Lgmn legumain [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lgmnprovided by RGD
Official Full Name: legumainprovided by RGD
Primary source: RGD:619832
See related: EnsemblRapid:ENSRNOG00000007089 AllianceGenome:RGD:619832
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: Prsc1
Summary: Enables cysteine-type endopeptidase activity. Predicted to be involved in several processes, including learning or memory; positive regulation of chemotaxis; and protein processing. Predicted to act upstream of or within negative regulation of neuron apoptotic process; regulation of growth; and response to acidic pH. Located in lysosome. Orthologous to human LGMN (legumain). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 2645.7), Spleen (RPKM 942.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q32

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (127308913..127347355, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (121544048..121582495, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (126282246..126308207, complement)

Chromosome 6 - NC_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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 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?

Legumain and Smad3 expression is highly expressed in mainly atherosclerotic plaque macrophages.
Title: Increased Legumain/Smad3 expression in atherosclerotic plaque of rat thoracic aorta.
Lgmn was upregulated in lung tissues of PAH rats challenged with monocrotaline. The synthetic specific Lgmn inhibitor RR-11a protects against PAH.
Title: Macrophage-Derived Legumain Promotes Pulmonary Hypertension by Activating the MMP (Matrix Metalloproteinase)-2/TGF (Transforming Growth Factor)-β1 Signaling.
Full-length (45 kDa) endogenous BHMT was found to be cleaved in an autophagy-dependent (3-methyladenine-sensitive) manner in isolated rat hepatocytes to generate a novel N-terminal 10-kDa fragment (p10), at the cleavage site of legumain.
Title: Autophagic activity measured in whole rat hepatocytes as the accumulation of a novel BHMT fragment (p10), generated in amphisomes by the asparaginyl proteinase, legumain.
Observed is an increase of legumain expression in the peri-infarct area of rats after transient occlusion of the middle cerebral artery for 120 mins with a maximum expression at 24 and 48 h.
Title: The asparaginyl endopeptidase legumain after experimental stroke.

Submit: New GeneRIF Correction

General gene information

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Markers

D6Hmgc6 (e-PCR)
- UniSTS:530844

RH140587 (e-PCR)
- UniSTS:222656

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cysteine-type endopeptidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables cysteine-type endopeptidase activity	IEA Inferred from Electronic Annotation more info
enables cysteine-type endopeptidase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables cysteine-type endopeptidase activity	ISO Inferred from Sequence Orthology more info
enables cysteine-type endopeptidase activity	ISS Inferred from Sequence or Structural Similarity more info
enables endopeptidase activator activity	ISO Inferred from Sequence Orthology more info
enables peptidase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in activation of cysteine-type endopeptidase activity	ISO Inferred from Sequence Orthology more info
involved_in antigen processing and presentation of exogenous peptide antigen via MHC class II	ISO Inferred from Sequence Orthology more info
involved_in antigen processing and presentation of exogenous peptide antigen via MHC class II	ISS Inferred from Sequence or Structural Similarity more info
involved_in associative learning	ISO Inferred from Sequence Orthology more info
involved_in cellular response to amyloid-beta	ISO Inferred from Sequence Orthology more info
involved_in cellular response to calcium ion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hepatocyte growth factor stimulus	ISO Inferred from Sequence Orthology more info
involved_in dendritic spine organization	ISO Inferred from Sequence Orthology more info
involved_in memory	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ERBB signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ERBB signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of multicellular organism growth	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endothelial cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of monocyte chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in protein maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within proteolysis	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	ISS Inferred from Sequence or Structural Similarity more info
involved_in proteolysis involved in protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in proteolysis involved in protein catabolic process	IEA Inferred from Electronic Annotation more info
involved_in proteolysis involved in protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in proteolysis involved in protein catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in receptor catabolic process	ISO Inferred from Sequence Orthology more info
involved_in receptor catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in renal system process	ISO Inferred from Sequence Orthology more info
involved_in renal system process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within response to acidic pH	ISO Inferred from Sequence Orthology more info
involved_in response to acidic pH	ISO Inferred from Sequence Orthology more info
involved_in self proteolysis	ISO Inferred from Sequence Orthology more info
involved_in vacuolar protein processing	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in apical part of cell	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
is_active_in lysosomal lumen	ISO Inferred from Sequence Orthology more info
is_active_in lysosomal lumen	ISS Inferred from Sequence or Structural Similarity more info
located_in lysosome	IDA Inferred from Direct Assay more info	PubMed
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: legumain

Names: asparaginyl endopeptidase; protease, cysteine 1; protease, cysteine, 1 (legumain)

NP_071562.3

EC 3.4.22.34

XP_038968798.1

EC 3.4.22.34

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_022226.3 → NP_071562.3 legumain precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/Swiss-Prot

Q9JLN3, Q9R0J8

UniProtKB/TrEMBL

A6JEK1, F7EX67, Q5PPG2

Related

ENSRNOP00000010101.3, ENSRNOT00000010101.7

Conserved Domains (2) summary

pfam01650
Location:31 → 287

Peptidase_C13; Peptidase C13 family

cd21115
Location:311 → 431

legumain_C; C-terminal prodomain of legumain

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

NC_086024.1 Reference GRCr8

Range

127308913..127347355 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039112870.1 → XP_038968798.1 legumain isoform X1

UniProtKB/Swiss-Prot

Q9JLN3, Q9R0J8

UniProtKB/TrEMBL

A6JEK1, F7EX67, Q5PPG2

Conserved Domains (2) summary

pfam01650
Location:31 → 287

Peptidase_C13; Peptidase C13 family

cd21115
Location:311 → 431

legumain_C; C-terminal prodomain of legumain