Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LCN1 (lipocalin 1)

Identity

Alias_nameslipocalin 1 (protein migrating faster than albumin, tear prealbumin)
lipocalin 1 (tear prealbumin)
Alias_symbol (synonym)VEGP
TP
PMFA
MGC71975
TLC
Other alias
HGNC (Hugo) LCN1
LocusID (NCBI) 3933
Atlas_Id 55716
Location 9q34.3  [Link to chromosome band 9q34]
Location_base_pair Starts at 135521438 and ends at 135526540 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
LCN1 (9q34.3) / HECA (6q24.1)LCN1 (9q34.3) / LCN1 (9q34.3)LCN1 (9q34.3) / LYZ (12q15)

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

 


External links

Nomenclature
HGNC (Hugo)LCN1   6525
Cards
Entrez_Gene (NCBI)LCN1  3933  lipocalin 1
AliasesPMFA; TLC; TP; VEGP
GeneCards (Weizmann)LCN1
Ensembl hg19 (Hinxton)ENSG00000160349 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000160349 [Gene_View]  chr9:135521438-135526540 [Contig_View]  LCN1 [Vega]
ICGC DataPortalENSG00000160349
TCGA cBioPortalLCN1
AceView (NCBI)LCN1
Genatlas (Paris)LCN1
WikiGenes3933
SOURCE (Princeton)LCN1
Genetics Home Reference (NIH)LCN1
Genomic and cartography
GoldenPath hg38 (UCSC)LCN1  -     chr9:135521438-135526540 +  9q34.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LCN1  -     9q34.3   [Description]    (hg19-Feb_2009)
EnsemblLCN1 - 9q34.3 [CytoView hg19]  LCN1 - 9q34.3 [CytoView hg38]
Mapping of homologs : NCBILCN1 [Mapview hg19]  LCN1 [Mapview hg38]
OMIM151675   
Gene and transcription
Genbank (Entrez)BC065721 BC074925 BC074926 CD721968 CK429694
RefSeq transcript (Entrez)NM_001252617 NM_001252618 NM_001252619 NM_002297
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LCN1
Cluster EST : UnigeneHs.530311 [ NCBI ]
CGAP (NCI)Hs.530311
Alternative Splicing GalleryENSG00000160349
Gene ExpressionLCN1 [ NCBI-GEO ]   LCN1 [ EBI - ARRAY_EXPRESS ]   LCN1 [ SEEK ]   LCN1 [ MEM ]
Gene Expression Viewer (FireBrowse)LCN1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3933
GTEX Portal (Tissue expression)LCN1
Protein : pattern, domain, 3D structure
UniProt/SwissProtP31025   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP31025  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP31025
Splice isoforms : SwissVarP31025
PhosPhoSitePlusP31025
Domains : Interpro (EBI)Calycin    Calycin-like    Lipocln_cytosolic_FA-bd_dom    von_Ebner_gland   
Domain families : Pfam (Sanger)Lipocalin (PF00061)   
Domain families : Pfam (NCBI)pfam00061   
Conserved Domain (NCBI)LCN1
DMDM Disease mutations3933
Blocks (Seattle)LCN1
PDB (SRS)1XKI    3EYC    4QAF   
PDB (PDBSum)1XKI    3EYC    4QAF   
PDB (IMB)1XKI    3EYC    4QAF   
PDB (RSDB)1XKI    3EYC    4QAF   
Structural Biology KnowledgeBase1XKI    3EYC    4QAF   
SCOP (Structural Classification of Proteins)1XKI    3EYC    4QAF   
CATH (Classification of proteins structures)1XKI    3EYC    4QAF   
SuperfamilyP31025
Human Protein AtlasENSG00000160349
Peptide AtlasP31025
HPRD01059
IPIIPI00009650   
Protein Interaction databases
DIP (DOE-UCLA)P31025
IntAct (EBI)P31025
FunCoupENSG00000160349
BioGRIDLCN1
STRING (EMBL)LCN1
ZODIACLCN1
Ontologies - Pathways
QuickGOP31025
Ontology : AmiGOretina homeostasis  cysteine-type endopeptidase inhibitor activity  extracellular region  extracellular space  proteolysis  zinc ion binding  negative regulation of endopeptidase activity  long-chain fatty acid transport  chloride ion binding  response to stimulus  sensory perception of taste  extracellular exosome  
Ontology : EGO-EBIretina homeostasis  cysteine-type endopeptidase inhibitor activity  extracellular region  extracellular space  proteolysis  zinc ion binding  negative regulation of endopeptidase activity  long-chain fatty acid transport  chloride ion binding  response to stimulus  sensory perception of taste  extracellular exosome  
NDEx NetworkLCN1
Atlas of Cancer Signalling NetworkLCN1
Wikipedia pathwaysLCN1
Orthology - Evolution
OrthoDB3933
GeneTree (enSembl)ENSG00000160349
Phylogenetic Trees/Animal Genes : TreeFamLCN1
HOVERGENP31025
HOGENOMP31025
Homologs : HomoloGeneLCN1
Homology/Alignments : Family Browser (UCSC)LCN1
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLCN1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LCN1
dbVarLCN1
ClinVarLCN1
1000_GenomesLCN1 
Exome Variant ServerLCN1
ExAC (Exome Aggregation Consortium)LCN1 (select the gene name)
Genetic variants : HAPMAP3933
Genomic Variants (DGV)LCN1 [DGVbeta]
DECIPHERLCN1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLCN1 
Mutations
ICGC Data PortalLCN1 
TCGA Data PortalLCN1 
Broad Tumor PortalLCN1
OASIS PortalLCN1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLCN1  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLCN1
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 LCN1
DgiDB (Drug Gene Interaction Database)LCN1
DoCM (Curated mutations)LCN1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LCN1 (select a term)
intoGenLCN1
Cancer3DLCN1(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM151675   
Orphanet
MedgenLCN1
Genetic Testing Registry LCN1
NextProtP31025 [Medical]
TSGene3933
GENETestsLCN1
Target ValidationLCN1
Huge Navigator LCN1 [HugePedia]
snp3D : Map Gene to Disease3933
BioCentury BCIQLCN1
ClinGenLCN1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3933
Chemical/Pharm GKB GenePA30308
Clinical trialLCN1
Miscellaneous
canSAR (ICR)LCN1 (select the gene name)
Probes
Litterature
PubMed44 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLCN1
EVEXLCN1
GoPubMedLCN1
iHOPLCN1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:40:18 CEST 2017

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