Apoa4 (apolipoprotein A4) - Rat Genome Database

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Gene: Apoa4 (apolipoprotein A4) Rattus norvegicus
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Symbol: Apoa4
Name: apolipoprotein A4
RGD ID: 2132
Description: Predicted to enable several functions, including cation binding activity; cholesterol transfer activity; and phosphatidylcholine-sterol O-acyltransferase activator activity. Involved in peripheral nervous system axon regeneration and response to triglyceride. Part of chylomicron. Is active in synapse. Biomarker of major depressive disorder. Human ortholog(s) of this gene implicated in Alzheimer's disease; colitis; myocardial infarction; and ulcerative colitis. Orthologous to human APOA4 (apolipoprotein A4); PARTICIPATES IN altered lipoprotein metabolic pathway; lipoprotein metabolic pathway; INTERACTS WITH 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate; 1-nitropropane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Acl; Apo-AIV; ApoA-IV; apoAIV; Apoc4; apolipoprotein A-IV; apolipoprotein C-IV; apolipoprotein CIV
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Apoa4em1Bcgen  
Genetic Models: SD-Apoa4em1Bcgen
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2846,539,083 - 46,541,464 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl846,539,082 - 46,541,469 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx852,040,348 - 52,042,728 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0850,319,122 - 50,321,502 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0848,183,398 - 48,185,778 (+)NCBIRnor_WKY
Rnor_6.0850,536,983 - 50,539,371 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl850,537,009 - 50,539,376 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0849,163,055 - 49,165,333 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4849,233,142 - 49,233,431 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1849,245,005 - 49,245,297 (+)NCBI
Celera846,121,074 - 46,123,455 (+)NCBICelera
RH 3.4 Map8473.3RGD
Cytogenetic Map8q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP)
1-naphthyl isothiocyanate  (EXP)
1-nitropropane  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-diaminotoluene  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,6-di-tert-butyl-4-methylphenol  (EXP)
2,6-diaminotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-nitro-p-phenylenediamine  (EXP)
2-nitropropane  (EXP)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,3',5-triiodo-L-thyronine  (EXP)
3-methylcholanthrene  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-acetylaminofluorene  (EXP)
4-nitro-1,2-phenylenediamine  (EXP)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
amitriptyline  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzbromarone  (EXP)
benzene  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
cerium trichloride  (ISO)
CGP 52608  (ISO)
chenodeoxycholic acid  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
clofibrate  (EXP,ISO)
clomipramine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (EXP)
dextran sulfate  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
doramapimod  (ISO)
fenofibrate  (ISO)
flavonoids  (EXP)
fluconazole  (EXP)
folic acid  (ISO)
fructose  (ISO)
fumonisin B1  (ISO)
furan  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
graphite  (EXP)
high-density lipoprotein cholesterol  (ISO)
hydrazine  (EXP,ISO)
hydrogen peroxide  (ISO)
imipramine  (EXP)
isoniazide  (ISO)
ketoconazole  (EXP)
L-ethionine  (EXP)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
metacetamol  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
O-methyleugenol  (ISO)
ochratoxin A  (EXP)
octadecanoic acid  (ISO)
olanzapine  (ISO)
oleic acid  (ISO)
omeprazole  (EXP)
p-toluidine  (EXP)
paracetamol  (ISO)
perfluorobutanesulfonic acid  (EXP)
perfluorobutyric acid  (EXP)
perfluorododecanoic acid  (EXP)
perfluorohexanesulfonic acid  (EXP)
perfluorohexanoic acid  (EXP)
perfluorononanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP,ISO)
perfluoroundecanoic acid  (EXP)
permethrin  (ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
phenytoin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
potassium dichromate  (ISO)
propiconazole  (EXP)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rifaximin  (ISO)
rotenone  (EXP)
simvastatin  (EXP,ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (ISO)
streptozocin  (EXP)
sulfasalazine  (ISO)
tamoxifen  (ISO)
taurocholic acid  (EXP)
tebuconazole  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triadimefon  (EXP)
trichloroethene  (EXP,ISO)
triolein  (EXP)
triphenyl phosphate  (EXP)
troglitazone  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cholesterol biosynthetic process  (IBA)
cholesterol efflux  (IBA,IEA,ISO)
cholesterol homeostasis  (IBA,IEA,ISO)
cholesterol metabolic process  (IEA,ISO)
high-density lipoprotein particle assembly  (IBA)
high-density lipoprotein particle remodeling  (IEA,ISO)
hydrogen peroxide catabolic process  (IEA,ISO)
innate immune response in mucosa  (IEA,ISO)
intermembrane lipid transfer  (IEA)
leukocyte cell-cell adhesion  (IEA,ISO)
lipid catabolic process  (IEA,ISO)
lipid homeostasis  (ISO)
lipid transport  (ISO,TAS)
lipoprotein metabolic process  (IBA,IEA)
negative regulation of plasma lipoprotein oxidation  (IEA,ISO)
obsolete positive regulation of cholesterol esterification  (ISO)
peripheral nervous system axon regeneration  (IEP)
phosphatidylcholine metabolic process  (IBA,IEA,ISO)
phospholipid efflux  (IBA,IEA,ISO)
positive regulation of CoA-transferase activity  (IEA,ISO)
positive regulation of fatty acid biosynthetic process  (IBA,IEA,ISO)
positive regulation of lipid biosynthetic process  (IBA)
positive regulation of lipoprotein lipase activity  (IBA,IEA,ISO)
positive regulation of triglyceride catabolic process  (IBA,IEA,ISO)
protein-lipid complex assembly  (IEA,ISO)
regulation of cholesterol transport  (ISO)
regulation of intestinal cholesterol absorption  (IBA,IEA,ISO)
removal of superoxide radicals  (IEA,ISO)
response to food  (TAS)
response to lipid hydroperoxide  (IEA,ISO)
response to stilbenoid  (IEA,ISO)
response to triglyceride  (IEP)
reverse cholesterol transport  (IBA,IEA,ISO)
triglyceride homeostasis  (IBA)
very-low-density lipoprotein particle remodeling  (IBA,IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Polymorphism of the apolipoprotein A-IV gene and its significance in lipid metabolism and coronary heart disease in a Japanese population. Bai H, etal., Eur J Clin Invest. 1996 Dec;26(12):1115-24.
2. The genetic association database. Becker KG, etal., Nat Genet. 2004 May;36(5):431-2.
3. Evolution of the apolipoproteins. Structure of the rat apo-A-IV gene and its relationship to the human genes for apo-A-I, C-III, and E. Boguski MS, etal., J Biol Chem 1986 May 15;261(14):6398-407.
4. Rat apolipoprotein A-IV contains 13 tandem repetitions of a 22-amino acid segment with amphipathic helical potential. Boguski MS, etal., Proc Natl Acad Sci U S A 1984 Aug;81(16):5021-5.
5. Identification of differentially expressed proteins in the aqueous humor of primary congenital glaucoma. Bouhenni RA, etal., Exp Eye Res. 2011 Jan;92(1):67-75. Epub 2010 Nov 13.
6. Accumulation of apolipoproteins in the regenerating and remyelinating mammalian peripheral nerve. Identification of apolipoprotein D, apolipoprotein A-IV, apolipoprotein E, and apolipoprotein A-I. Boyles JK, etal., J Biol Chem. 1990 Oct 15;265(29):17805-15.
7. Apolipoprotein A-IV is an independent predictor of disease activity in patients with inflammatory bowel disease. Broedl UC, etal., Inflamm Bowel Dis. 2007 Apr;13(4):391-7.
8. Early-life stress and antidepressants modulate peripheral biomarkers in a gene-environment rat model of depression. Carboni L, etal., Prog Neuropsychopharmacol Biol Psychiatry. 2010 Aug 16;34(6):1037-48. Epub 2010 May 23.
9. SINGLE NUCLEOTIDE POLYMORPHISMS THAT INFLUENCE LIPID METABOLISM: Interaction with Dietary Factors. Corella D and Ordovas JM, Annu Rev Nutr. 2005;25:341-90.
10. Association of the apolipoprotein A-IV codon 360 mutation in patients with Alzheimer's disease. Csaszar A, etal., Neurosci Lett. 1997 Jul 25;230(3):151-4.
11. Genetic ablation of apolipoprotein A-IV accelerates Alzheimer's disease pathogenesis in a mouse model. Cui Y, etal., Am J Pathol. 2011 Mar;178(3):1298-308.
12. Differential cerebro spinal fluid proteome investigation of Leber hereditary optic neuropathy (LHON) and multiple sclerosis. D'Aguanno S, etal., J Neuroimmunol. 2008 Jan;193(1-2):156-60. Epub 2007 Dec 3.
13. The use of multiplexed MRM for the discovery of biomarkers to differentiate iron-deficiency anemia from anemia of inflammation. Domanski D, etal., J Proteomics. 2011 Nov 26.
14. Proteins of rat serum V: adjuvant arthritis and its modulation by nonsteroidal anti-inflammatory drugs. Ebrini I, etal., Electrophoresis. 2000 Jun;21(11):2170-9.
15. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
16. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
17. Linkage, evolution, and expression of the rat apolipoprotein A-I, C-III, and A-IV genes. Haddad IA, etal., J Biol Chem 1986 Oct 5;261(28):13268-77.
18. Increased prothrombin, apolipoprotein A-IV, and haptoglobin in the cerebrospinal fluid of patients with Huntington's disease. Huang YC, etal., PLoS One. 2011 Jan 31;6(1):e15809.
19. Hypertriglyceridemia as a result of human apo CIII gene expression in transgenic mice. Ito Y, etal., Science. 1990 Aug 17;249(4970):790-3.
20. No association between apolipoprotein A-IV codon 360 mutation and late-onset Alzheimer's disease in the Japanese population. Ji Y, etal., Dement Geriatr Cogn Disord. 1999 Nov-Dec;10(6):473-5.
21. Proteomic analysis of the cerebrospinal fluid of patients with schizophrenia. Jiang L, etal., Amino Acids. 2003 Jul;25(1):49-57.
22. Identification and verification of novel rodent postsynaptic density proteins. Jordan BA, etal., Mol Cell Proteomics. 2004 Sep;3(9):857-71. doi: 10.1074/mcp.M400045-MCP200. Epub 2004 May 28.
23. Lack of association between genetic variations of apo A-I-C-III-A-IV gene cluster and myocardial infarction in a sample of European male: ECTIM study. Kee F, etal., Atherosclerosis. 1999 Jul;145(1):187-95.
24. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
25. Characterization of the peripheral neuropathy in neonatal and adult mice that are homozygous for the fatty liver dystrophy (fld) mutation. Langner CA, etal., J Biol Chem. 1991 Jun 25;266(18):11955-64.
26. Screening disease-associated proteins from sera of patients with rheumatoid arthritis: a comparative proteomic study. Li TW, etal., Chin Med J (Engl). 2010 Mar 5;123(5):537-43.
27. Diurnal rhythm of apolipoprotein A-IV in rat hypothalamus and its relation to food intake and corticosterone. Liu M, etal., Endocrinology. 2004 Jul;145(7):3232-8. Epub 2004 Apr 1.
28. Proteomic analysis of the cerebrospinal fluid of patients with lumbar disk herniation. Liu XD, etal., Proteomics. 2006 Feb;6(3):1019-28.
29. Chronic kidney disease-related atherosclerosis - proteomic studies of blood plasma. Luczak M, etal., Proteome Sci. 2011 May 13;9:25.
30. Apolipoprotein A-IV is a candidate target molecule for the treatment of seasonal allergic rhinitis. Makino Y, etal., J Allergy Clin Immunol. 2010 Dec;126(6):1163-9.e5.
31. Serum proteomic profiling and haptoglobin polymorphisms in patients with GVHD after allogeneic hematopoietic cell transplantation. McGuirk J, etal., J Hematol Oncol. 2009 Apr 20;2:17.
32. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
33. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
34. A cluster of cholesterol-related genes confers susceptibility for Alzheimer's disease. Papassotiropoulos A, etal., J Clin Psychiatry. 2005 Jul;66(7):940-7.
35. Effect of the inflammation, chronic hyperglycemia, or malabsorption on the apolipoprotein A-IV concentration in type 1 diabetes mellitus and in diabetes secondary to chronic pancreatitis. Quilliot D, etal., Metabolism. 2001 Sep;50(9):1019-24.
36. ApoA-IV polymorphism associated with myocardial infarction in obese NIDDM patients. The San Luis Valley Diabetes Study. Rewers M, etal., Diabetes. 1994 Dec;43(12):1485-9.
37. GOA pipeline RGD automated data pipeline
38. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
39. Dietary oil modifies the plasma proteome during aging in the rat. Santos-Gonzalez M, etal., Age (Dordr). 2011 Apr 7.
40. Apolipoprotein C-II and C-III levels in hyperlipoproteinemia. Schonfeld G, etal., Metabolism. 1979 Oct;28(10):1001-10.
41. Proteome Profiling of Vitreoretinal Diseases by Cluster Analysis. Shitama T, etal., Proteomics Clin Appl. 2008 Sep;2(9):1265-1280.
42. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
43. Candidate biomarkers of chronic inflammatory demyelinating polyneuropathy (CIDP): proteome analysis of cerebrospinal fluid. Tumani H, etal., J Neuroimmunol. 2009 Sep 29;214(1-2):109-12. Epub 2009 Jul 9.
44. CSF proteome analysis in clinically isolated syndrome (CIS): candidate markers for conversion to definite multiple sclerosis. Tumani H, etal., Neurosci Lett. 2009 Mar 13;452(2):214-7. Epub 2009 Jan 29.
45. Apolipoprotein A-IV inhibits experimental colitis. Vowinkel T, etal., J Clin Invest. 2004 Jul;114(2):260-9.
46. Diagnostic and prognostic significance of mRNA expressions of apolipoprotein A and C family genes in hepatitis B virus-related hepatocellular carcinoma. Wang X, etal., J Cell Biochem. 2019 Oct;120(10):18246-18265. doi: 10.1002/jcb.29131. Epub 2019 Jun 18.
47. Apolipoprotein A-IV involves in glucose and lipid metabolism of rat. Wang Z, etal., Nutr Metab (Lond). 2019 Jul 2;16:41. doi: 10.1186/s12986-019-0367-2. eCollection 2019.
48. Apolipoprotein AIV gene variant S347 is associated with increased risk of coronary heart disease and lower plasma apolipoprotein AIV levels. Wong WM, etal., Circ Res. 2003 May 16;92(9):969-75. Epub 2003 Apr 3.
49. Comparative proteomics analysis of cerebrospinal fluid of patients with Guillain-Barre syndrome. Yang YR, etal., Cell Mol Neurobiol. 2008 Aug;28(5):737-44. Epub 2008 Mar 15.
50. Differential gene expression in patients genetically predisposed to pancreatic cancer. Zervos EE, etal., J Surg Res. 2006 Oct;135(2):317-22. Epub 2006 Jun 30.
Additional References at PubMed
PMID:1935934   PMID:2307668   PMID:3095477   PMID:7798939   PMID:9186920   PMID:9300780   PMID:9323588   PMID:11162594   PMID:11940599   PMID:12477932   PMID:15082422   PMID:15117731  
PMID:16159879   PMID:16166201   PMID:16945374   PMID:17086191   PMID:17154273   PMID:18577393   PMID:19020287   PMID:20551380   PMID:22516433   PMID:22579246   PMID:22715380   PMID:23027805  
PMID:23376485   PMID:23533145   PMID:23911221   PMID:24564397   PMID:25051443   PMID:25585692   PMID:27068509   PMID:27559042   PMID:29037812   PMID:33322656  


Genomics

Comparative Map Data
Apoa4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2846,539,083 - 46,541,464 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl846,539,082 - 46,541,469 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx852,040,348 - 52,042,728 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0850,319,122 - 50,321,502 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0848,183,398 - 48,185,778 (+)NCBIRnor_WKY
Rnor_6.0850,536,983 - 50,539,371 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl850,537,009 - 50,539,376 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0849,163,055 - 49,165,333 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4849,233,142 - 49,233,431 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1849,245,005 - 49,245,297 (+)NCBI
Celera846,121,074 - 46,123,455 (+)NCBICelera
RH 3.4 Map8473.3RGD
Cytogenetic Map8q22NCBI
APOA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811116,820,700 - 116,823,304 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl11116,820,700 - 116,823,304 (-)EnsemblGRCh38hg38GRCh38
GRCh3711116,691,416 - 116,694,020 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611116,196,628 - 116,199,221 (-)NCBINCBI36Build 36hg18NCBI36
Build 3411116,196,628 - 116,199,162NCBI
Celera11113,849,234 - 113,851,827 (-)NCBICelera
Cytogenetic Map11q23.3NCBI
HuRef11112,623,690 - 112,626,283 (-)NCBIHuRef
CHM1_111116,576,178 - 116,578,767 (-)NCBICHM1_1
T2T-CHM13v2.011116,835,812 - 116,838,412 (-)NCBIT2T-CHM13v2.0
Apoa4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39946,152,142 - 46,154,756 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl946,151,994 - 46,154,757 (+)EnsemblGRCm39 Ensembl
GRCm38946,240,844 - 46,243,458 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl946,240,696 - 46,243,459 (+)EnsemblGRCm38mm10GRCm38
MGSCv37946,048,927 - 46,051,541 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36945,992,149 - 45,994,285 (+)NCBIMGSCv36mm8
Celera943,529,774 - 43,532,388 (+)NCBICelera
Cytogenetic Map9A5.2NCBI
cM Map925.36NCBI
Apoa4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541218,155,801 - 18,160,701 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541218,158,095 - 18,160,636 (-)NCBIChiLan1.0ChiLan1.0
APOA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.111115,591,788 - 115,594,382 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11115,591,788 - 115,594,382 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v011111,659,186 - 111,661,790 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
APOA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1516,751,588 - 16,754,215 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl516,751,799 - 16,754,837 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha516,803,839 - 16,806,395 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0516,698,167 - 16,700,719 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl516,698,240 - 16,701,326 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1516,835,250 - 16,837,800 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0516,737,834 - 16,740,384 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0516,780,743 - 16,783,293 (+)NCBIUU_Cfam_GSD_1.0
Apoa4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494799,177,114 - 99,179,837 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365422,098,683 - 2,101,127 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049365422,098,683 - 2,101,127 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APOA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl944,201,508 - 44,204,206 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1944,201,587 - 44,204,072 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2949,273,837 - 49,276,322 (-)NCBISscrofa10.2Sscrofa10.2susScr3
APOA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11108,186,627 - 108,190,508 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1108,186,921 - 108,189,698 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604317,861,078 - 17,863,578 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Apoa4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478412,233,593 - 12,239,763 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478412,237,329 - 12,240,013 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Apoa4
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:43
Count of miRNA genes:43
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000073593
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82266233067662330Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat
1359021Bp271Blood pressure QTL 2711.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82664491246711092Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)82720571554998217Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1331804Cm30Cardiac mass QTL 303.77443heart mass (VT:0007028)heart wet weight (CMO:0000069)82824291253961020Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
2302278Gluco36Glucose level QTL 364.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82950266550095447Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)82950266570386295Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815458482492Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83084815461290444Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83084815461290444Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83084815461290444Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)84186701070386132Rat
5684993Bmd84Bone mineral density QTL 844.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)84269268450095447Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat

Markers in Region
RH128325  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2846,541,254 - 46,541,442 (+)MAPPERmRatBN7.2
Rnor_6.0850,539,162 - 50,539,349NCBIRnor6.0
Rnor_5.0849,165,124 - 49,165,311UniSTSRnor5.0
RGSC_v3.4849,233,222 - 49,233,409UniSTSRGSC3.4
Celera846,123,246 - 46,123,433UniSTS
RH 3.4 Map8491.69UniSTS
Cytogenetic Map8q22UniSTS
RH94460  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2846,541,008 - 46,541,185 (+)MAPPERmRatBN7.2
Rnor_6.0850,538,916 - 50,539,092NCBIRnor6.0
Rnor_5.0849,164,878 - 49,165,054UniSTSRnor5.0
Celera846,123,000 - 46,123,176UniSTS
RH 3.4 Map8473.3UniSTS
Cytogenetic Map8q22UniSTS


Genetic Models
This gene Apoa4 is modified in the following models/strains

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 5 5 5
Medium 14 14 14
Low 2 28 22 4 22 2 6 2
Below cutoff 7 10 13 8 9 18 17 24 6 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000080658   ⟹   ENSRNOP00000069659
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl846,539,082 - 46,541,469 (+)Ensembl
Rnor_6.0 Ensembl850,537,009 - 50,539,376 (+)Ensembl
RefSeq Acc Id: NM_012737   ⟹   NP_036869
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2846,539,083 - 46,541,464 (+)NCBI
Rnor_6.0850,536,983 - 50,539,371 (+)NCBI
Rnor_5.0849,163,055 - 49,165,333 (+)NCBI
RGSC_v3.4849,233,142 - 49,233,431 (+)RGD
Celera846,121,074 - 46,123,455 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036869   ⟸   NM_012737
- Peptide Label: precursor
- UniProtKB: Q5BK92 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069659   ⟸   ENSRNOT00000080658

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P02651-F1-model_v2 AlphaFold P02651 1-391 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13695928
Promoter ID:EPDNEW_R6453
Type:multiple initiation site
Name:Apoa4_1
Description:apolipoprotein A4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0850,536,983 - 50,537,043EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2132 AgrOrtholog
BioCyc Gene G2FUF-30650 BioCyc
Ensembl Genes ENSRNOG00000055909 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000069659 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000080658 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7373033 IMAGE-MGC_LOAD
InterPro ApoA_E UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25080 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108730 IMAGE-MGC_LOAD
NCBI Gene 25080 ENTREZGENE
Pfam Apolipoprotein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB APOA4 RGD
PhenoGen Apoa4 PhenoGen
TIGR TC208020
UniProt A0A0G2JVX7_RAT UniProtKB/TrEMBL
  APOA4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q5BK92 ENTREZGENE
UniProt Secondary Q5BK92 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-04 Apoa4  apolipoprotein A4  Apoa4  apolipoprotein A-IV  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Apoa4  apolipoprotein A-IV    Apolipoprotein A-IV  Name updated 629478 APPROVED
2001-05-08 Apoa4  Apolipoprotein A-IV      Name changed to reflect Human and Mouse nomenclature 62408 APPROVED
2001-05-08 Apoa4  Apolipoprotein C-IV      Name withdrawn, does not match Human and Mouse nomenclature 62408 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in liver and intestine 634656
gene_function may bind lipids 634657
gene_process may play a role in lipid transport 634656
gene_product member of the apolipoprotein gene family 634656
gene_product is a component of chylomicrons and of high density lipoproteins 634658