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    lrrc4.2 leucine rich repeat containing 4.2 [ Danio rerio (zebrafish) ]

    Gene ID: 566572, updated on 9-Dec-2024

    Summary

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    Official Symbol
    lrrc4.2provided by ZNC
    Official Full Name
    leucine rich repeat containing 4.2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-7997
    See related
    Ensembl:ENSDARG00000003020 AllianceGenome:ZFIN:ZDB-GENE-030131-7997
    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
    lrrc4; lrrc4b; fj45h06; wu:fj45h06; si:dkeyp-113f10.1
    Summary
    Predicted to be involved in modulation of chemical synaptic transmission and synapse organization. Predicted to be located in membrane. Predicted to be active in glutamatergic synapse and postsynaptic density membrane. Orthologous to human LRRC4 (leucine rich repeat containing 4). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See lrrc4.2 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    1
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (10296228..10298162, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (10326230..10330889, complement)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene hepatocyte growth factor b Neighboring gene uncharacterized LOC137488255 Neighboring gene uncharacterized LOC137488256 Neighboring gene microRNA mir-129-3

    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. The LRR receptor Islr2 is required for retinal axon routing at the vertebrate optic chiasm. Panza P, et al. Neural Dev, 2015 Oct 22. PMID 26492970, Free PMC Article
    2. Evolution of gene function and regulatory control after whole-genome duplication: comparative analyses in vertebrates. Kassahn KS, et al. Genome Res, 2009 Aug. PMID 19439512, Free PMC Article
    3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in excitatory synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in modulation of chemical synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in postsynaptic density protein 95 clustering IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in synaptic membrane adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic density membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 4.2
    Names
    leucine rich repeat containing 4
    leucine rich repeat containing 4b
    lrrc4a

    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_001100024.1 → NP_001093494.1  leucine-rich repeat-containing protein 4.2 precursor

      See identical proteins and their annotated locations for NP_001093494.1

      Status: PROVISIONAL

      Source sequence(s)
      CT025752
      UniProtKB/TrEMBL
      A0A8M1NE02, A5WVM1
      Related
      ENSDARP00000005494.6, ENSDART00000007520.7
      Conserved Domains (6) summary
      smart00082
      Location:294 → 345
      LRRCT; Leucine rich repeat C-terminal domain
      smart00410
      Location:353 → 435
      IG_like; Immunoglobulin like
      cd00116
      Location:74 → 276
      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:71 → 94
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:72 → 129
      LRR_8; Leucine rich repeat
      cl11960
      Location:365 → 435
      Ig; Immunoglobulin 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_007129.7 Reference GRCz11 Primary Assembly

      Range
      10296228..10298162 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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