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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
    all
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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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