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

Gene ID: 566572, updated on 2-Nov-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, Nov 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 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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