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    Limd1 LIM domains containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 29806, updated on 13-Jan-2025

    Summary

    Official Symbol
    Limd1provided by MGI
    Official Full Name
    LIM domains containing 1provided by MGI
    Primary source
    MGI:MGI:1352502
    See related
    Ensembl:ENSMUSG00000025239 AllianceGenome:MGI:1352502
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    D9Ertd192e
    Summary
    Enables transcription corepressor activity. Involved in negative regulation of canonical Wnt signaling pathway; negative regulation of osteoblast differentiation; and osteoblast development. Located in cytoplasm. Is expressed in several structures, including branchial arch; early conceptus; genitourinary system; hemolymphoid system; and telencephalon. Orthologous to human LIMD1 (LIM domain containing 1). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Ubiquitous expression in large intestine adult (RPKM 22.1), spleen adult (RPKM 19.7) and 28 other tissues See more
    Orthologs
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    Genomic context

    See Limd1 in Genome Data Viewer
    Location:
    9 F4; 9 74.0 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (123306790..123350617)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (123478661..123521552)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene leucyl-tRNA synthetase, mitochondrial Neighboring gene predicted gene, 46137 Neighboring gene STARR-seq mESC enhancer starr_25567 Neighboring gene predicted gene, 40586 Neighboring gene STARR-positive B cell enhancer ABC_E5115 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:123428421-123428574 Neighboring gene STARR-positive B cell enhancer ABC_E717 Neighboring gene nuclear encoded tRNA arginine 2 (anticodon ACG) Neighboring gene SAC1 suppressor of actin mutations 1-like (yeast)

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 
    • Targeted (1)  1 citation

    Interactions

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables metal ion binding  
    enables protein binding PubMed 
    enables transcription corepressor activity  
    enables transcription corepressor activity PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within P-body assembly  
    involved_in cell migration  
    involved_in cell migration  
    involved_in cytoskeleton organization  
    involved_in cytoskeleton organization  
    involved_in cytoskeleton organization  
    involved_in miRNA-mediated gene silencing by inhibition of translation  
    involved_in miRNA-mediated gene silencing by inhibition of translation  
    acts_upstream_of_or_within miRNA-mediated post-transcriptional gene silencing  
    involved_in negative regulation of DNA-templated transcription  
    involved_in negative regulation of DNA-templated transcription  
    involved_in negative regulation of canonical Wnt signaling pathway PubMed 
    involved_in negative regulation of hippo signaling  
    involved_in negative regulation of hippo signaling  
    involved_in negative regulation of hippo signaling  
    involved_in negative regulation of osteoblast differentiation PubMed 
    involved_in osteoblast development PubMed 
    involved_in phosphorylation  
    involved_in phosphorylation  
    involved_in regulation of DNA-templated transcription  
    involved_in regulation of cell shape  
    involved_in regulation of cell shape  
    involved_in response to hypoxia  
    involved_in response to hypoxia  
    involved_in response to hypoxia  
    Component Evidence Code Pubs
    is_active_in P-body  
    located_in P-body  
    part_of RISC complex  
    is_active_in adherens junction  
    located_in adherens junction  
    located_in adherens junction  
    located_in cytoplasm PubMed 
    located_in cytoplasm  
    located_in focal adhesion  
    located_in focal adhesion  
    located_in nucleoplasm  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus  
    located_in nucleus  
    located_in plasma membrane  
    located_in plasma membrane  
    part_of transcription regulator complex  

    General protein information

    Preferred Names
    LIM domain-containing protein 1

    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_001410486.1NP_001397415.1  LIM domain-containing protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC125254, AC132852
    2. NM_013860.3NP_038888.2  LIM domain-containing protein 1 isoform 1

      See identical proteins and their annotated locations for NP_038888.2

      Status: VALIDATED

      Source sequence(s)
      AC125254, AC132852
      Consensus CDS
      CCDS23660.1
      UniProtKB/Swiss-Prot
      Q8C8G4, Q9CW55, Q9QXD8
      Related
      ENSMUSP00000026269.3, ENSMUST00000026269.4
      Conserved Domains (3) summary
      cd09352
      Location:464517
      LIM1_Ajuba_like; The first LIM domain of Ajuba-like proteins
      cd09355
      Location:529581
      LIM2_Ajuba_like; The second LIM domain of Ajuba-like proteins
      cd09438
      Location:589650
      LIM3_Ajuba_like; The third LIM domain of Ajuba-like proteins

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      123306790..123350617
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036155046.1XP_036010939.1  LIM domain-containing protein 1 isoform X2

      Conserved Domains (2) summary
      PRK04654
      Location:92162
      PRK04654; sec-independent translocase; Provisional
      cl02475
      Location:464495
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
    2. XM_011242977.3XP_011241279.1  LIM domain-containing protein 1 isoform X3

      Conserved Domains (1) summary
      PRK04654
      Location:92162
      PRK04654; sec-independent translocase; Provisional
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