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

Summary

Official Symbol: Lmcd1provided by RGD
Official Full Name: LIM and cysteine-rich domains 1provided by RGD
Primary source: RGD:1308963
See related: Ensembl: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 located in cytoplasm. Predicted to be active in nucleus. Orthologous to human LMCD1 (LIM and cysteine rich domains 1). [provided by Alliance of Genome Resources, Apr 2022]
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

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_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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

D4Got119 (e-PCR)
- UniSTS:112698

AI071230 (e-PCR)
- UniSTS:244322

AW455500 (e-PCR)
- UniSTS:179431

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)

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, ENSRNOT00000007523.6

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