligands, such a...
    • Signalling by NGF, organism-specific biosystem (from REACTOME)
      Signalling by NGF, organism-specific biosystemNeurotrophins (NGF, BDNF, NT-3, NT-4/5) play pivotal roles in survival, differentiation, and plasticity of neurons in the peripheral and central nervous system. They are produced, and secreted in mi...
    • Spinal Cord Injury, organism-specific biosystem (from WikiPathways)
      Spinal Cord Injury, organism-specific biosystemThis pathway provides an overview of cell types, therapeutic targets, drugs, new proposed targets and pathways implicated in spinal cord injury. Spinal cord injury is a complex multistep process that...
    • p75 NTR receptor-mediated signalling, organism-specific biosystem (from REACTOME)
      p75 NTR receptor-mediated signalling, organism-specific biosystemBesides signalling through the tyrosine kinase receptors TRK A, B, and C, the mature neurotrophins NGF, BDNF, and NT3/4 signal through their common receptor p75NTR. NGF binding to p75NTR activates a ...
    • p75(NTR)-mediated signaling, organism-specific biosystem (from Pathway Interaction Database)
      p75(NTR)-mediated signaling, organism-specific biosystem
      p75(NTR)-mediated signaling
    • p75NTR regulates axonogenesis, organism-specific biosystem (from REACTOME)
      p75NTR regulates axonogenesis, organism-specific biosystemp75NTR modulates axonal growth by regulating the activity of small GTPases like RHOA and RHOB, that control the state of actin polymerization. The best studied is RHOA. In its active, GTP-bound form,...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cadherin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    apoptotic process NAS
    Non-traceable Author Statement
    more info
    PubMed 
    axonal fasciculation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cardiac epithelial to mesenchymal transition IEA
    Inferred from Electronic Annotation
    more info
     
    cerebral cortex radial glia guided migration ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    endoplasmic reticulum tubular network formation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum tubular network organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of axon extension IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of axonogenesis TAS
    Traceable Author Statement
    more info
     
    negative regulation of cell growth IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nuclear pore complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of ERBB3 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of epithelial cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of mammary gland epithelial cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of protein kinase B signaling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of protein localization to endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein stabilization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    regulation of apoptotic process NAS
    Non-traceable Author Statement
    more info
    PubMed 
    regulation of branching morphogenesis of a nerve ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    cell projection IEA
    Inferred from Electronic Annotation
    more info
     
    endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum NAS
    Non-traceable Author Statement
    more info
    PubMed 
    endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum tubular network IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular exosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    intracellular IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    nuclear envelope IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane TAS
    Traceable Author Statement
    more info
     
    postsynaptic density IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    reticulon-4
    Names
    Human NogoA
    My043 protein
    foocen
    neurite growth inhibitor 220
    neurite outgrowth inhibitor
    neuroendocrine-specific protein C homolog
    reticulon 5

    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

    1. NG_029037.2 RefSeqGene

      Range
      92234..170643
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001321859.1NP_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)
      AY123245, BC150182
      Consensus CDS
      CCDS1852.1
      UniProtKB/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000385650.1, OTTHUMP00000201714, ENST00000404909.5, OTTHUMT00000326315
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    2. NM_001321860.1NP_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/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000378109.2, OTTHUMP00000201801, ENST00000394611.6, OTTHUMT00000326454
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    3. NM_001321861.1NP_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/Swiss-Prot
      Q9NQC3
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    4. NM_001321862.1NP_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/Swiss-Prot
      Q9NQC3
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    5. NM_001321863.1NP_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)
      AY123250, BC150182
      Consensus CDS
      CCDS1852.1
      UniProtKB/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000384471.1, OTTHUMP00000201803, ENST00000405240.5, OTTHUMT00000320497
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    6. NM_001321904.1NP_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/Swiss-Prot
      Q9NQC3
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    7. NM_007008.2NP_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/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000378107.2, OTTHUMP00000201716, ENST00000394609.6, OTTHUMT00000326317
      Conserved Domains (1) summary
      pfam02453
      Location:12176
      Reticulon; Reticulon
    8. NM_020532.4NP_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, AI671568, AY123246, AY123250, BC016165
      Consensus CDS
      CCDS42684.1
      UniProtKB/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000337838.6, OTTHUMP00000159690, ENST00000337526.10, OTTHUMT00000251484
      Conserved Domains (1) summary
      pfam02453
      Location:10051169
      Reticulon; Reticulon
    9. NM_153828.2NP_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, AI671568, AY123246, AY123250, BC016165
      Consensus CDS
      CCDS1851.1
      UniProtKB/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000322147.7, OTTHUMP00000159691, ENST00000317610.11, OTTHUMT00000251485
      Conserved Domains (1) summary
      pfam02453
      Location:186350
      Reticulon; Reticulon
    10. NM_207520.1NP_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, AI671568, AY123246, AY123250, BC016165
      Consensus CDS
      CCDS42683.1
      UniProtKB/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000350365.4, OTTHUMP00000201715, ENST00000357732.8, OTTHUMT00000326316
      Conserved Domains (1) summary
      pfam02453
      Location:205369
      Reticulon; Reticulon
    11. NM_207521.1NP_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, AI671568, AY123250, BC016165
      Consensus CDS
      CCDS1852.1
      UniProtKB/Swiss-Prot
      Q9NQC3
      Related
      ENSP00000349944.3, OTTHUMP00000201802, ENST00000357376.7, OTTHUMT00000326455
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon

    RNA

    1. NR_135829.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AY123247, BC150182, CN429712
    2. NR_135830.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AF333336, BC150182

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

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

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p7 Primary Assembly

      Range
      54972187..55137831 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017004518.1XP_016860007.1  reticulon-4 isoform X1

      UniProtKB/Swiss-Prot
      Q9NQC3
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    2. XM_005264434.3XP_005264491.1  reticulon-4 isoform X1

      See identical proteins and their annotated locations for XP_005264491.1

      UniProtKB/Swiss-Prot
      Q9NQC3
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon
    3. XM_017004519.1XP_016860008.1  reticulon-4 isoform X1

      UniProtKB/Swiss-Prot
      Q9NQC3
      Conserved Domains (1) summary
      pfam02453
      Location:799963
      Reticulon; Reticulon

    Alternate CHM1_1.1

    Genomic

    1. NC_018913.2 Alternate CHM1_1.1

      Range
      55129380..55295030 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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