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    RTN4 reticulon 4 [ Homo sapiens (human) ]

    Gene ID: 57142, updated on 10-Dec-2024

    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
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    Genomic context

    See RTN4 in Genome Data Viewer
    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_000002.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15770 Neighboring gene EML6 antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:55005745-55005892 Neighboring gene EMAP like 6 Neighboring gene RNA, U7 small nuclear 81 pseudogene Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:55130773-55131972 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr2:55177255-55178454 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:55194629-55195622 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:55201598-55201799 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15771 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11493 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15772 Neighboring gene RNA, U6 small nuclear 433, pseudogene Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:55276593-55277405 Neighboring gene uncharacterized LOC105374662 Neighboring gene Sharpr-MPRA regulatory region 4359 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr2:55360796-55361708 Neighboring gene CRISPRi-validated cis-regulatory element chr2.2087 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15775 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15776 Neighboring gene clathrin heavy chain linker domain containing 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15777 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15778 Neighboring gene CDPF1 pseudogene 1 Neighboring gene ribosomal protein S27a

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    BioGRID CRISPR Screen Phenotypes (21 hits/1294 screens)

    EBI GWAS Catalog

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

    HIV-1 interactions

    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

    Pathways from PubChem

    Interactions

    General gene information

    Potential readthrough

    Included gene: CLHC1

    Gene Ontology Provided by GOA

    Items 1 - 25 of 43
    Process Evidence Code Pubs
    involved_in apoptotic process PubMed 
    involved_in axonal fasciculation  
    involved_in blastocyst formation  
    involved_in brain development  
    involved_in cardiac epithelial to mesenchymal transition  
    involved_in cell adhesion involved in sprouting angiogenesis PubMed 
    involved_in cell migration involved in vasculogenesis  
    involved_in cellular response to hypoxia  
    involved_in central nervous system vasculogenesis  
    involved_in cerebral cortex radial glia-guided migration  
    involved_in endoplasmic reticulum organization PubMed 
    involved_in endoplasmic reticulum tubular network formation  
    involved_in endoplasmic reticulum tubular network formation PubMed 
    involved_in endoplasmic reticulum tubular network membrane organization PubMed 
    involved_in endoplasmic reticulum tubular network organization PubMed 
    involved_in intracellular sphingolipid homeostasis  
    involved_in leukocyte migration involved in inflammatory response  
    involved_in modulation of chemical synaptic transmission  
    involved_in negative regulation of amyloid-beta formation PubMed 
    involved_in negative regulation of axon extension PubMed 
    involved_in negative regulation of cell growth PubMed 
    involved_in negative regulation of vasculogenesis  
    involved_in neuron differentiation  
    involved_in nuclear pore complex assembly PubMed 
    involved_in positive regulation of ERBB3 signaling pathway PubMed 
    involved_in positive regulation of Rac protein signal transduction  
    involved_in positive regulation of angiogenesis  
    involved_in positive regulation of artery morphogenesis  
    involved_in positive regulation of epithelial cell migration PubMed 
    involved_in positive regulation of hepatocyte proliferation  
    involved_in positive regulation of macrophage cytokine production  
    involved_in positive regulation of macrophage migration  
    involved_in positive regulation of mammary gland epithelial cell proliferation PubMed 
    involved_in positive regulation of neutrophil migration  
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction PubMed 
    involved_in positive regulation of protein localization to endoplasmic reticulum PubMed 
    involved_in positive regulation of toll-like receptor 9 signaling pathway  
    involved_in protein localization to lysosome  
    involved_in protein stabilization PubMed 
    involved_in regulation of apoptotic process PubMed 
    involved_in regulation of branching morphogenesis of a nerve  
    acts_upstream_of_or_within regulation of cell migration PubMed 
    involved_in regulation of postsynapse assembly  
    Items 1 - 25 of 43
    Component Evidence Code Pubs
    located_in anchoring junction  
    located_in cell junction PubMed 
    located_in endoplasmic reticulum PubMed 
    located_in endoplasmic reticulum  
    located_in endoplasmic reticulum PubMed 
    is_active_in endoplasmic reticulum membrane  
    located_in endoplasmic reticulum membrane PubMed 
    located_in endoplasmic reticulum tubular network PubMed 
    located_in endoplasmic reticulum tubular network membrane PubMed 
    located_in glutamatergic synapse  
    is_active_in neuron projection  
    located_in neuronal cell body  
    located_in nuclear envelope PubMed 
    located_in plasma membrane PubMed 
    located_in plasma membrane  
    is_active_in postsynaptic density  
    located_in synapse  

    General protein information

    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)

    NEW Try the new Transcript table

    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
      92381..170643
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. 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
    2. 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
    3. 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
    4. 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
    5. 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
    6. 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
    7. 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
    8. 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
    9. 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
    10. 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
    11. 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

    1. NR_135829.2 RNA Sequence

      Status: REVIEWED

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

      Status: REVIEWED

      Source sequence(s)
      AF333336, BC150182

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      54972189..55137831 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      54969379..55135031 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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