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    Lmo4 LIM domain only 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362051, updated on 27-Nov-2024

    Summary

    Official Symbol
    Lmo4provided by RGD
    Official Full Name
    LIM domain only 4provided by RGD
    Primary source
    RGD:1305670
    See related
    EnsemblRapid:ENSRNOG00000009205 AllianceGenome:RGD:1305670
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA-binding transcription factor binding activity and transcription corepressor activity. Predicted to be involved in several processes, including negative regulation of transcription by RNA polymerase II; neuron differentiation; and positive regulation of kinase activity. Predicted to act upstream of or within several processes, including cell differentiation in spinal cord; neural tube closure; and thymus development. Predicted to be located in cell leading edge and nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Orthologous to human LMO4 (LIM domain only 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Heart (RPKM 161.3), Thymus (RPKM 149.1) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Lmo4 in Genome Data Viewer
    Location:
    2q44
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (235924574..235941609, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (233264180..233280881, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (250218635..250235435, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102546938 Neighboring gene uncharacterized LOC120100960 Neighboring gene uncharacterized LOC120100961 Neighboring gene uncharacterized LOC134485988 Neighboring gene uncharacterized LOC134485989

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Clone Names

    • MGC105593

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables transcription corepressor activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in motor neuron axon guidance ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within negative regulation of protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neural tube closure ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neural tube closure ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of cell activation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of cell fate specification ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within spinal cord association neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spinal cord motor neuron cell fate specification ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within spinal cord motor neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within thymus development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within ventral spinal cord interneuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within ventricular septum development ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell leading edge ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    LIM domain transcription factor LMO4

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001009708.1NP_001009708.1  LIM domain transcription factor LMO4

      See identical proteins and their annotated locations for NP_001009708.1

      Status: PROVISIONAL

      Source sequence(s)
      BC087700
      UniProtKB/TrEMBL
      F7EU01, Q5PPG8
      Related
      ENSRNOP00000062436.1, ENSRNOT00000067502.4
      Conserved Domains (2) summary
      cd09386
      Location:2377
      LIM1_LMO4; The first LIM domain of LMO4 (LIM domain only protein 4)
      cd09387
      Location:87141
      LIM2_LMO4; The second LIM domain of LMO4 (LIM domain only protein 4)

    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_086020.1 Reference GRCr8

      Range
      235924574..235941609 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006233438.4XP_006233500.1  LIM domain transcription factor LMO4 isoform X2

      See identical proteins and their annotated locations for XP_006233500.1

      UniProtKB/TrEMBL
      F7EU01, Q5PPG8
      Conserved Domains (2) summary
      cd09386
      Location:2377
      LIM1_LMO4; The first LIM domain of LMO4 (LIM domain only protein 4)
      cd09387
      Location:87141
      LIM2_LMO4; The second LIM domain of LMO4 (LIM domain only protein 4)
    2. XM_063282227.1XP_063138297.1  LIM domain transcription factor LMO4 isoform X1

      Related
      ENSRNOP00000102463.1, ENSRNOT00000163257.1
    3. XM_063282228.1XP_063138298.1  LIM domain transcription factor LMO4 isoform X1