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    lrrc4ca leucine rich repeat containing 4C, genome duplicate a [ Danio rerio (zebrafish) ]

    Gene ID: 553785, updated on 9-Dec-2024

    Summary

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    Official Symbol
    lrrc4caprovided by ZNC
    Official Full Name
    leucine rich repeat containing 4C, genome duplicate aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050522-533
    See related
    Ensembl:ENSDARG00000113411 AllianceGenome:ZFIN:ZDB-GENE-050522-533
    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
    lrrc4c; fd12d10; wu:fd12d10; zgc:110565
    Summary
    Predicted to enable cell-cell adhesion mediator activity. Predicted to be involved in modulation of chemical synaptic transmission; regulation of axonogenesis; and synaptic membrane adhesion. Predicted to be located in membrane. Predicted to be active in glutamatergic synapse and postsynaptic density membrane. Is expressed in central nervous system and eye. Orthologous to human LRRC4C (leucine rich repeat containing 4C). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See lrrc4ca in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (9675873..10060057, complement)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137489330 Neighboring gene uncharacterized LOC108181606 Neighboring gene uncharacterized LOC110438403 Neighboring gene uncharacterized LOC137489391 Neighboring gene paraneoplastic antigen Ma1 homolog Neighboring gene ets homologous factor

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_007136.7 Chromosome 25 Reference GRCz11 Primary Assembly

    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. Post-GWAS screening of candidate genes for refractive error in mutant zebrafish models. Quint WH, et al. Sci Rep, 2023 Feb 3. PMID 36737489, Free PMC Article
    2. A cell surface interaction network of neural leucine-rich repeat receptors. Söllner C, et al. Genome Biol, 2009. PMID 19765300, Free PMC Article
    3. The impact of gene expression regulation on evolution of extracellular signaling pathways. Charoensawan V, et al. Mol Cell Proteomics, 2010 Dec. PMID 20935258, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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

    Clone Names

    • MGC110565

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables cell-cell adhesion mediator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in modulation of chemical synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of axonogenesis 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 4C, genome duplicate a

    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_001020747.1 → NP_001018583.1  leucine rich repeat containing 4C, genome duplicate a precursor

      See identical proteins and their annotated locations for NP_001018583.1

      Status: PROVISIONAL

      Source sequence(s)
      BC095314
      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7
      Related
      ENSDARP00000152718.1, ENSDART00000192048.1
      Conserved Domains (5) summary
      smart00013
      Location:48 → 81
      LRRNT; Leucine rich repeat N-terminal domain
      smart00082
      Location:302 → 340
      LRRCT; Leucine rich repeat C-terminal domain
      smart00409
      Location:361 → 443
      IG; Immunoglobulin
      COG4886
      Location:78 → 288
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:79 → 102
      LRR_RI; leucine-rich repeat [structural motif]

    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_007136.7 Reference GRCz11 Primary Assembly

      Range
      9675873..10060057 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068217375.1 → XP_068073476.1  leucine rich repeat containing 4C, genome duplicate a isoform X1

      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7

    2. XM_068217373.1 → XP_068073474.1  leucine rich repeat containing 4C, genome duplicate a isoform X1

      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7

    3. XM_068217376.1 → XP_068073477.1  leucine rich repeat containing 4C, genome duplicate a isoform X1

      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7

    4. XM_068217374.1 → XP_068073475.1  leucine rich repeat containing 4C, genome duplicate a isoform X1

      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7

    5. XM_068217377.1 → XP_068073478.1  leucine rich repeat containing 4C, genome duplicate a isoform X1

      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7

    6. XM_021470492.2 → XP_021326167.1  leucine rich repeat containing 4C, genome duplicate a isoform X1

      UniProtKB/TrEMBL
      A0A8M1N6B6, Q503I7
      Conserved Domains (5) summary
      smart00013
      Location:48 → 81
      LRRNT; Leucine rich repeat N-terminal domain
      smart00082
      Location:302 → 340
      LRRCT; Leucine rich repeat C-terminal domain
      smart00409
      Location:361 → 443
      IG; Immunoglobulin
      COG4886
      Location:78 → 288
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:79 → 102
      LRR_RI; leucine-rich repeat [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version

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