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    Lgmn legumain [ Rattus norvegicus (Norway rat) ]

    Gene ID: 63865, updated on 2-Nov-2024

    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
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    Genomic context

    See Lgmn in Genome Data Viewer
    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_086024.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 24 member 4 Neighboring gene Ras and Rab interactor 3 Neighboring gene uncharacterized LOC134479252 Neighboring gene uncharacterized LOC102548124 Neighboring gene golgin A5

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Markers

    Clone Names

    • MGC105274

    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

    Preferred Names
    legumain
    Names
    asparaginyl endopeptidase
    protease, cysteine 1
    protease, cysteine, 1 (legumain)
    NP_071562.3
    XP_038968798.1

    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_022226.3NP_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:31287
      Peptidase_C13; Peptidase C13 family
      cd21115
      Location:311431
      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

    1. NC_086024.1 Reference GRCr8

      Range
      127308913..127347355 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039112870.1XP_038968798.1  legumain isoform X1

      UniProtKB/Swiss-Prot
      Q9JLN3, Q9R0J8
      UniProtKB/TrEMBL
      A6JEK1, F7EX67, Q5PPG2
      Conserved Domains (2) summary
      pfam01650
      Location:31287
      Peptidase_C13; Peptidase C13 family
      cd21115
      Location:311431
      legumain_C; C-terminal prodomain of legumain