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APOC1 Gene

protein-coding   GIFtS: 60

GC19P050109
apolipoprotein C-I
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
Apo-CI 3
ApoC-I 3
Descriptions
apolipoprotein C-I 2
External Ids
HGNC: 6071
Entrez Gene: 3412
UniProtKB: P026543
Ensembl: ENSG000001302087
Search outside databases for aliases for APOC1 gene

Previous GC identifers: GC19P046062 GC19P045808 GC19P050093

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for APOC1:
The protein encoded by this gene is a member of the apolipoprotein C1 family. This gene is
expressed primarily in the liver, and it is activated when monocytes differentiate into
macrophages. A pseudogene of this gene is located 4 kb downstream in the same orientation, on the
same chromosome. This gene is mapped to chromosome 19, where it resides within a apolipoprotein
gene cluster. Alternatively spliced transcript variants have been found for this gene, but the
biological validity of some variants has not been determined. [provided by RefSeq]

UniProtKB/Swiss-Prot: APOC1_HUMAN, P02654
Function: Appears to modulate the interaction of APOE with beta-migrating VLDL and inhibit binding
of beta-VLDL to the LDL receptor-related protein

Gene Wiki entry for APOC1

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the APOC1 gene  

Entrez Gene cytogenetic band: 19q13.2   Ensembl cytogenetic band:  19q13.32   HGNC cytogenetic band: 19q13.2

APOC1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P050109:     (about GC identifiers)

Start:
50,109,419 bp from pter
End:
50,114,446 bp from pter
Size:
5,028 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000019.8  NT_011109.15  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: APOC1_HUMAN, P02654 (See protein sequence)
Recommended Name: Apolipoprotein C-I precursor  
Size: 83 amino acids; 9332 Da
Subcellular location: Secreted
Miscellaneous: 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)
PDB structures from and Proteopedia :
1ALE (3D)    1ALF (3D)    1IOJ (3D)    1OPP (3D)    
Secondary accessions: Q6IB97

REFSEQ proteins: NP_001636.1  

ENSEMBL proteins: 
ENSP00000252491 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Sigma-Aldrich Proteins for APOC1  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (Apolipoprotein CI , HDL)
Human Recombinant Proteins from Abnova (APOC1)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

5 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005576 extracellular region IEA--
GO:0005783 endoplasmic reticulum IDA11256614
GO:0034361 very-low-density lipoprotein particle IEA--
GO:0034364 high-density lipoprotein particle IDA15576844
GO:0042627 chylomicron TAS18992221
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Antibodies for APOC1: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for APOC1
Browse R&D Systems for Antibodies
Antibodies from Abcam (Apolipoprotein CI , HDL), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (APOC1)
Novus Biologicals Antibodies for APOC1

Assays for APOC1: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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1 InterPro domain/family:
 IPR006781 ApoC-I


   GeneDecks  APOC1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P02654

ProtoNet protein and cluster: P02654

1 Blocks protein family: IPB006781 Apolipoprotein C-I

UniProtKB/Swiss-Prot: APOC1_HUMAN, P02654
Similarity: Belongs to the apolipoprotein C1 family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (APOC1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (APOC1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001645

              Applied Biosystems Silencer® siRNAs for APOC1

              Sigma-Aldrich siRNA for APOC1  
                     Sigma-Aldrich shRNA for APOC1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for APOC1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001645
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001645
                                 untagged cDNA clone in CMV expression vector: NM_001645 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001645

UniProtKB/Swiss-Prot: APOC1_HUMAN, P02654
Function: Appears to modulate the interaction of APOE with beta-migrating VLDL and inhibit binding
of beta-VLDL to the LDL receptor-related protein

Genatlas biochemistry entry for APOC1:
apolipoprotein C-I,component of chylomicrons and VLDL

2 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Apoc1):

homeostasis/metabolismliver/biliary system

4 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0004859 phospholipase inhibitor activity IDA2302419
GO:0005504 fatty acid binding IDA17339654
GO:0031210 phosphatidylcholine binding TAS2302419
GO:0060228 phosphatidylcholine-sterol O-acyltransferase activator activity TAS18992221
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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2 Sigma-Aldrich "Your Favorite Gene" Pathways for  APOC1  (Your Favorite Gene powered by Ingenuity) 
 LXR/RXR Activation
 LPS/IL-1 Mediated Inhibition of RXR Function

   GeneDecks  APOC1 for the pathways selected above  
About GeneDecksing

 Gene Network CentralTM Interacting Genes and Proteins Network for  APOC1 


5/13 Interacting proteins for APOC1 (ENSP000002524913) via UniProtKB, MINT, and/or STRING (see all 13 )
InteractantInteraction Details
GeneCardExternal ID(s)
APOEENSP000002524863STRING (score=.942)
LDLRENSP000002524443STRING (score=.927)
CETPENSP000002006763STRING (score=.911)
APOC4ENSP000002524893STRING (score=.904)
LPLENSP000003097573STRING (score=.887)
About this table

5/15 Gene Ontology (GO) biological process terms (links to tree view) (see all 15 ):

GO IDQualified GO termEvidencePubMed IDs
GO:0006641 triglyceride metabolic process IEA--
GO:0006869 lipid transport IEA--
GO:0008203 cholesterol metabolic process IEA--
GO:0010873 positive regulation of cholesterol esterification TAS18992221
GO:0032375 negative regulation of cholesterol transport IDA10978346
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for APOC1
7 Novoseek chemical compound relationships for APOC1 gene
Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
cholesterol 57.98 42 15694932 (4), 8375418 (3), 17320883 (3), 15514255 (2) (see all 20)
dimyristoylphosphatidylcholine 57.10 12 16042399 (3), 12705839 (1), 17341095 (1)
lipid 45.08 31 17320883 (4), 11580293 (3), 11358499 (2), 9421476 (2) (see all 16)
tmao 42.39 4 10548051 (3)
phospholipid 33.08 11 11358499 (4), 17341095 (1), 17967413 (1), 11162594 (1)
fatty acid 12.01 9 11723061 (3), 14523051 (2), 18307821 (1), 11357474 (1) (see all 5)
glucose 0.00 10 11357474 (6), 11723061 (2)
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(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (APOC1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (APOC1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001645

              Sigma-Aldrich siRNA for APOC1  
                     Sigma-Aldrich shRNA for APOC1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001645  

REFSEQ mRNAs for APOC1 gene: 

NM_001645.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001645  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001645
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001645
                                 untagged cDNA clone in CMV expression vector: NM_001645 

Additional cDNA sequence: 

AF308154.1 AF308155.1 AJ249921.1 AK225971.1 AK312036.1 BC009698.2 BC055093.1 BT007142.1 
CR456907.1 EF553526.1 M27359.1 X00570.1 

17 DOTS entries:

DT.454554  DT.100785802  DT.121427017  DT.100785800  DT.100785801  DT.95235208  DT.121426950  DT.92356500 
DT.121427024  DT.100645505  DT.121426995  DT.121427070  DT.121427071  DT.95358902  DT.92457784  DT.92457788 
DT.98083249 

24/1484 AceView cDNA sequences (see all 1484 ):

BI489062 BQ029789 AI885116 AI363383 AI432333 AI096418 BM763973 BI521108 
AI089911 CA437408 AI497936 BE463600 BG707355 CB054967 AI423535 BG762924 
AI142531 AI767735 AI095143 BE044228 CA309520 AI359572 BG708414 AI796958 

highest scoring ESTs for APOC1:

AV703281 AV685966 BU927937 T71094 AV657156 BP304448 C01076 H57858 R29617 AA300375 

Unigene Cluster for APOC1:

Apolipoprotein C-I
Hs.110675  [show with all ESTs]
Unigene Representative Sequence: AJ249921


GeneLoc Exon Structure

4 Alternative Splicing Database (ASD) splice patterns (SP) for APOC1

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8
SP1:              -                                                   
SP2:              -     -                                             
SP3:                                                                  
SP4:                                                                  

About this scheme

ECgene alternative splicing isoforms for APOC1

1 Ensembl transcript including schematic representation:
ENST00000252491  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

APOC1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for APOC1

1 / 2 / 3

6 probe-sets matching APOC1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
89917_at2, 3 U95-D 1 1.00 1.00 1.00 1.12 AW005911 0.60 0.75 0.68 1
41764_at2, 3 U95-A 1 1.00 1.00 1.00 0.88 AA976838 0.60 0.75 0.68 1

204416_x_at2, 3 U133-A 1 1.00 1.00 -- -- NM_001645 0.40 0.67 0.55 1

213553_x_at2, 3 U133-A 4 0.55 0.86 -- -- W79394 0.60 0.75 0.68 1

204416_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

213553_x_at2 U133Plus2 4 0.55 0.86 -- -- -- -- -- -- --
GeneDecks  APOC1 for binary patterns associated with the probe-sets selected above  
About GeneDecksing
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: TGGCCCCAGG

SOURCE GeneReport for Unigene cluster: Hs.110675

Expression variation in blood from EXPOLDB for APOC1

UniProtKB/Swiss-Prot: APOC1_HUMAN, P02654
Tissue specificity: Synthesized mainly in liver and to a minor degree in intestine. Secreted in
plasma

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for APOC1 gene from 4 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
APOC11   -- apolipoprotein C-I 79.17(n)
72.5(a)
476437  XM_847490.1  XP_852583.1 
chimpanzee
(Pan troglodytes)
APOC11   -- apolipoprotein C-I 99.2(n)
98.8(a)
743864  XM_001148061.1  XP_001148061.1 
rat
(Rattus norvegicus)
Apoc11   -- apolipoprotein C-I 73.33(n)
70(a)
25292  NM_012824.1  NP_036956.1 
mouse
(Mus musculus)
Apoc11, 5 7 (4.00 cM)5
apolipoprotein C-I1, 5 75(n)1
70(a)1
118121  NM_007469.31  NP_031495.11 
 AI8936525  AK0113585  (see all 12)
About this table        Species with no ortholog for APOC1

ENSEMBL Gene Tree for APOC1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

  --
(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

  --
(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 107710

10/17 Novoseek disease relationships for APOC1 gene (see all 17 )

Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
combined hyperlipidemia 54.52 2 15576844 (1)
skin abnormalities 53.63 1 14523051 (1)
hypertriglyceridemia 53.48 5 16478678 (2), 16537968 (1), 12454276 (1)
hyperlipidemia 39.74 4 9421476 (1), 17320883 (1), 16537968 (1)
atherosclerosis 38.33 13 17320883 (5), 12231568 (3), 15808756 (1), 18823887 (1)
alzheimers disease 34.89 11 11825674 (2), 14705977 (1), 11702052 (1), 18160739 (1) (see all 6)
coronary heart disease 25.06 1 2109805 (1)
memory impairment 15.66 3 11714102 (2), 12736801 (1)
coronary artery disease 6.22 4 12231568 (2), 10645915 (1)
cardiovascular diseases 4.74 1 14746139 (1)
About this table

Human Gene Mutation Database: APOC1
Genetic Association Database: APOC1
Human Genome Epidemiology Navigator: APOC1 (28 documents)

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

10/188 PubMed articles for APOC1 gene (see all 188 ):
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 341 HGNC: 607 AceView: APOEandAPOC1 Ensembl:ENSG00000130208 euGenes: HUgn341
ECgene: APOC1 H-InvDB: APOC1
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

NameDescription
Wikipedia http://en.wikipedia.org/wiki/Apolipoprotein_C1
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for APOC1:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Predesigned and custom siRNAs for APOC1 Antibodies for APOC1
 Explore super-pooled esiRNAs Proteins for APOC1
 Lentivirus-delivered shRNAs for APOC1 Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
 Antibodies   Primer Pairs  
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 Recombinant & Natural Proteins  

 Recombinant Proteins (APOC1)
 Antibodies (APOC1)
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 Custom Service for Rabbit Pab from Full-length Protein
  
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 Recombinant Proteins
(Apolipoprotein CI , HDL)
 Antibodies (Apolipoprotein CI , HDL)
 Search OriGene for APOC1
 Search Tocris compounds for APOC1




 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Antibodies for APOC1

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