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Lmcd1 LIM and cysteine-rich domains 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 494021, updated on 2-Nov-2024

Summary

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Official Symbol
Lmcd1provided by RGD
Official Full Name
LIM and cysteine-rich domains 1provided by RGD
Primary source
RGD:1308963
See related
EnsemblRapid:ENSRNOG00000005690 AllianceGenome:RGD:1308963
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
Also known as
LIMD1
Summary
Predicted to enable transcription corepressor activity. Predicted to be involved in positive regulation of calcineurin-NFAT signaling cascade and regulation of cardiac muscle hypertrophy. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human LMCD1 (LIM and cysteine rich domains 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Muscle (RPKM 547.0), Heart (RPKM 355.2) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Lmcd1 in Genome Data Viewer
Location:
4q41
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (146948993..147007878)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (145393153..145452049)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (144192989..144252554)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486832 Neighboring gene eukaryotic translation elongation factor 1 alpha 1, pseudogene 16 Neighboring gene ssu-2 homolog Neighboring gene caveolin 3

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. A novel p38 MAPK target dyxin is rapidly induced by mechanical load in the heart. Luosujärvi H, et al. Blood Press, 2010 Feb. PMID 20175653
  2. Myristoylation of LMCD1 Leads to Its Species-Specific Derepression of E2F1 and NFATc1 in the Modulation of CDC6 and IL-33 Expression During Development of Vascular Lesions. Govatati S, et al. Arterioscler Thromb Vasc Biol, 2020 May. PMID 32160773, Free PMC Article
  3. LIM and cysteine-rich domains 1 regulates cardiac hypertrophy by targeting calcineurin/nuclear factor of activated T cells signaling. Bian ZY, et al. Hypertension, 2010 Feb. PMID 20026769
  4. LMCD1/Dyxin is a novel transcriptional cofactor that restricts GATA6 function by inhibiting DNA binding. Rath N, et al. Mol Cell Biol, 2005 Oct. PMID 16199866, Free PMC Article
  5. Proteomics characterization of extracellular space components in the human aorta. Didangelos A, et al. Mol Cell Proteomics, 2010 Sep. PMID 20551380, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A novel p38 MAPK target dyxin may play an important role in regulating hypertrophic process.
    Title: A novel p38 MAPK target dyxin is rapidly induced by mechanical load in the heart.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables transcription corepressor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription corepressor activity ISO
Inferred from Sequence Orthology
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of calcineurin-NFAT signaling cascade ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of cardiac muscle hypertrophy ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
LIM and cysteine-rich domains protein 1
Names
dyxin

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_001008562.1 → NP_001008562.1  LIM and cysteine-rich domains protein 1

    See identical proteins and their annotated locations for NP_001008562.1

    Status: PROVISIONAL

    Source sequence(s)
    BC079071
    UniProtKB/TrEMBL
    A6IBM6, Q6AYF2
    Related
    ENSRNOP00000007523.4, ENSRNOT00000007523.7
    Conserved Domains (3) summary
    cd09340
    Location:243 → 300
    LIM1_Testin_like; The first LIM domain of Testin-like family
    cd09829
    Location:116 → 203
    PET_testin; The PET domain of Testin
    cl02475
    Location:306 → 359
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

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
    146948993..147007878
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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