Atlas of Genetics and Cytogenetics in Oncology and Haematology


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LCAT (lecithin-cholesterol acyltransferase)

Identity

HGNC (Hugo) LCAT
LocusID (NCBI) 3931
Atlas_Id 41129
Location 16q22.1  [Link to chromosome band 16q22]
Location_base_pair Starts at 67973787 and ends at 67978015 bp from pter ( according to hg19-Feb_2009)
Fusion genes
(updated 2016)
RPL13A (19q13.33) / LCAT (16q22.1)

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)LCAT   6522
Cards
Entrez_Gene (NCBI)LCAT  3931  lecithin-cholesterol acyltransferase
Aliases
GeneCards (Weizmann)LCAT
Ensembl hg19 (Hinxton)ENSG00000213398 [Gene_View]  chr16:67973787-67978015 [Contig_View]  LCAT [Vega]
Ensembl hg38 (Hinxton)ENSG00000213398 [Gene_View]  chr16:67973787-67978015 [Contig_View]  LCAT [Vega]
ICGC DataPortalENSG00000213398
TCGA cBioPortalLCAT
AceView (NCBI)LCAT
Genatlas (Paris)LCAT
WikiGenes3931
SOURCE (Princeton)LCAT
Genetics Home Reference (NIH)LCAT
Genomic and cartography
GoldenPath hg19 (UCSC)LCAT  -     chr16:67973787-67978015 -  16q22.1   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)LCAT  -     16q22.1   [Description]    (hg38-Dec_2013)
EnsemblLCAT - 16q22.1 [CytoView hg19]  LCAT - 16q22.1 [CytoView hg38]
Mapping of homologs : NCBILCAT [Mapview hg19]  LCAT [Mapview hg38]
OMIM136120   245900   606967   
Gene and transcription
Genbank (Entrez)BC014781 BT009748 HM005564 M12625 M26268
RefSeq transcript (Entrez)NM_000229
RefSeq genomic (Entrez)NC_000016 NC_018927 NG_009778 NT_010498 NW_004929402
Consensus coding sequences : CCDS (NCBI)LCAT
Cluster EST : UnigeneHs.387239 [ NCBI ]
CGAP (NCI)Hs.387239
Alternative Splicing GalleryENSG00000213398
Gene ExpressionLCAT [ NCBI-GEO ]   LCAT [ EBI - ARRAY_EXPRESS ]   LCAT [ SEEK ]   LCAT [ MEM ]
Gene Expression Viewer (FireBrowse)LCAT [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3931
GTEX Portal (Tissue expression)LCAT
Protein : pattern, domain, 3D structure
UniProt/SwissProtP04180   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP04180  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP04180
Splice isoforms : SwissVarP04180
PhosPhoSitePlusP04180
Domaine pattern : Prosite (Expaxy)LIPASE_SER (PS00120)   
Domains : Interpro (EBI)AB_hydrolase    LACT/PDAT_acylTrfase   
Domain families : Pfam (Sanger)LCAT (PF02450)   
Domain families : Pfam (NCBI)pfam02450   
Conserved Domain (NCBI)LCAT
DMDM Disease mutations3931
Blocks (Seattle)LCAT
PDB (SRS)4X96    4XWG    4XX1    5BV7   
PDB (PDBSum)4X96    4XWG    4XX1    5BV7   
PDB (IMB)4X96    4XWG    4XX1    5BV7   
PDB (RSDB)4X96    4XWG    4XX1    5BV7   
Structural Biology KnowledgeBase4X96    4XWG    4XX1    5BV7   
SCOP (Structural Classification of Proteins)4X96    4XWG    4XX1    5BV7   
CATH (Classification of proteins structures)4X96    4XWG    4XX1    5BV7   
SuperfamilyP04180
Human Protein AtlasENSG00000213398
Peptide AtlasP04180
HPRD06098
IPIIPI00022331   
Protein Interaction databases
DIP (DOE-UCLA)P04180
IntAct (EBI)P04180
FunCoupENSG00000213398
BioGRIDLCAT
STRING (EMBL)LCAT
ZODIACLCAT
Ontologies - Pathways
QuickGOP04180
Ontology : AmiGOphosphatidylcholine-sterol O-acyltransferase activity  phosphatidylcholine-sterol O-acyltransferase activity  phosphatidylcholine-sterol O-acyltransferase activity  phospholipase A2 activity  protein binding  extracellular region  extracellular space  phospholipid metabolic process  phosphatidylcholine biosynthetic process  cholesterol metabolic process  cholesterol transport  apolipoprotein A-I binding  high-density lipoprotein particle  very-low-density lipoprotein particle remodeling  high-density lipoprotein particle remodeling  cholesterol esterification  lipoprotein metabolic process  lipoprotein biosynthetic process  cholesterol homeostasis  reverse cholesterol transport  phosphatidylcholine metabolic process  response to copper ion  response to glucocorticoid  extracellular exosome  regulation of high-density lipoprotein particle assembly  
Ontology : EGO-EBIphosphatidylcholine-sterol O-acyltransferase activity  phosphatidylcholine-sterol O-acyltransferase activity  phosphatidylcholine-sterol O-acyltransferase activity  phospholipase A2 activity  protein binding  extracellular region  extracellular space  phospholipid metabolic process  phosphatidylcholine biosynthetic process  cholesterol metabolic process  cholesterol transport  apolipoprotein A-I binding  high-density lipoprotein particle  very-low-density lipoprotein particle remodeling  high-density lipoprotein particle remodeling  cholesterol esterification  lipoprotein metabolic process  lipoprotein biosynthetic process  cholesterol homeostasis  reverse cholesterol transport  phosphatidylcholine metabolic process  response to copper ion  response to glucocorticoid  extracellular exosome  regulation of high-density lipoprotein particle assembly  
Pathways : KEGGGlycerophospholipid metabolism   
NDEx NetworkLCAT
Atlas of Cancer Signalling NetworkLCAT
Wikipedia pathwaysLCAT
Orthology - Evolution
OrthoDB3931
GeneTree (enSembl)ENSG00000213398
Phylogenetic Trees/Animal Genes : TreeFamLCAT
HOVERGENP04180
HOGENOMP04180
Homologs : HomoloGeneLCAT
Homology/Alignments : Family Browser (UCSC)LCAT
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLCAT [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LCAT
dbVarLCAT
ClinVarLCAT
1000_GenomesLCAT 
Exome Variant ServerLCAT
ExAC (Exome Aggregation Consortium)LCAT (select the gene name)
Genetic variants : HAPMAP3931
Genomic Variants (DGV)LCAT [DGVbeta]
DECIPHER (Syndromes)16:67973787-67978015  ENSG00000213398
CONAN: Copy Number AnalysisLCAT 
Mutations
ICGC Data PortalLCAT 
TCGA Data PortalLCAT 
Broad Tumor PortalLCAT
OASIS PortalLCAT [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLCAT  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLCAT
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
LOVD (Leiden Open Variation Database)Mendelian genes
BioMutasearch LCAT
DgiDB (Drug Gene Interaction Database)LCAT
DoCM (Curated mutations)LCAT (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LCAT (select a term)
intoGenLCAT
Cancer3DLCAT(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM136120    245900    606967   
Orphanet11319    11318   
MedgenLCAT
Genetic Testing Registry LCAT
NextProtP04180 [Medical]
TSGene3931
GENETestsLCAT
Huge Navigator LCAT [HugePedia]
snp3D : Map Gene to Disease3931
BioCentury BCIQLCAT
ClinGenLCAT
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3931
Chemical/Pharm GKB GenePA226
Clinical trialLCAT
Miscellaneous
canSAR (ICR)LCAT (select the gene name)
Probes
Litterature
PubMed158 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLCAT
EVEXLCAT
GoPubMedLCAT
iHOPLCAT
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri Nov 18 19:41:39 CET 2016

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