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Aliases for LINGO1 Gene

Aliases for LINGO1 Gene

  • Leucine Rich Repeat And Ig Domain Containing 1 2 3 5
  • Leucine-Rich Repeat And Immunoglobulin Domain-Containing Protein 1 3 4
  • Leucine-Rich Repeat Neuronal Protein 1 3 4
  • Leucine Rich Repeat Neuronal 6A 2 3
  • LRRN6A 3 4
  • LERN1 3 4
  • Leucine-Rich Repeat And Immunoglobulin-Like Domain-Containing Nogo Receptor-Interacting Protein 1 3
  • Leucine-Rich Repeat Neuronal Protein 6A 4
  • UNQ201 3

External Ids for LINGO1 Gene

Previous HGNC Symbols for LINGO1 Gene

  • LRRN6A

Previous GeneCards Identifiers for LINGO1 Gene

  • GC15M075694
  • GC15M077905
  • GC15M054660

Summaries for LINGO1 Gene

GeneCards Summary for LINGO1 Gene

LINGO1 (Leucine Rich Repeat And Ig Domain Containing 1) is a Protein Coding gene. Among its related pathways are p75 NTR receptor-mediated signalling and Neuroscience. GO annotations related to this gene include epidermal growth factor receptor binding. An important paralog of this gene is LINGO2.

UniProtKB/Swiss-Prot for LINGO1 Gene

  • Functional component of the Nogo receptor signaling complex (RTN4R/NGFR) in RhoA activation responsible for some inhibition of axonal regeneration by myelin-associated factors (PubMed:14966521, PubMed:15694321). Is also an important negative regulator of oligodentrocyte differentiation and axonal myelination (PubMed:15895088). Acts in conjunction with RTN4 and RTN4R in regulating neuronal precursor cell motility during cortical development (By similarity).

Gene Wiki entry for LINGO1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LINGO1 Gene

Genomics for LINGO1 Gene

Regulatory Elements for LINGO1 Gene

Enhancers for LINGO1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH15F077818 0.4 FANTOM5 31.7 +1.6 1606 1.3 SUZ12 L3MBTL2 REST KLF4 ZIC2 TFDP1 ZFHX2 GLIS2 GLIS1 PRDM10 LINGO1 LOC105370907 ACSBG1 HMG20A DNAJA4 GC15M077805
GH15F077604 0.8 Ensembl ENCODE 12.5 +216.2 216232 1.1 BCOR CBX3 ZMYM3 BMI1 RFX5 GLIS2 NCOR1 POLR2A NFYB EGR2 LINGO1 LOC101929457 PEAK1 GC15P077635 PIR57145
GH15F077605 0.7 Ensembl ENCODE 12.5 +214.0 213975 3.0 HDGF ATF1 CREB3L1 RAD21 GLIS2 EGR2 REST ZFP69B RAD51 SMARCA4 LINGO1 LOC101929457 PEAK1 GC15P077635 PIR57145
GH15F077858 0.4 ENCODE 11.4 -38.9 -38865 2.1 KLF1 ESRRA POLR2A PRDM10 CHD2 ZNF263 NR2F1 CEBPB ZEB2 REST LOC105370907 LINGO1 GC15P077854 CSPG4P13
GH15F077702 0.2 ENCODE 10.8 +118.2 118207 0.2 TFE3 HCFC1 MIER1 SIN3A MNT MIER2 REST ZKSCAN1 GATA3 HDAC2 LINGO1 LINGO1-AS2 ENSG00000280359
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LINGO1 on UCSC Golden Path with GeneCards custom track

Promoters for LINGO1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001797084 1200 1001 KLF1 SUZ12 UBTF ZIC2 ZNF121 GLIS2 ZBTB48 PATZ1 KLF7 KLF8

Genomic Location for LINGO1 Gene

Chromosome:
15
Start:
77,613,024 bp from pter
End:
77,820,900 bp from pter
Size:
207,877 bases
Orientation:
Minus strand

Genomic View for LINGO1 Gene

Genes around LINGO1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LINGO1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LINGO1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LINGO1 Gene

Proteins for LINGO1 Gene

  • Protein details for LINGO1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96FE5-LIGO1_HUMAN
    Recommended name:
    Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1
    Protein Accession:
    Q96FE5
    Secondary Accessions:
    • D3DW80
    • Q6NUK3
    • Q6UXM3
    • Q6VVG0
    • Q6VVG1
    • Q6VVG2
    • Q8N3K5
    • Q96K52

    Protein attributes for LINGO1 Gene

    Size:
    620 amino acids
    Molecular mass:
    69876 Da
    Quaternary structure:
    • Homotetramer (PubMed:17005555). Forms a ternary complex with RTN4R/NGFR and RTN4R/TNFRSF19 (PubMed:14966521, PubMed:15694321, PubMed:17005555). Interacts with NGRF, RTN4R and MYT1L (By similarity).

    Three dimensional structures from OCA and Proteopedia for LINGO1 Gene

    Alternative splice isoforms for LINGO1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LINGO1 Gene

Post-translational modifications for LINGO1 Gene

  • N-glycosylated. Contains predominantly high-mannose glycans.
  • Glycosylation at Asn 144, Asn 202, Asn 264, Asn 274, Asn 293, Asn 341, Asn 492, Asn 505, Asn 526, and Asn 542
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Cell Signaling Technology (CST) Antibodies for LINGO1 (LINGO1)

No data available for DME Specific Peptides for LINGO1 Gene

Domains & Families for LINGO1 Gene

Gene Families for LINGO1 Gene

Suggested Antigen Peptide Sequences for LINGO1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96FE5

UniProtKB/Swiss-Prot:

LIGO1_HUMAN :
  • The intracellular domain of LINGO1 interacts with MYT1L.
  • Contains 11 LRR (leucine-rich) repeats.
Domain:
  • The intracellular domain of LINGO1 interacts with MYT1L.
  • Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
  • Contains 1 LRRCT domain.
  • Contains 1 LRRNT domain.
Similarity:
  • Contains 11 LRR (leucine-rich) repeats.
genes like me logo Genes that share domains with LINGO1: view

Function for LINGO1 Gene

Molecular function for LINGO1 Gene

UniProtKB/Swiss-Prot Function:
Functional component of the Nogo receptor signaling complex (RTN4R/NGFR) in RhoA activation responsible for some inhibition of axonal regeneration by myelin-associated factors (PubMed:14966521, PubMed:15694321). Is also an important negative regulator of oligodentrocyte differentiation and axonal myelination (PubMed:15895088). Acts in conjunction with RTN4 and RTN4R in regulating neuronal precursor cell motility during cortical development (By similarity).

Gene Ontology (GO) - Molecular Function for LINGO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005154 epidermal growth factor receptor binding IBA --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with LINGO1: view
genes like me logo Genes that share phenotypes with LINGO1: view

Animal Models for LINGO1 Gene

MGI Knock Outs for LINGO1:

Animal Model Products

  • Taconic Biosciences Mouse Models for LINGO1

miRNA for LINGO1 Gene

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for LINGO1 Gene

Localization for LINGO1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LINGO1 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LINGO1 Gene COMPARTMENTS Subcellular localization image for LINGO1 gene
Compartment Confidence
plasma membrane 5
endoplasmic reticulum 1
extracellular 1

Gene Ontology (GO) - Cellular Components for LINGO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with LINGO1: view

Pathways & Interactions for LINGO1 Gene

genes like me logo Genes that share pathways with LINGO1: view

Pathways by source for LINGO1 Gene

1 Cell Signaling Technology pathway for LINGO1 Gene
1 BioSystems pathway for LINGO1 Gene

SIGNOR curated interactions for LINGO1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for LINGO1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IBA --
GO:0007409 axonogenesis IBA --
GO:0050771 negative regulation of axonogenesis TAS --
genes like me logo Genes that share ontologies with LINGO1: view

Transcripts for LINGO1 Gene

Unigene Clusters for LINGO1 Gene

Leucine rich repeat and Ig domain containing 1:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LINGO1 Gene

No ASD Table

Relevant External Links for LINGO1 Gene

GeneLoc Exon Structure for
LINGO1
ECgene alternative splicing isoforms for
LINGO1

Expression for LINGO1 Gene

mRNA expression in normal human tissues for LINGO1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LINGO1 Gene

This gene is overexpressed in Brain - Cortex (x9.2), Brain - Frontal Cortex (BA9) (x7.3), Brain - Anterior cingulate cortex (BA24) (x7.0), Brain - Hippocampus (x5.7), and Brain - Amygdala (x5.0).

Protein differential expression in normal tissues from HIPED for LINGO1 Gene

This gene is overexpressed in Brain (25.7), Fetal Brain (14.9), Pancreas (11.7), and Frontal cortex (11.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for LINGO1 Gene



Protein tissue co-expression partners for LINGO1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LINGO1 Gene:

LINGO1

SOURCE GeneReport for Unigene cluster for LINGO1 Gene:

Hs.656765

mRNA Expression by UniProt/SwissProt for LINGO1 Gene:

Q96FE5-LIGO1_HUMAN
Tissue specificity: Expressed exclusively in the central nervous system. Highest level in the in amygdala, hippocampus, thalamus and cerebral cortex. In the rest of the brain a basal expression seems to be always present. Up-regulated in substantia nigra neurons from Parkinson disease patients.
genes like me logo Genes that share expression patterns with LINGO1: view

Primer Products

Orthologs for LINGO1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for LINGO1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LINGO1 34 35
  • 99.73 (n)
cow
(Bos Taurus)
Mammalia LINGO1 34 35
  • 95.16 (n)
dog
(Canis familiaris)
Mammalia LINGO1 34 35
  • 94.84 (n)
oppossum
(Monodelphis domestica)
Mammalia LINGO1 35
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lingo1 34 16 35
  • 92.07 (n)
rat
(Rattus norvegicus)
Mammalia Lingo1 34
  • 92.04 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LINGO1 35
  • 85 (a)
OneToOne
chicken
(Gallus gallus)
Aves LINGO1 34 35
  • 84.28 (n)
lizard
(Anolis carolinensis)
Reptilia LINGO1 35
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lingo1 34
  • 73.98 (n)
zebrafish
(Danio rerio)
Actinopterygii lingo1a 34 35
  • 74.23 (n)
lingo1b 35
  • 72 (a)
OneToMany
Dr.12903 34
Species where no ortholog for LINGO1 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)
  • fruit fly (Drosophila melanogaster)
  • 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 squirt (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 LINGO1 Gene

ENSEMBL:
Gene Tree for LINGO1 (if available)
TreeFam:
Gene Tree for LINGO1 (if available)

Paralogs for LINGO1 Gene

genes like me logo Genes that share paralogs with LINGO1: view

Variants for LINGO1 Gene

Sequence variations from dbSNP and Humsavar for LINGO1 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type
rs1007537 -- 77,620,375(+) GGGAC(A/G)CTGAG intron-variant
rs1007538 -- 77,620,383(+) GAGCC(A/T)TCAGA intron-variant
rs1009466 -- 77,663,013(-) CCGGC(A/T)TCCCC intron-variant
rs10152354 -- 77,754,275(+) agaag(A/T)gtgga intron-variant
rs10459650 -- 77,618,278(+) CACAC(A/G)GGAAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LINGO1 Gene

Variant ID Type Subtype PubMed ID
dgv1246n106 CNV deletion 24896259
dgv1247n106 CNV deletion 24896259
dgv442n67 CNV loss 20364138
dgv443n67 CNV loss 20364138
dgv4660n54 CNV loss 21841781
dgv4661n54 CNV loss 21841781
dgv4662n54 CNV loss 21841781
dgv4663n54 CNV loss 21841781
dgv4664n54 CNV loss 21841781
dgv4665n54 CNV loss 21841781
dgv4666n54 CNV loss 21841781
dgv4667n54 CNV gain 21841781
dgv4668n54 CNV loss 21841781
dgv4669n54 CNV gain 21841781
dgv4670n54 CNV gain+loss 21841781
dgv4671n54 CNV loss 21841781
dgv4672n54 CNV gain 21841781
esv1008836 CNV loss 20482838
esv1180892 CNV insertion 17803354
esv1355090 CNV deletion 17803354
esv2102930 CNV deletion 18987734
esv21599 CNV loss 19812545
esv23682 CNV loss 19812545
esv23904 CNV loss 19812545
esv25321 CNV loss 19812545
esv2569789 CNV deletion 19546169
esv2662208 CNV deletion 23128226
esv2667411 CNV deletion 23128226
esv2675154 CNV deletion 23128226
esv2749898 CNV deletion 23290073
esv2749908 CNV deletion 23290073
esv2749909 CNV deletion 23290073
esv3305803 CNV mobile element insertion 20981092
esv3397637 CNV duplication 20981092
esv3422804 CNV duplication 20981092
esv3438594 CNV insertion 20981092
esv3552710 CNV deletion 23714750
esv3552712 CNV deletion 23714750
esv3553 CNV loss 18987735
esv3569742 CNV gain 25503493
esv3636974 CNV loss 21293372
esv3636975 CNV loss 21293372
esv3636976 CNV loss 21293372
esv4114 CNV loss 18987735
esv7445 CNV loss 19470904
esv7618 CNV loss 19470904
esv9490 CNV loss 19470904
esv996097 CNV deletion 20482838
nsv1036749 CNV gain 25217958
nsv1040852 CNV gain 25217958
nsv1070058 CNV deletion 25765185
nsv1070283 CNV deletion 25765185
nsv1071221 CNV deletion 25765185
nsv1116086 CNV deletion 24896259
nsv1116463 OTHER inversion 24896259
nsv1131205 CNV deletion 24896259
nsv1625 CNV insertion 18451855
nsv471255 CNV loss 18288195
nsv472256 CNV novel sequence insertion 20440878
nsv476397 CNV novel sequence insertion 20440878
nsv479401 CNV novel sequence insertion 20440878
nsv512407 CNV loss 21212237
nsv519383 CNV loss 19592680
nsv570142 CNV loss 21841781
nsv570150 CNV loss 21841781
nsv570159 CNV loss 21841781
nsv570171 CNV loss 21841781
nsv570172 CNV loss 21841781
nsv570173 CNV loss 21841781
nsv570190 CNV gain+loss 21841781
nsv819143 CNV loss 19587683
nsv827402 CNV loss 20364138
nsv827403 CNV loss 20364138
nsv833060 CNV gain 17160897
nsv833061 CNV loss 17160897
nsv833062 CNV loss 17160897
nsv94941 CNV deletion 16902084
nsv958021 CNV deletion 24416366

Variation tolerance for LINGO1 Gene

Residual Variation Intolerance Score: 8.07% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.83; 17.37% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LINGO1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LINGO1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LINGO1 Gene

Disorders for LINGO1 Gene

Relevant External Links for LINGO1

Genetic Association Database (GAD)
LINGO1
Human Genome Epidemiology (HuGE) Navigator
LINGO1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LINGO1

No disorders were found for LINGO1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LINGO1 Gene

Publications for LINGO1 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. (Eur. J. Neurosci. 2003) 2 3 4 22 64
  2. LINGO1 rs9652490 is associated with essential tremor and Parkinson disease. (PMID: 19720553) VilariA+o-GA1ell C. … Farrer M.J. (Parkinsonism Relat. Disord. 2010) 3 46 64
  3. LINGO1 polymorphisms are associated with essential tremor in Europeans. (PMID: 20310002) Thier S. … Klebe S. (Mov. Disord. 2010) 3 46 64
  4. Replication of the LINGO1 gene association with essential tremor in a North American population. (PMID: 20372186) Clark L.N. … Louis E.D. (Eur. J. Hum. Genet. 2010) 3 46 64
  5. Screening for two SNPs of LINGO1 gene in patients with essential tremor or sporadic Parkinson's disease in Chinese population. (PMID: 20600614) Zuo X. … Tang B.S. (Neurosci. Lett. 2010) 3 46 64

Products for LINGO1 Gene

Sources for LINGO1 Gene

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