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    Lrrc47 leucine rich repeat containing 47 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362672, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Lrrc47provided by RGD
    Official Full Name
    leucine rich repeat containing 47provided by RGD
    Primary source
    RGD:1308599
    See related
    EnsemblRapid:ENSRNOG00000024796 AllianceGenome:RGD:1308599
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1308599
    Summary
    Predicted to enable RNA binding activity. Predicted to contribute to phenylalanine-tRNA ligase activity. Predicted to be involved in phenylalanyl-tRNA aminoacylation. Orthologous to human LRRC47 (leucine rich repeat containing 47). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 190.3), Thymus (RPKM 158.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lrrc47 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (169852926..169862598)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (164570539..164580174)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (171297850..171307682)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene DNA fragmentation factor subunit beta Neighboring gene centrosomal protein 104 Neighboring gene uncharacterized LOC120103048 Neighboring gene small integral membrane protein 1 (Vel blood group) Neighboring gene coiled-coil domain containing 27 Neighboring gene uncharacterized LOC102551562 Neighboring gene uncharacterized LOC134479057

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article
    2. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article
    3. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
    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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    contributes_to phenylalanine-tRNA ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in phenylalanyl-tRNA aminoacylation IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 47

    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_001135666.1 → NP_001129138.1  leucine-rich repeat-containing protein 47

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6IUK1, F1LT49
      Related
      ENSRNOP00000036336.6, ENSRNOT00000034284.7
      Conserved Domains (4) summary
      smart00873
      Location:331 → 504
      B3_4; B3/4 domain
      cd00116
      Location:33 → 259
      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:53 → 77
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:76 → 142
      LRR_8; Leucine rich repeat

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      169852926..169862598
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063288094.1 → XP_063144164.1  leucine-rich repeat-containing protein 47 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version

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