Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LGMN (legumain)

Identity

Alias_namesPRSC1
protease
Alias_symbol (synonym)LGMN1
Other aliasAEP
HGNC (Hugo) LGMN
LocusID (NCBI) 5641
Atlas_Id 41148
Location 14q32.12  [Link to chromosome band 14q32]
Location_base_pair Starts at 92703807 and ends at 92748702 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
COL6A3 (2q37.3) / LGMN (14q32.12)LGMN (14q32.12) / ENO1 (1p36.23)LGMN (14q32.12) / LGMN (14q32.12)
LGMN (14q32.12) / NAP1L1 (12q21.2)LGMN (14q32.12) / VCAN (5q14.2)LOC100507412 (-) / LGMN (14q32.12)
RPL18 (19q13.33) / LGMN (14q32.12)VPS4A (16q22.1) / LGMN (14q32.12)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(12;14)(q21;q32) LGMN/NAP1L1

External links

Nomenclature
HGNC (Hugo)LGMN   9472
Cards
Entrez_Gene (NCBI)LGMN  5641  legumain
AliasesAEP; LGMN1; PRSC1
GeneCards (Weizmann)LGMN
Ensembl hg19 (Hinxton)ENSG00000100600 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000100600 [Gene_View]  ENSG00000100600 [Sequence]  chr14:92703807-92748702 [Contig_View]  LGMN [Vega]
ICGC DataPortalENSG00000100600
TCGA cBioPortalLGMN
AceView (NCBI)LGMN
Genatlas (Paris)LGMN
WikiGenes5641
SOURCE (Princeton)LGMN
Genetics Home Reference (NIH)LGMN
Genomic and cartography
GoldenPath hg38 (UCSC)LGMN  -     chr14:92703807-92748702 -  14q32.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LGMN  -     14q32.12   [Description]    (hg19-Feb_2009)
EnsemblLGMN - 14q32.12 [CytoView hg19]  LGMN - 14q32.12 [CytoView hg38]
Mapping of homologs : NCBILGMN [Mapview hg19]  LGMN [Mapview hg38]
OMIM602620   
Gene and transcription
Genbank (Entrez)AK225822 AK291534 AK291560 AK297074 AK297780
RefSeq transcript (Entrez)NM_001008530 NM_001363696 NM_001363699 NM_005606
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LGMN
Cluster EST : UnigeneHs.18069 [ NCBI ]
CGAP (NCI)Hs.18069
Alternative Splicing GalleryENSG00000100600
Gene ExpressionLGMN [ NCBI-GEO ]   LGMN [ EBI - ARRAY_EXPRESS ]   LGMN [ SEEK ]   LGMN [ MEM ]
Gene Expression Viewer (FireBrowse)LGMN [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)5641
GTEX Portal (Tissue expression)LGMN
Human Protein AtlasENSG00000100600-LGMN [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ99538   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ99538  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ99538
Splice isoforms : SwissVarQ99538
Catalytic activity : Enzyme3.4.22.34 [ Enzyme-Expasy ]   3.4.22.343.4.22.34 [ IntEnz-EBI ]   3.4.22.34 [ BRENDA ]   3.4.22.34 [ KEGG ]   
PhosPhoSitePlusQ99538
Domains : Interpro (EBI)Peptidase_C13   
Domain families : Pfam (Sanger)Peptidase_C13 (PF01650)   
Domain families : Pfam (NCBI)pfam01650   
Conserved Domain (NCBI)LGMN
DMDM Disease mutations5641
Blocks (Seattle)LGMN
PDB (RSDB)4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
PDB Europe4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
PDB (PDBSum)4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
PDB (IMB)4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
Structural Biology KnowledgeBase4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
SCOP (Structural Classification of Proteins)4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
CATH (Classification of proteins structures)4AW9    4AWA    4AWB    4FGU    4N6N    4N6O    5LU8    5LU9    5LUA    5LUB   
SuperfamilyQ99538
Human Protein Atlas [tissue]ENSG00000100600-LGMN [tissue]
Peptide AtlasQ99538
HPRD04017
IPIIPI00293303   IPI01013028   IPI01014278   IPI01026030   IPI01025714   IPI01026348   IPI01025490   IPI01025272   IPI01025413   IPI01025042   IPI01024816   IPI00384155   IPI01026477   IPI00384156   
Protein Interaction databases
DIP (DOE-UCLA)Q99538
IntAct (EBI)Q99538
FunCoupENSG00000100600
BioGRIDLGMN
STRING (EMBL)LGMN
ZODIACLGMN
Ontologies - Pathways
QuickGOQ99538
Ontology : AmiGOrenal system process  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  extracellular region  cytoplasm  lysosome  lysosome  late endosome  proteolysis  vacuolar protein processing  memory  peptidase activity  positive regulation of cell proliferation  associative learning  response to acidic pH  response to acidic pH  negative regulation of gene expression  antigen processing and presentation of exogenous peptide antigen via MHC class II  receptor catabolic process  cellular response to hepatocyte growth factor stimulus  endolysosome lumen  negative regulation of multicellular organism growth  vitamin D metabolic process  lysosomal lumen  negative regulation of neuron apoptotic process  apical part of cell  positive regulation of mitotic cell cycle  tau protein binding  perinuclear region of cytoplasm  proteolysis involved in cellular protein catabolic process  proteolysis involved in cellular protein catabolic process  proteolysis involved in cellular protein catabolic process  extracellular exosome  cellular response to calcium ion  positive regulation of monocyte chemotaxis  dendritic spine organization  activation of cysteine-type endopeptidase activity  self proteolysis  positive regulation of long-term synaptic potentiation  negative regulation of ERBB signaling pathway  cellular response to amyloid-beta  positive regulation of endothelial cell chemotaxis  
Ontology : EGO-EBIrenal system process  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  cysteine-type endopeptidase activity  extracellular region  cytoplasm  lysosome  lysosome  late endosome  proteolysis  vacuolar protein processing  memory  peptidase activity  positive regulation of cell proliferation  associative learning  response to acidic pH  response to acidic pH  negative regulation of gene expression  antigen processing and presentation of exogenous peptide antigen via MHC class II  receptor catabolic process  cellular response to hepatocyte growth factor stimulus  endolysosome lumen  negative regulation of multicellular organism growth  vitamin D metabolic process  lysosomal lumen  negative regulation of neuron apoptotic process  apical part of cell  positive regulation of mitotic cell cycle  tau protein binding  perinuclear region of cytoplasm  proteolysis involved in cellular protein catabolic process  proteolysis involved in cellular protein catabolic process  proteolysis involved in cellular protein catabolic process  extracellular exosome  cellular response to calcium ion  positive regulation of monocyte chemotaxis  dendritic spine organization  activation of cysteine-type endopeptidase activity  self proteolysis  positive regulation of long-term synaptic potentiation  negative regulation of ERBB signaling pathway  cellular response to amyloid-beta  positive regulation of endothelial cell chemotaxis  
Pathways : KEGGLysosome    Antigen processing and presentation   
NDEx NetworkLGMN
Atlas of Cancer Signalling NetworkLGMN
Wikipedia pathwaysLGMN
Orthology - Evolution
OrthoDB5641
GeneTree (enSembl)ENSG00000100600
Phylogenetic Trees/Animal Genes : TreeFamLGMN
HOGENOMQ99538
Homologs : HomoloGeneLGMN
Homology/Alignments : Family Browser (UCSC)LGMN
Gene fusions - Rearrangements
Fusion : MitelmanLGMN/NAP1L1 [14q32.12/12q21.2]  
Fusion : QuiverLGMN
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLGMN [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LGMN
dbVarLGMN
ClinVarLGMN
1000_GenomesLGMN 
Exome Variant ServerLGMN
ExAC (Exome Aggregation Consortium)ENSG00000100600
GNOMAD BrowserENSG00000100600
Varsome BrowserLGMN
Genetic variants : HAPMAP5641
Genomic Variants (DGV)LGMN [DGVbeta]
DECIPHERLGMN [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLGMN 
Mutations
ICGC Data PortalLGMN 
TCGA Data PortalLGMN 
Broad Tumor PortalLGMN
OASIS PortalLGMN [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLGMN  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLGMN
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch LGMN
DgiDB (Drug Gene Interaction Database)LGMN
DoCM (Curated mutations)LGMN (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LGMN (select a term)
intoGenLGMN
Cancer3DLGMN(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM602620   
Orphanet
DisGeNETLGMN
MedgenLGMN
Genetic Testing Registry LGMN
NextProtQ99538 [Medical]
TSGene5641
GENETestsLGMN
Target ValidationLGMN
Huge Navigator LGMN [HugePedia]
snp3D : Map Gene to Disease5641
BioCentury BCIQLGMN
ClinGenLGMN
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD5641
Chemical/Pharm GKB GenePA30354
Clinical trialLGMN
Miscellaneous
canSAR (ICR)LGMN (select the gene name)
DataMed IndexLGMN
Probes
Litterature
PubMed71 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLGMN
EVEXLGMN
GoPubMedLGMN
iHOPLGMN
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Jan 17 18:20:15 CET 2019
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