Human Gene APOC1 (ENST00000592535.6_10) from GENCODE V47lift37
  Description: apolipoprotein C1, transcript variant 1 (from RefSeq NM_001645.5)
Gencode Transcript: ENST00000592535.6_10
Gencode Gene: ENSG00000130208.10_12
Transcript (Including UTRs)
   Position: hg19 chr19:45,417,865-45,422,603 Size: 4,739 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr19:45,418,149-45,422,487 Size: 4,339 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:45,417,865-45,422,603)mRNA (may differ from genome)Protein (83 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: APOC1_HUMAN
DESCRIPTION: RecName: Full=Apolipoprotein C-I; Short=Apo-CIB; Short=ApoC-IB; AltName: Full=Apolipoprotein C1; Contains: RecName: Full=Truncated apolipoprotein C-I; Short=Apo-CIB'; Short=ApoC-IB'; Flags: Precursor;
FUNCTION: Appears to modulate the interaction of APOE with beta- migrating VLDL and inhibit binding of beta-VLDL to the LDL receptor-related protein. Binds free fatty acids and reduces their intracellular esterification.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Synthesized mainly in liver and to a minor degree in intestine. Secreted in plasma.
MISCELLANEOUS: Apolipoprotein C-I is present in acidic (APOC1A) and basic (APOC1B) forms in P.paniscus, P.abelii and P.troglodytes and perhaps also in baboons and macaques. In human, the acidic form has become a pseudogene. Apo-CI makes up about 10% of the protein of the VLDL (very low density lipoprotein) and 2% of that of HDL (high density lipoprotein).
SIMILARITY: Belongs to the apolipoprotein C1 family.
WEB RESOURCE: Name=Wikipedia; Note=Apolipoprotein C1 entry; URL="http://en.wikipedia.org/wiki/Apolipoprotein_C1";

-  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: APOC1
Diseases sorted by gene-association score: adermatoglyphia (6)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1735.98 RPKM in Liver
Total median expression: 2849.52 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 -53.90146-0.369 Picture PostScript Text
3' UTR -38.50116-0.332 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
IPR006781 - ApoC-I

Pfam Domains:
PF04691 - Apolipoprotein C-I (ApoC-1)

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1ALE - NMR MuPIT 1ALF - NMR MuPIT 1IOJ - NMR 1OPP - NMR


ModBase Predicted Comparative 3D Structure on P02654
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004859 phospholipase inhibitor activity
GO:0005504 fatty acid binding
GO:0031210 phosphatidylcholine binding
GO:0055102 lipase inhibitor activity
GO:0060228 phosphatidylcholine-sterol O-acyltransferase activator activity

Biological Process:
GO:0006629 lipid metabolic process
GO:0006641 triglyceride metabolic process
GO:0006869 lipid transport
GO:0008203 cholesterol metabolic process
GO:0010873 positive regulation of cholesterol esterification
GO:0010900 negative regulation of phosphatidylcholine catabolic process
GO:0010916 negative regulation of very-low-density lipoprotein particle clearance
GO:0032374 regulation of cholesterol transport
GO:0032375 negative regulation of cholesterol transport
GO:0033344 cholesterol efflux
GO:0033700 phospholipid efflux
GO:0034369 plasma lipoprotein particle remodeling
GO:0034375 high-density lipoprotein particle remodeling
GO:0034379 very-low-density lipoprotein particle assembly
GO:0034382 chylomicron remnant clearance
GO:0034447 very-low-density lipoprotein particle clearance
GO:0042157 lipoprotein metabolic process
GO:0043085 positive regulation of catalytic activity
GO:0045717 negative regulation of fatty acid biosynthetic process
GO:0045833 negative regulation of lipid metabolic process
GO:0048261 negative regulation of receptor-mediated endocytosis
GO:0050995 negative regulation of lipid catabolic process
GO:0051005 negative regulation of lipoprotein lipase activity

Cellular Component:
GO:0005576 extracellular region
GO:0005783 endoplasmic reticulum
GO:0034361 very-low-density lipoprotein particle
GO:0034364 high-density lipoprotein particle
GO:0042627 chylomicron


-  Descriptions from all associated GenBank mRNAs
  AJ249921 - Homo sapiens intergenic region between apoE and apoCI genes.
AF308154 - Homo sapiens HERV-E long terminal repeat, complete sequence; and apolipoprotein C-I variant I mRNA, partial cds.
AF308155 - Homo sapiens HERV-E long terminal repeat, complete sequence; and apolipoprotein C-I variant II mRNA, partial cds.
BC055093 - Homo sapiens apolipoprotein C-I, mRNA (cDNA clone MGC:62029 IMAGE:6567705), complete cds.
AK225971 - Homo sapiens mRNA for apolipoprotein C-I precursor variant, clone: FCC113A12.
AK312036 - Homo sapiens cDNA, FLJ92313, Homo sapiens apolipoprotein C-I (APOC1), mRNA.
JD380117 - Sequence 361141 from Patent EP1572962.
BC009698 - Homo sapiens apolipoprotein C-I, mRNA (cDNA clone MGC:9245 IMAGE:3889900), complete cds.
X00570 - Human mRNA for precursor of apolipoprotein CI (apo CI).
JD477065 - Sequence 458089 from Patent EP1572962.
AB528369 - Synthetic construct DNA, clone: pF1KE0201, Homo sapiens APOC1 gene for apolipoprotein C-I, without stop codon, in Flexi system.
AM392727 - Synthetic construct Homo sapiens clone IMAGE:100002513 for hypothetical protein (APOC1 gene).
GQ129385 - Synthetic construct Homo sapiens clone HAIB:100068650; DKFZo004A1136 apolipoprotein C-I protein (APOC1) gene, partial cds.
GQ129384 - Synthetic construct Homo sapiens clone HAIB:100068554; DKFZo008A1135 apolipoprotein C-I protein (APOC1) gene, complete cds.
KJ896443 - Synthetic construct Homo sapiens clone ccsbBroadEn_05837 APOC1-like gene, encodes complete protein.
CR456907 - Homo sapiens full open reading frame cDNA clone RZPDo834A067D for gene APOC1, apolipoprotein C-I; complete cds, incl. stopcodon.
BT007142 - Homo sapiens apolipoprotein C-I mRNA, complete cds.
M27359 - Human apolipoprotein CI (apoCI) mRNA, partial cdn.
JD309238 - Sequence 290262 from Patent EP1572962.
JD456218 - Sequence 437242 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P02654 (Reactome details) participates in the following event(s):

R-HSA-8866321 VLDL binds APOC1 and APOC4
R-HSA-8854408 APOBR dimer binds VLDLs
R-HSA-8854462 VLDLR binds VLDL
R-HSA-8933292 LSR trimer binds VLDL
R-MMU-8933295 Lsr trimer binds VLDL
R-HSA-8866423 VLDL assembly
R-HSA-8964046 VLDL clearance
R-HSA-8963898 Plasma lipoprotein assembly
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: APOC1_HUMAN, B2R526, ENST00000592535.1, ENST00000592535.2, ENST00000592535.3, ENST00000592535.4, ENST00000592535.5, NM_001645, P02654, Q6IB97, uc326xsz.1, uc326xsz.2
UCSC ID: ENST00000592535.6_10
RefSeq Accession: NM_001645.5
Protein: P02654 (aka APOC1_HUMAN or APC1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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