Human Gene LIPA (ENST00000336233.10) from GENCODE V44
  Description: Homo sapiens lipase A, lysosomal acid type (LIPA), transcript variant 1, mRNA. (from RefSeq NM_001127605)
RefSeq Summary (NM_000235): This gene encodes lipase A, the lysosomal acid lipase (also known as cholesterol ester hydrolase). This enzyme functions in the lysosome to catalyze the hydrolysis of cholesteryl esters and triglycerides. Mutations in this gene can result in Wolman disease and cholesteryl ester storage disease. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Jan 2014].
Gencode Transcript: ENST00000336233.10
Gencode Gene: ENSG00000107798.18
Transcript (Including UTRs)
   Position: hg38 chr10:89,213,572-89,251,775 Size: 38,204 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg38 chr10:89,214,828-89,247,648 Size: 32,821 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesGeneReviewsMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:89,213,572-89,251,775)mRNA (may differ from genome)Protein (399 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LICH_HUMAN
DESCRIPTION: RecName: Full=Lysosomal acid lipase/cholesteryl ester hydrolase; Short=Acid cholesteryl ester hydrolase; Short=LAL; EC=3.1.1.13; AltName: Full=Cholesteryl esterase; AltName: Full=Lipase A; AltName: Full=Sterol esterase; Flags: Precursor;
FUNCTION: Crucial for the intracellular hydrolysis of cholesteryl esters and triglycerides that have been internalized via receptor- mediated endocytosis of lipoprotein particles. Important in mediating the effect of LDL (low density lipoprotein) uptake on suppression of hydroxymethylglutaryl-CoA reductase and activation of endogenous cellular cholesteryl ester formation.
CATALYTIC ACTIVITY: A steryl ester + H(2)O = a sterol + a fatty acid.
SUBCELLULAR LOCATION: Lysosome.
DISEASE: Defects in LIPA are the cause of Wolman disease (WOD) [MIM:278000]. WOD is a severe manifestation of LIPA deficiency, leading to the accumulation of cholesteryl esters and triglycerides in most tissues of the body. WOD occurs in infancy and is nearly always fatal before the age of 1 year.
DISEASE: Defects in LIPA are the cause of cholesteryl ester storage disease (CESD) [MIM:278000]. CESD is a mild manifestation of LIPA deficiency, leading to the accumulation of cholesteryl esters and triglycerides in most tissues of the body. It is characterized by late-onset.
SIMILARITY: Belongs to the AB hydrolase superfamily. Lipase family.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/LIPA";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: LIPA
Diseases sorted by gene-association score: wolman disease* (1845), cholesterol ester storage disease* (125), lipid storage disease (11), splenic abscess (9), hypercholesterolemia, familial (2)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 82.21 RPKM in Spleen
Total median expression: 639.17 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -6.6040-0.165 Picture PostScript Text
3' UTR -284.201256-0.226 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000073 - AB_hydrolase_1
IPR006693 - AB_hydrolase_lipase
IPR025483 - Lipase_euk

Pfam Domains:
PF04083 - Partial alpha/beta-hydrolase lipase region
PF00561 - alpha/beta hydrolase fold

ModBase Predicted Comparative 3D Structure on P38571
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologGenome Browser
Gene Details    Gene Details
Gene Sorter    Gene Sorter
MGIRGDEnsemblEnsembl SGD
Protein SequenceProtein SequenceProtein SequenceProtein Sequence Protein Sequence
AlignmentAlignmentAlignmentAlignment Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004771 sterol esterase activity
GO:0016298 lipase activity
GO:0016787 hydrolase activity
GO:0016788 hydrolase activity, acting on ester bonds

Biological Process:
GO:0000902 cell morphogenesis
GO:0001816 cytokine production
GO:0006629 lipid metabolic process
GO:0006954 inflammatory response
GO:0008283 cell proliferation
GO:0016042 lipid catabolic process
GO:0030324 lung development
GO:0034383 low-density lipoprotein particle clearance
GO:0048771 tissue remodeling
GO:0048873 homeostasis of number of cells within a tissue

Cellular Component:
GO:0001650 fibrillar center
GO:0005764 lysosome
GO:0043202 lysosomal lumen
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  LP895798 - Sequence 662 from Patent EP3253886.
AK091558 - Homo sapiens cDNA FLJ34239 fis, clone FCBBF3027755, highly similar to Lysosomal acid lipase/cholesteryl esterhydrolase precursor (EC 3.1.1.13).
AK096406 - Homo sapiens cDNA FLJ39087 fis, clone NT2RP7019273, highly similar to Lysosomal acid lipase/cholesteryl esterhydrolase precursor (EC 3.1.1.13).
AK125193 - Homo sapiens cDNA FLJ43203 fis, clone FEBRA2008468, highly similar to LYSOSOMAL ACID LIPASE/CHOLESTERYL ESTER HYDROLASE PRECURSOR (EC 3.1.1.13).
BC012287 - Homo sapiens lipase A, lysosomal acid, cholesterol esterase, mRNA (cDNA clone MGC:5229 IMAGE:2900168), complete cds.
X76488 - H.sapiens mRNA for lysosomal acid lipase.
LF385286 - JP 2014500723-A/192789: Polycomb-Associated Non-Coding RNAs.
MA620863 - JP 2018138019-A/192789: Polycomb-Associated Non-Coding RNAs.
M74775 - Human lysosomal acid lipase/cholesteryl esterase mRNA, complete cds.
AK130882 - Homo sapiens cDNA FLJ27372 fis, clone UBA04941, highly similar to LYSOSOMAL ACID LIPASE/CHOLESTERYL ESTER HYDROLASE PRECURSOR (EC 3.1.1.13).
U08464 - Human lysosomal acid lipase mRNA, complete cds.
Z31690 - H.sapiens (HepG2) LAL mRNA for lysosomal acid lipase.
LF345442 - JP 2014500723-A/152945: Polycomb-Associated Non-Coding RNAs.
MA581019 - JP 2018138019-A/152945: Polycomb-Associated Non-Coding RNAs.
JD040275 - Sequence 21299 from Patent EP1572962.
JD199900 - Sequence 180924 from Patent EP1572962.
AK290241 - Homo sapiens cDNA FLJ78204 complete cds, highly similar to Human lysosomal acid lipase/cholesteryl esterase mRNA.
JD362976 - Sequence 344000 from Patent EP1572962.
JD186929 - Sequence 167953 from Patent EP1572962.
JD386393 - Sequence 367417 from Patent EP1572962.
JD530283 - Sequence 511307 from Patent EP1572962.
JD288450 - Sequence 269474 from Patent EP1572962.
LF345443 - JP 2014500723-A/152946: Polycomb-Associated Non-Coding RNAs.
MA581020 - JP 2018138019-A/152946: Polycomb-Associated Non-Coding RNAs.
AK222760 - Homo sapiens mRNA for lipase A precursor variant, clone: HEP00205.
JD501405 - Sequence 482429 from Patent EP1572962.
JD521719 - Sequence 502743 from Patent EP1572962.
LF345444 - JP 2014500723-A/152947: Polycomb-Associated Non-Coding RNAs.
MA581021 - JP 2018138019-A/152947: Polycomb-Associated Non-Coding RNAs.
JD240332 - Sequence 221356 from Patent EP1572962.
JD237123 - Sequence 218147 from Patent EP1572962.
AK293491 - Homo sapiens cDNA FLJ57259 complete cds, highly similar to Lysosomal acid lipase/cholesteryl esterhydrolase precursor (EC 3.1.1.13).
JD218366 - Sequence 199390 from Patent EP1572962.
LF345445 - JP 2014500723-A/152948: Polycomb-Associated Non-Coding RNAs.
MA581022 - JP 2018138019-A/152948: Polycomb-Associated Non-Coding RNAs.
AK297079 - Homo sapiens cDNA FLJ57744 complete cds, highly similar to Lysosomal acid lipase/cholesteryl esterhydrolase precursor (EC 3.1.1.13).
LF345446 - JP 2014500723-A/152949: Polycomb-Associated Non-Coding RNAs.
MA581023 - JP 2018138019-A/152949: Polycomb-Associated Non-Coding RNAs.
JD073495 - Sequence 54519 from Patent EP1572962.
JD048048 - Sequence 29072 from Patent EP1572962.
AK314665 - Homo sapiens cDNA, FLJ95512, Homo sapiens lipase A, lysosomal acid, cholesterol esterase (Wolmandisease) (LIPA), mRNA.
KJ897131 - Synthetic construct Homo sapiens clone ccsbBroadEn_06525 LIPA gene, encodes complete protein.
KR709562 - Synthetic construct Homo sapiens clone CCSBHm_00003538 LIPA (LIPA) mRNA, encodes complete protein.
KR709563 - Synthetic construct Homo sapiens clone CCSBHm_00003546 LIPA (LIPA) mRNA, encodes complete protein.
KR709564 - Synthetic construct Homo sapiens clone CCSBHm_00003552 LIPA (LIPA) mRNA, encodes complete protein.
KR709565 - Synthetic construct Homo sapiens clone CCSBHm_00003557 LIPA (LIPA) mRNA, encodes complete protein.
HQ447241 - Synthetic construct Homo sapiens clone IMAGE:100070546; CCSB002401_01 lipase A, lysosomal acid, cholesterol esterase (Wolman disease) (LIPA) gene, encodes complete protein.
LF345447 - JP 2014500723-A/152950: Polycomb-Associated Non-Coding RNAs.
MA581024 - JP 2018138019-A/152950: Polycomb-Associated Non-Coding RNAs.
LF345448 - JP 2014500723-A/152951: Polycomb-Associated Non-Coding RNAs.
MA581025 - JP 2018138019-A/152951: Polycomb-Associated Non-Coding RNAs.
S68069 - lysosomal acid lipase {splice junction 72-base deletion} [human, cholesteryl ester storage disease patient, skin fibroblasts, mRNA Partial Mutant, 84 nt].
CU680270 - Synthetic construct Homo sapiens gateway clone IMAGE:100018219 5' read LIPA mRNA.
LF345450 - JP 2014500723-A/152953: Polycomb-Associated Non-Coding RNAs.
MA581027 - JP 2018138019-A/152953: Polycomb-Associated Non-Coding RNAs.
LF345451 - JP 2014500723-A/152954: Polycomb-Associated Non-Coding RNAs.
MA581028 - JP 2018138019-A/152954: Polycomb-Associated Non-Coding RNAs.
LF345453 - JP 2014500723-A/152956: Polycomb-Associated Non-Coding RNAs.
MA581030 - JP 2018138019-A/152956: Polycomb-Associated Non-Coding RNAs.
JD394833 - Sequence 375857 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00100 - Steroid biosynthesis
hsa04142 - Lysosome

Reactome (by CSHL, EBI, and GO)

Protein P38571 (Reactome details) participates in the following event(s):

R-HSA-8865667 LIPA hydrolyses sterol esters to sterols and fatty acids
R-HSA-8964038 LDL clearance
R-HSA-8964043 Plasma lipoprotein clearance
R-HSA-174824 Plasma lipoprotein assembly, remodeling, and clearance
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: B2RBH5, D3DR29, ENST00000336233.1, ENST00000336233.2, ENST00000336233.3, ENST00000336233.4, ENST00000336233.5, ENST00000336233.6, ENST00000336233.7, ENST00000336233.8, ENST00000336233.9, LICH_HUMAN, NM_001127605, P38571, Q16529, Q53H21, Q5T074, Q5T771, Q96EJ0, uc001kga.1, uc001kga.2, uc001kga.3, uc001kga.4, uc001kga.5, uc001kga.6, uc001kga.7
UCSC ID: ENST00000336233.10
RefSeq Accession: NM_000235
Protein: P38571 (aka LICH_HUMAN)
CCDS: CCDS7401.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene LIPA:
lal-def (Lysosomal Acid Lipase Deficiency)

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.