Aliases for LINGO3 Gene

Aliases for LINGO3 Gene

  • Leucine Rich Repeat And Ig Domain Containing 3 2 3 5
  • LERN2 2 3 4
  • Leucine-Rich Repeat And Immunoglobulin-Like Domain-Containing Nogo Receptor-Interacting Protein 3 3 4
  • Leucine-Rich Repeat Neuronal Protein 6B 3 4
  • Leucine-Rich Repeat Neuronal Protein 2 3 4
  • Leucine Rich Repeat Neuronal 6B 2 3
  • LRRN6B 3 4
  • LINGO3 5

External Ids for LINGO3 Gene

Previous HGNC Symbols for LINGO3 Gene

  • LRRN6B

Previous GeneCards Identifiers for LINGO3 Gene

  • GC19U900723
  • GC19M002246
  • GC19M002061

Summaries for LINGO3 Gene

GeneCards Summary for LINGO3 Gene

LINGO3 (Leucine Rich Repeat And Ig Domain Containing 3) is a Protein Coding gene. An important paralog of this gene is LINGO4.

Additional gene information for LINGO3 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LINGO3 Gene

Genomics for LINGO3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for LINGO3 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 LINGO3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LINGO3

Top Transcription factor binding sites by QIAGEN in the LINGO3 gene promoter:
  • c-Fos
  • CREB
  • deltaCREB
  • E47
  • GATA-2
  • GR
  • GR-alpha
  • MZF-1
  • NF-E2
  • NF-E2 p45

Genomic Locations for LINGO3 Gene

Genomic Locations for LINGO3 Gene
chr19:2,289,784-2,308,154
(GRCh38/hg38)
Size:
18,371 bases
Orientation:
Minus strand
chr19:2,289,774-2,308,156
(GRCh37/hg19)
Size:
18,383 bases
Orientation:
Minus strand

Genomic View for LINGO3 Gene

Genes around LINGO3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINGO3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINGO3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINGO3 Gene

Proteins for LINGO3 Gene

  • Protein details for LINGO3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0C6S8-LIGO3_HUMAN
    Recommended name:
    Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 3
    Protein Accession:
    P0C6S8

    Protein attributes for LINGO3 Gene

    Size:
    592 amino acids
    Molecular mass:
    64881 Da
    Quaternary structure:
    No Data Available

neXtProt entry for LINGO3 Gene

Post-translational modifications for LINGO3 Gene

  • Glycosylation at Asn127, Asn185, Asn247, Asn257, Asn276, Asn324, Asn488, and Asn512
  • Modification sites at PhosphoSitePlus

Other Protein References for LINGO3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LINGO3 Gene

Domains & Families for LINGO3 Gene

Gene Families for LINGO3 Gene

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

Suggested Antigen Peptide Sequences for LINGO3 Gene

GenScript: Design optimal peptide antigens:
  • Leucine-rich repeat neuronal protein 6B (LIGO3_HUMAN)
genes like me logo Genes that share domains with LINGO3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LINGO3 Gene

Function for LINGO3 Gene

Phenotypes From GWAS Catalog for LINGO3 Gene

Gene Ontology (GO) - Molecular Function for LINGO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with LINGO3: view

Phenotypes for LINGO3 Gene

genes like me logo Genes that share phenotypes with LINGO3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LINGO3

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for LINGO3

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LINGO3 Gene

Localization for LINGO3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LINGO3 Gene

Membrane. Single-pass type I membrane protein.

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 LINGO3 gene
Compartment Confidence
plasma membrane 3
extracellular 3
endoplasmic reticulum 1
endosome 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for LINGO3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 extracellular space IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0031012 extracellular matrix IBA 21873635
genes like me logo Genes that share ontologies with LINGO3: view

Pathways & Interactions for LINGO3 Gene

PathCards logo

SuperPathways for LINGO3 Gene

No Data Available

Interacting Proteins for LINGO3 Gene

Gene Ontology (GO) - Biological Process for LINGO3 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LINGO3 Gene

Drugs & Compounds for LINGO3 Gene

No Compound Related Data Available

Transcripts for LINGO3 Gene

mRNA/cDNA for LINGO3 Gene

1 REFSEQ mRNAs :
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 LINGO3

Alternative Splicing Database (ASD) splice patterns (SP) for LINGO3 Gene

No ASD Table

Relevant External Links for LINGO3 Gene

GeneLoc Exon Structure for
LINGO3

Expression for LINGO3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LINGO3 Gene

mRNA differential expression in normal tissues according to GTEx for LINGO3 Gene

This gene is overexpressed in Whole Blood (x10.1), Brain - Nucleus accumbens (basal ganglia) (x8.1), Brain - Putamen (basal ganglia) (x7.8), and Brain - Caudate (basal ganglia) (x6.4).

Protein differential expression in normal tissues from HIPED for LINGO3 Gene

This gene is overexpressed in Vitreous humor (36.6) and Pancreatic juice (32.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LINGO3 Gene



Protein tissue co-expression partners for LINGO3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LINGO3

SOURCE GeneReport for Unigene cluster for LINGO3 Gene:

Hs.371587
genes like me logo Genes that share expression patterns with LINGO3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LINGO3 Gene

Orthologs for LINGO3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LINGO3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia LINGO3 30 31
  • 99.49 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia LINGO3 30 31
  • 92.12 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LINGO3 30 31
  • 89.47 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Lingo3 30 17 31
  • 85.12 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Lingo3 30
  • 85.06 (n)
Oppossum
(Monodelphis domestica)
Mammalia LINGO3 31
  • 83 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia LINGO3 31
  • 75 (a)
OneToOne
Chicken
(Gallus gallus)
Aves LINGO3 30 31
  • 73.79 (n)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia lingo3 30
  • 61.45 (n)
Zebrafish
(Danio rerio)
Actinopterygii lingo3a 30 31
  • 62.73 (n)
OneToMany
LINGO3 (2 of 2) 31
  • 61 (a)
OneToMany
Species where no ortholog for LINGO3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • 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 Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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)
  • Worm (Caenorhabditis elegans)

Evolution for LINGO3 Gene

ENSEMBL:
Gene Tree for LINGO3 (if available)
TreeFam:
Gene Tree for LINGO3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LINGO3: view image

Paralogs for LINGO3 Gene

Paralogs for LINGO3 Gene

(3) SIMAP similar genes for LINGO3 Gene using alignment to 1 proteins:

  • LIGO3_HUMAN
genes like me logo Genes that share paralogs with LINGO3: view

Variants for LINGO3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LINGO3 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs7258841 - p.Arg426His

Additional dbSNP identifiers (rs#s) for LINGO3 Gene

Structural Variations from Database of Genomic Variants (DGV) for LINGO3 Gene

Variant ID Type Subtype PubMed ID
dgv6218n54 CNV loss 21841781
esv3643420 CNV loss 21293372
esv991767 OTHER inversion 20482838
nsv833707 CNV loss 17160897
nsv953944 CNV deletion 24416366

Variation tolerance for LINGO3 Gene

Residual Variation Intolerance Score: 28.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.18; 87.91% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LINGO3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINGO3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LINGO3 Gene

Disorders for LINGO3 Gene

No disorders were found for LINGO3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINGO3 Gene

Publications for LINGO3 Gene

  1. LRRN6A/LERN1 (leucine-rich repeat neuronal protein 1), a novel gene with enriched expression in limbic system and neocortex. (PMID: 14686891) Carim-Todd L … Sumoy L (The European journal of neuroscience 2003) 2 3 4
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3
  4. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 4
  5. The sequence of the human genome. (PMID: 11181995) Venter JC … Zhu X (Science (New York, N.Y.) 2001) 3

Products for LINGO3 Gene

Sources for LINGO3 Gene