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    lrrc40 leucine rich repeat containing 40 [ Danio rerio (zebrafish) ]

    Gene ID: 334130, updated on 9-Dec-2024

    Summary

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    Official Symbol
    lrrc40provided by ZNC
    Official Full Name
    leucine rich repeat containing 40provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-6062
    See related
    Ensembl:ENSDARG00000017708 AllianceGenome:ZFIN:ZDB-GENE-030131-6062
    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
    fi33a12; zgc:63729; wu:fi33a12
    Summary
    Predicted to be involved in intracellular signal transduction. Orthologous to human LRRC40 (leucine rich repeat containing 40). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See lrrc40 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (30113786..30122554)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (30123225..30131993)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene discs large MAGUK scaffold protein 1a Neighboring gene uncharacterized LOC137495973 Neighboring gene melanotransferrin Neighboring gene leucine rich repeat containing 7 Neighboring gene transfer RNA glycine (anticodon UCC) Neighboring gene shroom family member 2a

    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. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. 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
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    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 intracellular signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 40

    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_199862.2 → NP_956156.2  leucine-rich repeat-containing protein 40

      See identical proteins and their annotated locations for NP_956156.2

      Status: PROVISIONAL

      Source sequence(s)
      AY394934
      UniProtKB/Swiss-Prot
      Q6TLH1, Q7SXW3
      Related
      ENSDARP00000016699.9, ENSDART00000022586.10
      Conserved Domains (3) summary
      cd00116
      Location:99 → 343
      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:82 → 104
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:196 → 253
      LRR_8; Leucine rich repeat

    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_007117.7 Reference GRCz11 Primary Assembly

      Range
      30113786..30122554
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7SXW3.1 GenPept UniProtKB/Swiss-Prot:Q7SXW3

    Gene LinkOut

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