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

Gene ID: 362051, updated on 14-Nov-2024

Summary

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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
human mouse all
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Genomic context

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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

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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. Downstream targets of Lmo4 are modulated by cisplatin in the inner ear of Wistar rats. Jamesdaniel S. PLoS One, 2014. PMID 25501662, Free PMC Article
  2. Extracellular ATP-dependent upregulation of the transcription cofactor LMO4 promotes neuron survival from hypoxia. Chen HH, et al. Exp Cell Res, 2007 Aug 15. PMID 17524392
  3. Null mutation of the Lmo4 gene or a combined null mutation of the Lmo1/Lmo3 genes causes perinatal lethality, and Lmo4 controls neural tube development in mice. Tse E, et al. Mol Cell Biol, 2004 Mar. PMID 14966285, Free PMC Article
  4. Recruitment and activation of SLK at the leading edge of migrating cells requires Src family kinase activity and the LIM-only protein 4. Baron KD, et al. Biochim Biophys Acta, 2015 Jul. PMID 25882817
  5. A novel role for transcription factor Lmo4 in thymus development through genetic interaction with Cited2. Michell AC, et al. Dev Dyn, 2010 Jul. PMID 20549734, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Authors provided the first evidence of in vivo nitration of Lmo4 in cisplatin ototoxicity.
    Title: Downstream targets of Lmo4 are modulated by cisplatin in the inner ear of Wistar rats.
  2. Data reveal that LMO4 is a rapidly induced downstream effector of ATP signaling that promotes neuron survival from hypoxia.
    Title: Extracellular ATP-dependent upregulation of the transcription cofactor LMO4 promotes neuron survival from hypoxia.
Submit: New GeneRIF Correction

General gene information

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Homology

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

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Preferred Names
LIM domain transcription factor LMO4

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_001009708.1 → NP_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:23 → 77
    LIM1_LMO4; The first LIM domain of LMO4 (LIM domain only protein 4)
    cd09387
    Location:87 → 141
    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_006233438.4 → XP_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:23 → 77
    LIM1_LMO4; The first LIM domain of LMO4 (LIM domain only protein 4)
    cd09387
    Location:87 → 141
    LIM2_LMO4; The second LIM domain of LMO4 (LIM domain only protein 4)

  2. XM_063282227.1 → XP_063138297.1  LIM domain transcription factor LMO4 isoform X1

    Related
    ENSRNOP00000102463.1, ENSRNOT00000163257.1

  3. XM_063282228.1 → XP_063138298.1  LIM domain transcription factor LMO4 isoform X1

Nucleotide Protein Strain
Heading Accession and Version

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