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lingo1b leucine rich repeat and Ig domain containing 1b [ Danio rerio (zebrafish) ]

Gene ID: 447837, updated on 9-Dec-2024

Summary

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Official Symbol
lingo1bprovided by ZNC
Official Full Name
leucine rich repeat and Ig domain containing 1bprovided by ZNC
Primary source
ZFIN:ZDB-GENE-040912-136
See related
Ensembl:ENSDARG00000035899 AllianceGenome:ZFIN:ZDB-GENE-040912-136
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
lingo1; zgc:92338
Summary
Predicted to enable epidermal growth factor receptor binding activity. Acts upstream of or within myelination and neuron development. Predicted to be located in plasma membrane. Predicted to be active in extracellular matrix and extracellular space. Is expressed in basal plate midbrain region; nervous system; neural plate; presumptive diencephalon; and presumptive telencephalon. Human ortholog(s) of this gene implicated in autosomal recessive intellectual developmental disorder 64 and glaucoma. Orthologous to human LINGO1 (leucine rich repeat and Ig domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
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Genomic context

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See lingo1b in Genome Data Viewer
Location:
chromosome: 7
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (48460226..48484917)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (48187010..48212198)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene cellular retinoic acid binding protein 1b Neighboring gene SIN3 transcription regulator family member Ab Neighboring gene potassium voltage-gated channel, KQT-like subfamily, member 1.1 Neighboring gene cyclin dependent kinase inhibitor 1Ca

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Biallelic variants in LINGO1 are associated with autosomal recessive intellectual disability, microcephaly, speech and motor delay. Ansar M, et al. Genet Med, 2018 Jul. PMID 28837161
  2. Transgenerational effects of developmental exposure to chlorpyrifos-oxon in zebrafish (DANIO RERIO). Schmitt C, et al. Toxicol Appl Pharmacol, 2020 Dec 1. PMID 33049267
  3. Comparative analyses of the neurobehavioral, molecular, and enzymatic effects of organophosphates on embryo-larval zebrafish (Danio rerio). Schmitt C, et al. Neurotoxicol Teratol, 2019 May-Jun. PMID 30978384
  4. Effects of 2,2',4,4'-tetrabromodiphenyl ether on neurobehavior and memory change and bcl-2, c-fos, grin1b and lingo1b gene expression in male zebrafish (Danio rerio). Zheng S, et al. Toxicol Appl Pharmacol, 2017 Oct 15. PMID 28807763
  5. Triclosan induces zebrafish neurotoxicity by abnormal expression of miR-219 targeting oligodendrocyte differentiation of central nervous system. Ling Y, et al. Arch Toxicol, 2020 Mar. PMID 32060586

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables epidermal growth factor receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within myelination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within neuron development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1-B
Names
leucine-rich repeat and Ig-domain containing 1

NCBI Reference Sequences (RefSeq)

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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_001004576.1 → NP_001004576.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1-B precursor

    See identical proteins and their annotated locations for NP_001004576.1

    Status: PROVISIONAL

    Source sequence(s)
    BC081651
    UniProtKB/Swiss-Prot
    A8BAU5, Q66HV9
    Related
    ENSDARP00000052112.5, ENSDART00000052113.6
    Conserved Domains (7) summary
    smart00013
    Location:43 → 77
    LRRNT; Leucine rich repeat N-terminal domain
    smart00410
    Location:438 → 516
    IG_like; Immunoglobulin like
    cd00116
    Location:78 → 315
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:75 → 98
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:314 → 373
    LRR_8; Leucine rich repeat
    cl11960
    Location:441 → 516
    Ig; Immunoglobulin domain
    cl15307
    Location:371 → 424
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007118.7 Reference GRCz11 Primary Assembly

    Range
    48460226..48484917
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005166467.5 → XP_005166524.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1-B isoform X1

    Conserved Domains (7) summary
    smart00013
    Location:42 → 76
    LRRNT; Leucine rich repeat N-terminal domain
    smart00410
    Location:437 → 515
    IG_like; Immunoglobulin like
    cd00116
    Location:77 → 314
    LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
    sd00033
    Location:74 → 97
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:313 → 372
    LRR_8; Leucine rich repeat
    cl11960
    Location:440 → 515
    Ig; Immunoglobulin domain
    cl15307
    Location:370 → 423
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q66HV9.1 GenPept UniProtKB/Swiss-Prot:Q66HV9

Gene LinkOut

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