Apaf1 (apoptotic peptidase activating factor 1) - Rat Genome Database

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Gene: Apaf1 (apoptotic peptidase activating factor 1) Rattus norvegicus
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Symbol: Apaf1
Name: apoptotic peptidase activating factor 1
RGD ID: 620575
Description: Enables heat shock protein binding activity and identical protein binding activity. Involved in several processes, including aging; cardiac muscle cell apoptotic process; and cellular response to transforming growth factor beta stimulus. Located in cytoplasm. Part of apoptosome. Used to study visual epilepsy. Biomarker of brain ischemia; colon cancer; middle cerebral artery infarction; and muscular atrophy. Orthologous to human APAF1 (apoptotic peptidase activating factor 1); PARTICIPATES IN intrinsic apoptotic pathway; Alzheimer's disease pathway; amyotrophic lateral sclerosis pathway; INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: apaf-1; apoptotic protease activating factor 1; apoptotic protease-activating factor 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2725,494,143 - 25,579,540 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl725,494,609 - 25,579,540 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx727,489,053 - 27,573,980 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0729,651,444 - 29,736,367 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0729,428,845 - 29,513,775 (-)NCBIRnor_WKY
Rnor_6.0731,699,309 - 31,784,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl731,699,885 - 31,784,192 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0731,791,073 - 31,872,984 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4727,932,908 - 28,020,533 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1727,953,178 - 28,040,804 (-)NCBI
Celera722,620,761 - 22,706,298 (-)NCBICelera
Cytogenetic Map7q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(S)-naringenin  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-D  (ISO)
2,4-dinitrophenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-chloropropane-1,2-diol  (EXP,ISO)
3-methyladenine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-nitrophenol  (ISO)
4-nonylphenol  (EXP)
4-phenylbutyric acid  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-O-methylguanine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
8-Br-cAMP  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alloxan  (EXP)
apigenin  (EXP,ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (EXP,ISO)
atrazine  (ISO)
azadirachtin A  (ISO)
bafilomycin A1  (ISO)
benzene  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bifenthrin  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bufalin  (ISO)
butyric acid  (ISO)
cadmium dichloride  (ISO)
cadmium sulfide  (ISO)
cannabidiol  (ISO)
capsaicin  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carnosic acid  (ISO)
casticin  (ISO)
ceric oxide  (ISO)
chlorpyrifos  (ISO)
cholesterol  (EXP)
choline  (ISO)
cimetidine  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
coenzyme Q10  (ISO)
colistin  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
curcumin  (EXP,ISO)
cycloheximide  (ISO)
cyclophosphamide  (ISO)
cyfluthrin  (ISO)
cylindrospermopsin  (ISO)
cypermethrin  (ISO)
D-glucose  (ISO)
DDE  (EXP)
decabromodiphenyl ether  (ISO)
desferrioxamine B  (ISO)
diarsenic trioxide  (EXP,ISO)
diazinon  (EXP)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
Didecyldimethylammonium  (ISO)
dieldrin  (EXP)
diepoxybutane  (ISO)
diethyl maleate  (ISO)
diethyldithiocarbamic acid  (ISO)
dioscin  (ISO)
diosgenin  (ISO)
dioxygen  (EXP)
doxorubicin  (EXP,ISO)
ellagic acid  (ISO)
endosulfan  (EXP,ISO)
epichlorohydrin  (ISO)
erlotinib hydrochloride  (ISO)
ethanol  (EXP)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
eugenol  (ISO)
flavone  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fructose  (ISO)
furan  (EXP)
furosemide  (EXP)
genistein  (ISO)
gentamycin  (EXP)
gingerol  (ISO)
ginsenoside Rg1  (ISO)
glucaric acid  (ISO)
glucose  (ISO)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hydroxyurea  (ISO)
indole-3-methanol  (ISO)
isoflurane  (EXP)
isoprenaline  (ISO)
ivermectin  (ISO)
kainic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead nitrate  (ISO)
leptomycin B  (ISO)
linuron  (EXP)
lipopolysaccharide  (ISO)
mancozeb  (ISO)
mangiferin  (ISO)
MeIQx  (ISO)
melatonin  (ISO)
melittin  (EXP,ISO)
metformin  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
mitomycin C  (ISO)
morin  (ISO)
Muraglitazar  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-methyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
neomycin  (ISO)
nickel atom  (ISO)
nicotinamide  (ISO)
ochratoxin A  (EXP,ISO)
okadaic acid  (ISO)
ouabain  (ISO)
p-menthan-3-ol  (ISO)
paclitaxel  (ISO)
paeoniflorin  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentobarbital  (EXP)
perfluorononanoic acid  (ISO)
peroxynitrous acid  (EXP)
phenethyl isothiocyanate  (ISO)
phenobarbital  (EXP,ISO)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
propofol  (EXP)
propylparaben  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
ruxolitinib  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
safrole  (ISO)
Se-methyl-L-selenocysteine  (ISO)
Se-methylselenocysteine  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (ISO)
sodium fluoride  (ISO)
tanespimycin  (ISO)
taurine  (EXP)
tauroursodeoxycholic acid  (EXP)
tert-butyl hydroperoxide  (EXP,ISO)
thioacetamide  (EXP)
topotecan  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
Triptolide  (EXP,ISO)
troglitazone  (EXP)
urethane  (ISO)
ursodeoxycholic acid  (EXP)
valproic acid  (ISO)
vemurafenib  (ISO)
vinclozolin  (EXP)
WIN 55212-2  (ISO)
zearalenone  (ISO)
zebularine  (ISO)
zinc oxide  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
apoptosome  (IDA,IEA,ISO)
cytoplasm  (IDA)
cytosol  (ISO)
nucleus  (ISO)
protein-containing complex  (ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Elevated caspase and AIF gene expression correlate with progression of sarcopenia during aging in male F344BN rats. Baker DJ and Hepple RT, Exp Gerontol. 2006 Nov;41(11):1149-56. Epub 2006 Oct 6.
2. Bax and Bid act in synergy to bring about T11TS-mediated glioma apoptosis via the release of mitochondrial cytochrome c and subsequent caspase activation. Bhattacharjee M, etal., Int Immunol. 2008 Dec;20(12):1489-505. Epub 2008 Oct 17.
3. Huntingtin-interacting protein 1-mediated neuronal cell death occurs through intrinsic apoptotic pathways and mitochondrial alterations. Choi SA, etal., FEBS Lett. 2006 Oct 2;580(22):5275-82. Epub 2006 Sep 11.
4. Apaf-1, Bcl-xL, cytochrome c, and caspase-9 form the critical elements for cerebral vascular protection by erythropoietin. Chong ZZ, etal., J Cereb Blood Flow Metab 2003 Mar;23(3):320-30.
5. Analysis of apoptosome dysregulation in pancreatic cancer and of its role in chemoresistance. Corvaro M, etal., Cancer Biol Ther. 2007 Feb;6(2):209-17. Epub 2007 Feb 25.
6. Comparison of combined antioxidants and thymoquinone in the prevention of testis ischemia - reperfusion injury. Erol B, etal., Andrology. 2017 Jan;5(1):119-124. doi: 10.1111/andr.12268. Epub 2016 Oct 16.
7. The protective effects of tadalafil on renal damage following ischemia reperfusion injury in rats. Erol B, etal., Kaohsiung J Med Sci. 2015 Sep;31(9):454-62. doi: 10.1016/j.kjms.2015.06.005. Epub 2015 Jul 22.
8. Transforming growth factor-beta(1) induces apoptosis in rat FaO hepatoma cells via cytochrome c release and oligomerization of Apaf-1 to form a approximately 700-kd apoptosome caspase-processing complex. Freathy C, etal., Hepatology. 2000 Oct;32(4 Pt 1):750-60.
9. 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.
10. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
11. Formation of the Apaf-1/cytochrome c complex precedes activation of caspase-9 during seizure-induced neuronal death. Henshall DC, etal., Cell Death Differ. 2001 Dec;8(12):1169-81.
12. Apaf-1 deficiency and neural tube closure defects are found in fog mice. Honarpour N, etal., Proc Natl Acad Sci U S A 2001 Aug 14;98(17):9683-7.
13. Immunohistochemical localization of apoptosome-related proteins in Lewy bodies in Parkinson's disease and dementia with Lewy bodies. Kawamoto Y, etal., Brain Res. 2014 Jul 7;1571:39-48. doi: 10.1016/j.brainres.2014.05.007. Epub 2014 May 13.
14. p53- and Bax-mediated apoptosis in injured rat spinal cord. Kotipatruni RR, etal., Neurochem Res. 2011 Nov;36(11):2063-74. doi: 10.1007/s11064-011-0530-2. Epub 2011 Jul 7.
15. MiR-484 promotes non-small-cell lung cancer (NSCLC) progression through inhibiting Apaf-1 associated with the suppression of apoptosis. Li T, etal., Biomed Pharmacother. 2017 Dec;96:153-164. doi: 10.1016/j.biopha.2017.09.102. Epub 2017 Oct 2.
16. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
17. An AAV-derived Apaf-1 dominant negative inhibitor prevents MPTP toxicity as antiapoptotic gene therapy for Parkinson's disease. Mochizuki H, etal., Proc Natl Acad Sci U S A. 2001 Sep 11;98(19):10918-23. doi: 10.1073/pnas.191107398. Epub 2001 Sep 4.
18. Modulation of cellular apoptosis with apoptotic protease-activating factor 1 (Apaf-1) inhibitors. Mondragon L, etal., J Med Chem. 2008 Feb 14;51(3):521-9. Epub 2008 Jan 16.
19. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
20. Online Mendelian Inheritance in Man, OMIM (TM). Online Mendelian Inheritance in Man, OMIM (TM).
21. Apaf-1 inhibitors protect from unwanted cell death in in vivo models of kidney ischemia and chemotherapy induced ototoxicity. Orzáez M, etal., PLoS One. 2014 Oct 20;9(10):e110979. doi: 10.1371/journal.pone.0110979. eCollection 2014.
22. Alteration of apoptotic protease-activating factor-1 (APAF-1)-dependent apoptotic pathway during development of rat brain and liver. Ota K, etal., J Biochem (Tokyo) 2002 Jan;131(1):131-5.
23. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
24. GOA pipeline RGD automated data pipeline
25. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
26. Piroxicam and C-phycocyanin mediated apoptosis in 1,2-dimethylhydrazine dihydrochloride induced colon carcinogenesis: exploring the mitochondrial pathway. Saini MK, etal., Nutr Cancer. 2012 Apr;64(3):409-18. doi: 10.1080/01635581.2012.655402. Epub 2012 Feb 27.
27. Involvement of subtype 1 metabotropic glutamate receptors in apoptosis and caspase-7 over-expression in spinal cord of neuropathic rats. Siniscalco D, etal., Pharmacol Res. 2008 Mar;57(3):223-33. Epub 2008 Feb 2.
28. MicroRNA-17-mediated down-regulation of apoptotic protease activating factor 1 attenuates apoptosome formation and subsequent apoptosis of cardiomyocytes. Song S, etal., Biochem Biophys Res Commun. 2015 Sep 18;465(2):299-304. doi: 10.1016/j.bbrc.2015.08.028. Epub 2015 Aug 8.
29. Expression of Cyt-c-Mediated Mitochondrial Apoptosis-Related Proteins in Rat Renal Proximal Tubules during Development. Song XF, etal., Nephron. 2017;135(1):77-86. doi: 10.1159/000450585. Epub 2016 Sep 24.
30. Identification of the apoptosis activation cascade induced in mammary carcinomas by energy restriction. Thompson HJ, etal., Cancer Res. 2004 Feb 15;64(4):1541-5.
31. Jun kinase delays caspase-9 activation by interaction with the apoptosome. Tran TH, etal., J Biol Chem. 2007 Jul 13;282(28):20340-50. Epub 2007 May 4.
32. Decreased apoptosome activity with neuronal differentiation sets the threshold for strict IAP regulation of apoptosis. Wright KM, etal., J Cell Biol. 2004 Oct 25;167(2):303-13.
33. Greater stress protein expression enhanced by combined prostaglandin A1 and lithium in a rat model of focal ischemia. Xu XH, etal., Acta Pharmacol Sin. 2007 Aug;28(8):1097-104.
34. Propofol reduces nitric oxide-induced apoptosis in testicular ischemia-reperfusion injury by downregulating the expression of inducible nitric oxide synthase. Yagmurdur H, etal., Acta Anaesthesiol Scand. 2008 Mar;52(3):350-7. Epub 2008 Jan 16.
35. Differential expression of apoptotic protease-activating factor-1 and caspase-3 genes and susceptibility to apoptosis during brain development and after traumatic brain injury. Yakovlev AG, etal., J Neurosci. 2001 Oct 1;21(19):7439-46.
36. Apaf1 is required for mitochondrial pathways of apoptosis and brain development. Yoshida H, etal., Cell 1998 Sep 18;94(6):739-50.
37. Protective effect of flavonoid-rich extract from Rosa laevigata Michx on cerebral ischemia-reperfusion injury through suppression of apoptosis and inflammation. Zhang S, etal., Neurochem Int. 2013 Nov;63(5):522-32. doi: 10.1016/j.neuint.2013.08.008. Epub 2013 Sep 4.
38. Valproic acid-mediated neuroprotection in retinal ischemia injury via histone deacetylase inhibition and transcriptional activation. Zhang Z, etal., Exp Eye Res. 2012 Jan;94(1):98-108. Epub 2011 Nov 28.
Additional References at PubMed
PMID:9216040   PMID:9267021   PMID:9753320   PMID:10830166   PMID:11821383   PMID:15271982   PMID:15703386   PMID:15776018   PMID:15877105   PMID:15907471   PMID:16183742   PMID:16207793  
PMID:16375719   PMID:16407291   PMID:19056867   PMID:21827945   PMID:27443636   PMID:27580417   PMID:31212066   PMID:34304702  


Genomics

Comparative Map Data
Apaf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2725,494,143 - 25,579,540 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl725,494,609 - 25,579,540 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx727,489,053 - 27,573,980 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0729,651,444 - 29,736,367 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0729,428,845 - 29,513,775 (-)NCBIRnor_WKY
Rnor_6.0731,699,309 - 31,784,192 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl731,699,885 - 31,784,192 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0731,791,073 - 31,872,984 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4727,932,908 - 28,020,533 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1727,953,178 - 28,040,804 (-)NCBI
Celera722,620,761 - 22,706,298 (-)NCBICelera
Cytogenetic Map7q13NCBI
APAF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381298,645,290 - 98,735,433 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1298,645,290 - 98,735,433 (+)EnsemblGRCh38hg38GRCh38
GRCh371299,039,068 - 99,129,211 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361297,563,209 - 97,653,342 (+)NCBINCBI36Build 36hg18NCBI36
Build 341297,541,545 - 97,631,678NCBI
Celera1298,703,974 - 98,794,106 (+)NCBICelera
Cytogenetic Map12q23.1NCBI
HuRef1296,100,029 - 96,190,306 (+)NCBIHuRef
CHM1_11299,004,024 - 99,094,151 (+)NCBICHM1_1
T2T-CHM13v2.01298,618,230 - 98,708,377 (+)NCBIT2T-CHM13v2.0
Apaf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391090,825,173 - 90,918,688 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1090,825,173 - 90,918,632 (-)EnsemblGRCm39 Ensembl
GRCm381090,989,311 - 91,082,743 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1090,989,311 - 91,082,770 (-)EnsemblGRCm38mm10GRCm38
MGSCv371090,452,056 - 90,545,488 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361090,420,401 - 90,512,501 (-)NCBIMGSCv36mm8
Celera1092,983,615 - 93,080,742 (-)NCBICelera
Cytogenetic Map10C2NCBI
cM Map1045.47NCBI
Apaf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540534,623,267 - 34,693,677 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540534,619,780 - 34,693,616 (+)NCBIChiLan1.0ChiLan1.0
APAF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11299,637,622 - 99,726,946 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1299,637,622 - 99,726,939 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01296,224,515 - 96,311,246 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
APAF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11538,026,893 - 38,160,842 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1538,028,132 - 38,114,987 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1538,408,276 - 38,554,051 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01538,689,945 - 38,835,971 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1538,689,948 - 38,780,498 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11537,961,882 - 38,107,501 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01538,054,503 - 38,200,556 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01538,328,187 - 38,474,238 (+)NCBIUU_Cfam_GSD_1.0
Apaf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494521,806,281 - 21,891,969 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649214,816,623 - 14,902,132 (-)EnsemblSpeTri2.0
SpeTri2.0NW_00493649214,818,561 - 14,902,231 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APAF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl585,166,628 - 85,258,364 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1585,166,616 - 85,258,751 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2589,443,106 - 89,580,992 (-)NCBISscrofa10.2Sscrofa10.2susScr3
APAF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11193,942,137 - 94,024,728 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1193,942,103 - 94,024,457 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037151,034,383 - 151,120,759 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Apaf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247508,837,037 - 8,938,009 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247508,835,521 - 8,940,957 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Apaf1
736 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:110
Count of miRNA genes:90
Interacting mature miRNAs:97
Transcripts:ENSRNOT00000010869
Prediction methods:Microtar, 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
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)71579556538073970Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)71816950526029351Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)71903280735526300Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)71965431749753746Rat
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)71965431749753746Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)71965431752888450Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)72055570529891047Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat


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
Medium 2 20 14 6 19 6 56 20 33 11
Low 1 23 43 35 35 8 11 18 15 8 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010869   ⟹   ENSRNOP00000010869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl725,494,609 - 25,579,540 (-)Ensembl
Rnor_6.0 Ensembl731,699,885 - 31,784,192 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115920   ⟹   ENSRNOP00000081242
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl725,494,609 - 25,579,540 (-)Ensembl
RefSeq Acc Id: NM_023979   ⟹   NP_076469
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2725,494,596 - 25,579,540 (-)NCBI
Rnor_6.0731,699,872 - 31,784,192 (-)NCBI
Rnor_5.0731,791,073 - 31,872,984 (-)NCBI
RGSC_v3.4727,932,908 - 28,020,533 (-)RGD
Celera722,620,761 - 22,706,298 (-)RGD
Sequence:
RefSeq Acc Id: XM_008765263   ⟹   XP_008763485
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2725,494,143 - 25,575,368 (-)NCBI
Rnor_6.0731,699,309 - 31,770,327 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_076469   ⟸   NM_023979
- UniProtKB: Q9EPV5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008763485   ⟸   XM_008765263
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000010869   ⟸   ENSRNOT00000010869
RefSeq Acc Id: ENSRNOP00000081242   ⟸   ENSRNOT00000115920
Protein Domains
CARD   NB-ARC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EPV5-F1-model_v2 AlphaFold Q9EPV5 1-1249 view protein structure

Transcriptome

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

Promoters
RGD ID:13695139
Promoter ID:EPDNEW_R5664
Type:multiple initiation site
Name:Apaf1_1
Description:apoptotic peptidase activating factor 1
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_6.0731,784,141 - 31,784,201EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620575 AgrOrtholog
BioCyc Gene G2FUF-34469 BioCyc
Ensembl Genes ENSRNOG00000008022 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010869 ENTREZGENE
  ENSRNOP00000010869.6 UniProtKB/Swiss-Prot
  ENSRNOP00000081242.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010869 ENTREZGENE
  ENSRNOT00000010869.7 UniProtKB/Swiss-Prot
  ENSRNOT00000115920.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.10.533.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.10.8.430 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.370 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Apaf-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  APAF1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  APAF1_CARD_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Apaf_helical UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DEATH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  G-protein_beta_WD-40_rep UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NB-ARC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:78963 UniProtKB/Swiss-Prot
NCBI Gene 78963 ENTREZGENE
PANTHER APOPTOTIC PROTEASE-ACTIVATING FACTOR 1 UniProtKB/Swiss-Prot
  APOPTOTIC PROTEASE-ACTIVATING FACTOR 1 UniProtKB/Swiss-Prot
  APOPTOTIC PROTEASE-ACTIVATING FACTOR 1 UniProtKB/TrEMBL
  APOPTOTIC PROTEASE-ACTIVATING FACTOR 1 UniProtKB/TrEMBL
Pfam APAF1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NB-ARC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Apaf1 PhenoGen
PIRSF Apop_pept_activating-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS DISEASERSIST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPROTEINBRPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD_REPEATS_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART WD40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50978 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6G5N4_RAT UniProtKB/TrEMBL
  APAF_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Apaf1  apoptotic peptidase activating factor 1    apoptotic protease activating factor 1  Name updated 1299863 APPROVED
2002-08-07 Apaf1  apoptotic protease activating factor 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expression suppressed within 4 weeks after birth in brain tissue 1299279