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LINGO1 leucine rich repeat and Ig domain containing 1 [ Homo sapiens (human) ]

Gene ID: 84894, updated on 22-Sep-2018

Summary

Official Symbol
LINGO1provided by HGNC
Official Full Name
leucine rich repeat and Ig domain containing 1provided by HGNC
Primary source
HGNC:HGNC:21205
See related
Ensembl:ENSG00000169783 MIM:609791; Vega:OTTHUMG00000172629
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LERN1; MRT64; LRRN6A; UNQ201
Expression
Biased expression in brain (RPKM 24.2), placenta (RPKM 1.9) and 3 other tissues See more
Orthologs

Genomic context

See LINGO1 in Genome Data Viewer
Location:
15q24.3
Exon count:
17
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 15 NC_000015.10 (77613024..77820900, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (77905369..77988490, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene pseudopodium enriched atypical kinase 1 Neighboring gene high mobility group 20A Neighboring gene uncharacterized LOC101929457 Neighboring gene uncharacterized LOC105370906 Neighboring gene LINGO1 antisense RNA 1 Neighboring gene LINGO1 antisense RNA 2 Neighboring gene chondroitin sulfate proteoglycan 4 pseudogene 13 Neighboring gene dynamin 1 pseudogene 9

Genomic regions, transcripts, and products

Expression

  • 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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
MENTAL RETARDATION, AUTOSOMAL RECESSIVE 64
MedGen: CN253431 OMIM: 618103 GeneReviews: Not available
not available

NHGRI GWAS Catalog

Description
A genome-wide association study of the Protein C anticoagulant pathway.
NHGRI GWA Catalog
Variant in the sequence of the LINGO1 gene confers risk of essential tremor.
NHGRI GWA Catalog

Pathways from BioSystems

  • 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...
  • Brain-Derived Neurotrophic Factor (BDNF) signaling pathway, organism-specific biosystem (from WikiPathways)
    Brain-Derived Neurotrophic Factor (BDNF) signaling pathway, organism-specific biosystemBrain-derived neurotrophic factor (BDNF) is a neurotrophin essential for growth, differentiation, plasticity, and survival of neurons. BDNF is also required for processes such as energy metabolism, b...
  • 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...
  • 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 ...
  • 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,...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ14594, MGC17422

Gene Ontology Provided by GOA

Function Evidence Code Pubs
epidermal growth factor receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
negative regulation of axonogenesis TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1
Names
leucine rich repeat neuronal 6A
leucine-rich repeat and immunoglobulin domain-containing protein 1
leucine-rich repeat neuronal protein 1

NCBI Reference Sequences (RefSeq)

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.

mRNA and Protein(s)

  1. NM_001301186.1NP_001288115.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288115.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, DA150164, DA232085, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  2. NM_001301187.1NP_001288116.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288116.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, BI669707, DA232085, DA787289, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  3. NM_001301189.1NP_001288118.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288118.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, BX355455, DA232085, DA494936, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  4. NM_001301191.1NP_001288120.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288120.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, BI669707, DA483616, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  5. NM_001301192.1NP_001288121.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288121.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, BI669707, DA182630, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  6. NM_001301194.1NP_001288123.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288123.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, BI669707, DA525603, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  7. NM_001301195.1NP_001288124.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288124.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AC105133, AC110607, AK027500, BC011057, BI825536, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  8. NM_001301197.1NP_001288126.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288126.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (9) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, DA328735, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  9. NM_001301198.1NP_001288127.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288127.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (10) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, DB165168, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  10. NM_001301199.1NP_001288128.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288128.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (11) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, DA410114, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  11. NM_001301200.1NP_001288129.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform b precursor

    See identical proteins and their annotated locations for NP_001288129.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (12) contains alternate 5' exon structure and thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a. Variants 2 through 12 all encode isoform b.
    Source sequence(s)
    AK027500, BC011057, BC068558, DA183673, HY342106
    Consensus CDS
    CCDS73766.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Related
    ENSP00000453853.1, OTTHUMP00000248894, ENST00000561030.5, OTTHUMT00000419548
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  12. NM_032808.6NP_116197.4  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform a precursor

    See identical proteins and their annotated locations for NP_116197.4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a).
    Source sequence(s)
    AK027500, BC011057, BI523562, HY342106
    Consensus CDS
    CCDS45313.1
    UniProtKB/Swiss-Prot
    Q96FE5
    Related
    ENSP00000347451.6, OTTHUMP00000248893, ENST00000355300.6, OTTHUMT00000419546
    Conserved Domains (4) summary
    TIGR00864
    Location:341421
    PCC; polycystin cation channel protein
    COG4886
    Location:66371
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:7396
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:439514
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p12 Primary Assembly

    Range
    77613024..77820900 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017022682.1XP_016878171.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  2. XM_024450091.1XP_024305859.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform X1

    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
  3. XM_011522118.2XP_011520420.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011520420.1

    UniProtKB/Swiss-Prot
    Q96FE5
    Conserved Domains (4) summary
    TIGR00864
    Location:335415
    PCC; polycystin cation channel protein
    COG4886
    Location:60365
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:6790
    LRR_RI; leucine-rich repeat [structural motif]
    cl11960
    Location:433508
    Ig; Immunoglobulin domain
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