Aliases for RTN4RL1 Gene

Aliases for RTN4RL1 Gene

  • Reticulon 4 Receptor Like 1 2 3 5
  • Nogo-66 Receptor Homolog 2 2 3 4
  • Nogo-66 Receptor-Related Protein 3 3 4
  • Reticulon-4 Receptor-Like 1 3 4
  • Nogo Receptor-Like 2 3 4
  • NGRH2 3 4
  • NgR3 3 4
  • Reticulon 4 Receptor-Like 1 2
  • NGRL2 4

External Ids for RTN4RL1 Gene

Previous GeneCards Identifiers for RTN4RL1 Gene

  • GC17M002046
  • GC17M001786
  • GC17M001734
  • GC17M001935
  • GC17M001936
  • GC17M001945
  • GC17M001949
  • GC17M001937
  • GC17M001938
  • GC17M001939
  • GC17M001940
  • GC17M001941
  • GC17M001942
  • GC17M001943

Summaries for RTN4RL1 Gene

GeneCards Summary for RTN4RL1 Gene

RTN4RL1 (Reticulon 4 Receptor Like 1) is a Protein Coding gene. Diseases associated with RTN4RL1 include Retrograde Amnesia and Miller-Dieker Lissencephaly Syndrome. Among its related pathways are Metabolism of proteins and Post-translational modification- synthesis of GPI-anchored proteins. An important paralog of this gene is RTN4RL2.

UniProtKB/Swiss-Prot Summary for RTN4RL1 Gene

  • Cell surface receptor. Plays a functionally redundant role in postnatal brain development and in regulating axon regeneration in the adult central nervous system. Contributes to normal axon migration across the brain midline and normal formation of the corpus callosum. Protects motoneurons against apoptosis; protection against apoptosis is probably mediated by MAG. Plays a role in inhibiting neurite outgrowth and axon regeneration via its binding to neuronal chondroitin sulfate proteoglycans. Binds heparin (By similarity). Like other family members, plays a role in restricting the number dendritic spines and the number of synapses that are formed during brain development (PubMed:22325200). Signaling mediates activation of Rho and downstream reorganization of the actin cytoskeleton (PubMed:22325200).

Additional gene information for RTN4RL1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RTN4RL1 Gene

Genomics for RTN4RL1 Gene

GeneHancer (GH) Regulatory Elements for RTN4RL1 Gene

Promoters and enhancers for RTN4RL1 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RTN4RL1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RTN4RL1 gene promoter:
  • c-Fos
  • c-Myc
  • Chx10
  • GATA-2
  • Max1
  • NCX
  • NF-1
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c

Genomic Locations for RTN4RL1 Gene

Genomic Locations for RTN4RL1 Gene
chr17:1,934,677-2,025,345
(GRCh38/hg38)
Size:
90,669 bases
Orientation:
Minus strand
chr17:1,837,971-1,928,639
(GRCh37/hg19)
Size:
90,669 bases
Orientation:
Minus strand

Genomic View for RTN4RL1 Gene

Genes around RTN4RL1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTN4RL1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTN4RL1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTN4RL1 Gene

Proteins for RTN4RL1 Gene

  • Protein details for RTN4RL1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86UN2-R4RL1_HUMAN
    Recommended name:
    Reticulon-4 receptor-like 1
    Protein Accession:
    Q86UN2
    Secondary Accessions:
    • A1A5E3
    • Q8ND46

    Protein attributes for RTN4RL1 Gene

    Size:
    441 amino acids
    Molecular mass:
    49065 Da
    Quaternary structure:
    • Identified in a complex that contains RTN4R, RTN4RL1 and NGFR; the interaction depends on the presence of chondroitin sulfate proteoglycans. Does not interact with MAG, OMG and RTN4.

neXtProt entry for RTN4RL1 Gene

Post-translational modifications for RTN4RL1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RTN4RL1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RTN4RL1 Gene

Domains & Families for RTN4RL1 Gene

Gene Families for RTN4RL1 Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for RTN4RL1 Gene

GenScript: Design optimal peptide antigens:
  • Nogo-66 receptor-related protein 3 (R4RL1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q86UN2

UniProtKB/Swiss-Prot:

R4RL1_HUMAN :
  • Belongs to the Nogo receptor family.
Family:
  • Belongs to the Nogo receptor family.
genes like me logo Genes that share domains with RTN4RL1: view

Function for RTN4RL1 Gene

Molecular function for RTN4RL1 Gene

UniProtKB/Swiss-Prot Function:
Cell surface receptor. Plays a functionally redundant role in postnatal brain development and in regulating axon regeneration in the adult central nervous system. Contributes to normal axon migration across the brain midline and normal formation of the corpus callosum. Protects motoneurons against apoptosis; protection against apoptosis is probably mediated by MAG. Plays a role in inhibiting neurite outgrowth and axon regeneration via its binding to neuronal chondroitin sulfate proteoglycans. Binds heparin (By similarity). Like other family members, plays a role in restricting the number dendritic spines and the number of synapses that are formed during brain development (PubMed:22325200). Signaling mediates activation of Rho and downstream reorganization of the actin cytoskeleton (PubMed:22325200).

Phenotypes From GWAS Catalog for RTN4RL1 Gene

Gene Ontology (GO) - Molecular Function for RTN4RL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0008201 heparin binding IEA,ISS --
GO:0035374 chondroitin sulfate binding IEA,ISS --
GO:0038023 signaling receptor activity IDA 12694398
genes like me logo Genes that share ontologies with RTN4RL1: view
genes like me logo Genes that share phenotypes with RTN4RL1: view

Animal Models for RTN4RL1 Gene

MGI Knock Outs for RTN4RL1:

Animal Model Products

  • Taconic Biosciences Mouse Models for RTN4RL1

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RTN4RL1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RTN4RL1 Gene

Localization for RTN4RL1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RTN4RL1 Gene

Cell membrane; Lipid-anchor, GPI-anchor. Membrane raft. Perikaryon. Cell projection. Note=Localized to the surface of neurons, including axons. {ECO:0000250 UniProtKB:Q80WD0}.

Subcellular locations from

COMPARTMENTS
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 RTN4RL1 gene
Compartment Confidence
plasma membrane 5
extracellular 4
endoplasmic reticulum 1
lysosome 0
golgi apparatus 0

Gene Ontology (GO) - Cellular Components for RTN4RL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IBA 21873635
GO:0005886 plasma membrane TAS --
GO:0009897 external side of plasma membrane IEA --
GO:0009986 cell surface IEA,IDA 20463223
genes like me logo Genes that share ontologies with RTN4RL1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for RTN4RL1 Gene

Pathways & Interactions for RTN4RL1 Gene

genes like me logo Genes that share pathways with RTN4RL1: view

Gene Ontology (GO) - Biological Process for RTN4RL1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010977 negative regulation of neuron projection development IEA,ISS --
GO:0022038 corpus callosum development IEA --
GO:0031103 axon regeneration TAS 14664809
GO:0048681 negative regulation of axon regeneration IEA,ISS --
genes like me logo Genes that share ontologies with RTN4RL1: view

No data available for SIGNOR curated interactions for RTN4RL1 Gene

Drugs & Compounds for RTN4RL1 Gene

No Compound Related Data Available

Transcripts for RTN4RL1 Gene

mRNA/cDNA for RTN4RL1 Gene

(1) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(43) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RTN4RL1

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for RTN4RL1 Gene

No ASD Table

Relevant External Links for RTN4RL1 Gene

GeneLoc Exon Structure for
RTN4RL1
ECgene alternative splicing isoforms for
RTN4RL1

Expression for RTN4RL1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RTN4RL1 Gene

mRNA differential expression in normal tissues according to GTEx for RTN4RL1 Gene

This gene is overexpressed in Brain - Cortex (x5.3) and Brain - Frontal Cortex (BA9) (x4.2).

Protein differential expression in normal tissues from HIPED for RTN4RL1 Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (49.7) and Seminal vesicle (15.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for RTN4RL1 Gene



NURSA nuclear receptor signaling pathways regulating expression of RTN4RL1 Gene:

RTN4RL1

SOURCE GeneReport for Unigene cluster for RTN4RL1 Gene:

Hs.22917

mRNA Expression by UniProt/SwissProt for RTN4RL1 Gene:

Q86UN2-R4RL1_HUMAN
Tissue specificity: Predominantly expressed in brain. Expressed at lower levels in kidney, lung, mammary gland, placenta, salivary gland, skeletal muscle and spleen.

Evidence on tissue expression from TISSUES for RTN4RL1 Gene

  • Nervous system(4.4)
genes like me logo Genes that share expression patterns with RTN4RL1: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for RTN4RL1 Gene

Orthologs for RTN4RL1 Gene

This gene was present in the common ancestor of animals.

Orthologs for RTN4RL1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RTN4RL1 33 32
  • 99.17 (n)
OneToOne
cow
(Bos Taurus)
Mammalia RTN4RL1 33 32
  • 90.93 (n)
OneToOne
dog
(Canis familiaris)
Mammalia RTN4RL1 33 32
  • 89.64 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Rtn4rl1 17 33 32
  • 86.32 (n)
rat
(Rattus norvegicus)
Mammalia Rtn4rl1 32
  • 86.32 (n)
oppossum
(Monodelphis domestica)
Mammalia RTN4RL1 33
  • 77 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia RTN4RL1 33
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves RTN4RL1 33 32
  • 74.94 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RTN4RL1 33
  • 62 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rtn4rl1 32
  • 65.24 (n)
zebrafish
(Danio rerio)
Actinopterygii rtn4rl1b 33 32
  • 62.46 (n)
OneToMany
rtn4rl1a 33
  • 59 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG1504 33
  • 20 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea lron-12 33
  • 16 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 33
  • 21 (a)
OneToMany
Species where no ortholog for RTN4RL1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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 RTN4RL1 Gene

ENSEMBL:
Gene Tree for RTN4RL1 (if available)
TreeFam:
Gene Tree for RTN4RL1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RTN4RL1: view image

Paralogs for RTN4RL1 Gene

(2) SIMAP similar genes for RTN4RL1 Gene using alignment to 1 proteins:

  • R4RL1_HUMAN
genes like me logo Genes that share paralogs with RTN4RL1: view

Variants for RTN4RL1 Gene

Sequence variations from dbSNP and Humsavar for RTN4RL1 Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000005285 -- 1,963,981(-) C/T intron_variant
rs1000014584 -- 1,999,495(-) T/C intron_variant
rs1000063410 -- 2,000,038(-) A/G intron_variant
rs1000071616 -- 1,960,071(-) G/T intron_variant
rs1000123009 -- 2,003,490(-) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RTN4RL1 Gene

Variant ID Type Subtype PubMed ID
dgv68n73 CNV deletion 24416366
esv21816 CNV loss 19812545
esv2272299 CNV deletion 18987734
esv23541 CNV loss 19812545
esv2636660 CNV deletion 19546169
esv2658213 CNV deletion 23128226
esv2674942 CNV deletion 23128226
esv2715483 CNV deletion 23290073
esv2715484 CNV deletion 23290073
esv2715486 CNV deletion 23290073
esv2715487 CNV deletion 23290073
esv33335 CNV loss 17666407
esv3368806 CNV duplication 20981092
esv3553992 CNV deletion 23714750
esv3553993 CNV deletion 23714750
esv3582476 CNV loss 25503493
esv3639702 CNV loss 21293372
esv3639703 CNV loss 21293372
nsv1056771 CNV gain 25217958
nsv112398 CNV insertion 16902084
nsv523761 CNV loss 19592680
nsv827857 CNV gain 20364138

Variation tolerance for RTN4RL1 Gene

Residual Variation Intolerance Score: 37% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.70; 46.26% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RTN4RL1 Gene

Human Gene Mutation Database (HGMD)
RTN4RL1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
RTN4RL1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RTN4RL1 Gene

Disorders for RTN4RL1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for RTN4RL1 Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
retrograde amnesia
  • amnesia, retrograde
miller-dieker lissencephaly syndrome
  • mdls
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for RTN4RL1

genes like me logo Genes that share disorders with RTN4RL1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for RTN4RL1 Gene

Publications for RTN4RL1 Gene

  1. Structure and axon outgrowth inhibitor binding of the Nogo-66 receptor and related proteins. (PMID: 12839991) Barton WA … Nikolov DB (The EMBO journal 2003) 3 4 23 56
  2. Two novel mammalian Nogo receptor homologs differentially expressed in the central and peripheral nervous systems. (PMID: 14664809) Laurén J … Timmusk T (Molecular and cellular neurosciences 2003) 3 4 23 56
  3. Characterization of two novel proteins, NgRH1 and NgRH2, structurally and biochemically homologous to the Nogo-66 receptor. (PMID: 12694398) Pignot V … Frentzel S (Journal of neurochemistry 2003) 3 4 56
  4. Genome-wide CRISPR screen identifies HNRNPL as a prostate cancer dependency regulating RNA splicing. (PMID: 28611215) Fei T … Brown M (Proceedings of the National Academy of Sciences of the United States of America 2017) 3 56
  5. RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination. (PMID: 29117863) Choudhury NR … Michlewski G (BMC biology 2017) 3 56

Products for RTN4RL1 Gene

  • Biorbyt antibodies for RTN4RL1

Sources for RTN4RL1 Gene