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    Lmo3 LIM domain only 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 497798, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Lmo3provided by RGD
    Official Full Name
    LIM domain only 3provided by RGD
    Primary source
    RGD:1561357
    See related
    EnsemblRapid:ENSRNOG00000047450 AllianceGenome:RGD:1561357
    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
    RGD1561357
    Summary
    Predicted to enable DNA-binding transcription factor binding activity and transcription coactivator activity. Predicted to be involved in positive regulation of fat cell differentiation; positive regulation of transcription by RNA polymerase II; and regulation of intracellular signal transduction. Predicted to act upstream of or within exploration behavior. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human LMO3 (LIM domain only 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 133.9) and Heart (RPKM 15.4) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lmo3 in Genome Data Viewer
    Location:
    4q44
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (172965944..173028980, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (171234686..171297677, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (172942023..173005630)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486653 Neighboring gene uncharacterized LOC102547371 Neighboring gene uncharacterized LOC102547496 Neighboring gene immunoglobulin (CD79A) binding protein 1b Neighboring gene uncharacterized LOC102547697

    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 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. The highly related LIM factors, LMO1, LMO3 and LMO4, play different roles in the regulation of the pituitary glycoprotein hormone alpha-subunit (alpha GSU) gene. Susa T, et al. Biosci Rep, 2009 Oct 9. PMID 19228115
    2. Human but not mouse adipogenesis is critically dependent on LMO3. Lindroos J, et al. Cell Metab, 2013 Jul 2. PMID 23823477, Free PMC Article
    3. 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 RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within exploration behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of ERK1 and ERK2 cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT acts_upstream_of_or_within positive regulation of fat cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of fat cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of glucocorticoid receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of peroxisome proliferator activated receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    LIM domain only protein 3

    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_001399648.1 → NP_001386577.1  LIM domain only protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I6AP95
      Related
      ENSRNOP00000095472.1, ENSRNOT00000111947.2
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    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_086022.1 Reference GRCr8

      Range
      172965944..173028980 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008763453.4 → XP_008761675.1  LIM domain only protein 3 isoform X2

      See identical proteins and their annotated locations for XP_008761675.1

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    2. XM_006237588.5 → XP_006237650.1  LIM domain only protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006237650.1

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    3. XM_017593063.3 → XP_017448552.1  LIM domain only protein 3 isoform X2

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    4. XM_063286458.1 → XP_063142528.1  LIM domain only protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AP95

    5. XM_039108873.2 → XP_038964801.1  LIM domain only protein 3 isoform X2

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    6. XM_017593062.3 → XP_017448551.1  LIM domain only protein 3 isoform X2

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    7. XM_006237590.5 → XP_006237652.1  LIM domain only protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006237652.1

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    8. XM_006237585.5 → XP_006237647.1  LIM domain only protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006237647.1

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      M0R4L0
      Related
      ENSRNOP00000064297.2, ENSRNOT00000072450.4
      Conserved Domains (2) summary
      cd09388
      Location:24 → 78
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:88 → 142
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)

    9. XM_006237591.5 → XP_006237653.1  LIM domain only protein 3 isoform X2

      See identical proteins and their annotated locations for XP_006237653.1

      UniProtKB/Swiss-Prot
      Q99MB5
      UniProtKB/TrEMBL
      A0A8I6AP95
      Conserved Domains (2) summary
      cd09388
      Location:13 → 67
      LIM1_LMO1_LMO3; The first LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
      cd09389
      Location:77 → 131
      LIM2_LMO1_LMO3; The second LIM domain of LMO1 and LMO3 (LIM domain only protein 1 and 3)
    Nucleotide Protein Strain
    Heading Accession and Version

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