Ptafr (platelet-activating factor receptor) - Rat Genome Database

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Gene: Ptafr (platelet-activating factor receptor) Rattus norvegicus
Analyze
Symbol: Ptafr
Name: platelet-activating factor receptor
RGD ID: 61897
Description: Enables mitogen-activated protein kinase binding activity and platelet activating factor receptor activity. Involved in several processes, including positive regulation of cellular biosynthetic process; regulation of cellular extravasation; and response to bacterium. Predicted to be located in plasma membrane. Used to study several diseases, including acute kidney failure; neutropenia; perinatal necrotizing enterocolitis; pleurisy; and transient cerebral ischemia. Biomarker of conjunctivitis; sciatic neuropathy; and transient cerebral ischemia. Orthologous to human PTAFR (platelet activating factor receptor); PARTICIPATES IN calcium/calcium-mediated signaling pathway; Staphylococcus aureus infection pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: PAF-R; PAFr
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
GRCr85150,049,322 - 150,079,060 (+)NCBIGRCr8
mRatBN7.25144,765,770 - 144,795,057 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5144,765,976 - 144,795,251 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5147,473,683 - 147,495,127 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05149,243,260 - 149,264,707 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05149,231,360 - 149,253,019 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05150,746,284 - 150,775,675 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5150,754,021 - 150,775,672 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05154,414,542 - 154,443,798 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45152,565,687 - 152,587,342 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15152,575,728 - 152,597,381 (-)NCBI
Celera5143,199,712 - 143,221,168 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (ISO)
1-naphthyl isothiocyanate  (EXP)
1-O-palmitoyl-2-O-(5-oxovaleryl)-sn-glycero-3-phosphocholine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2-acetyl-1-alkyl-sn-glycero-3-phosphocholine  (EXP,ISO)
2-naphthylamine  (ISO)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
albuterol  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
Apafant  (ISO)
arachidonic acid  (EXP)
aristolochic acid A  (ISO)
asbestos  (ISO)
avobenzone  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
cadmium atom  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
cannabidiol  (ISO)
carbon nanotube  (ISO)
carvedilol  (EXP)
CGP 52608  (ISO)
chlorpyrifos  (EXP,ISO)
choline  (ISO)
cisplatin  (ISO)
Cuprizon  (EXP)
D-glucose  (ISO)
dexamethasone  (EXP)
dextran sulfate  (ISO)
dichlorine  (EXP)
elemental selenium  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenvalerate  (EXP)
flavonoids  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fructose  (ISO)
gentamycin  (EXP)
ginsenoside Re  (ISO)
glucose  (ISO)
glyphosate  (ISO)
indometacin  (EXP)
L-arginine  (EXP)
L-methionine  (ISO)
lipopolysaccharide  (EXP,ISO)
lipoxin A4  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nicotine  (ISO)
o-anisidine  (ISO)
ozone  (EXP,ISO)
paracetamol  (EXP,ISO)
perfluorooctanoic acid  (ISO)
phorbol 13-acetate 12-myristate  (EXP)
potassium chromate  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
selenium atom  (ISO)
sevoflurane  (ISO)
silicon dioxide  (EXP,ISO)
simvastatin  (EXP)
sodium arsenite  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zileuton  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to 2-O-acetyl-1-O-hexadecyl-sn-glycero-3-phosphocholine  (IEP)
cellular response to cAMP  (IEP)
cellular response to fatty acid  (IEP)
cellular response to gravity  (IEP)
chemotaxis  (IEA)
G protein-coupled purinergic nucleotide receptor signaling pathway  (IEA)
G protein-coupled receptor signaling pathway  (IBA,IMP)
inflammatory response  (ISO)
inositol trisphosphate biosynthetic process  (ISO)
lipopolysaccharide-mediated signaling pathway  (IEA)
negative regulation of blood pressure  (IMP)
parturition  (IMP)
phospholipase C-activating G protein-coupled receptor signaling pathway  (ISO)
positive regulation of cellular extravasation  (IMP)
positive regulation of gastro-intestinal system smooth muscle contraction  (IMP)
positive regulation of inositol phosphate biosynthetic process  (IDA)
positive regulation of interleukin-6 production  (IMP)
positive regulation of leukocyte cell-cell adhesion  (IMP)
positive regulation of leukocyte tethering or rolling  (IMP)
positive regulation of maternal process involved in parturition  (IMP)
positive regulation of neutrophil degranulation  (IMP)
positive regulation of phospholipase C activity  (IDA)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of smooth muscle contraction  (IMP)
positive regulation of transcytosis  (IMP)
positive regulation of translation  (IMP)
positive regulation of tumor necrosis factor production  (IMP)
positive regulation of voltage-gated chloride channel activity  (IDA)
regulation of transcription by RNA polymerase II  (IMP)
response to 2-O-acetyl-1-O-hexadecyl-sn-glycero-3-phosphocholine  (IEP)
response to dexamethasone  (IEP)
response to lipopolysaccharide  (IEP,ISO)
response to organophosphorus  (IEP)
response to symbiotic bacterium  (IEP)
transcytosis  (IMP)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Platelet-activating factor in vasoobliteration of oxygen-induced retinopathy. Beauchamp MH, etal., Invest Ophthalmol Vis Sci. 2002 Oct;43(10):3327-37.
2. Cloning, expression and tissue distribution of rat platelet-activating-factor-receptor cDNA. Bito H, etal., Eur J Biochem 1994 Apr 1;221(1):211-8.
3. Scorpion venom-induced neutrophilia is inhibited by a PAF receptor antagonist in the rat. Borges CM, etal., J Leukoc Biol. 2000 Apr;67(4):515-9.
4. The third intracellular domain of the platelet-activating factor receptor is a critical determinant in receptor coupling to phosphoinositide phospholipase C-activating G proteins. Studies using intracellular domain minigenes and receptor chimeras. Carlson SA, etal., J Biol Chem. 1996 Sep 20;271(38):23146-53.
5. Mutation of a putative amphipathic alpha-helix in the third intracellular domain of the platelet-activating factor receptor disrupts receptor/G protein coupling and signaling. Carlson SA, etal., Mol Pharmacol. 1998 Mar;53(3):451-8.
6. Regulation of platelet-activating factor receptor and platelet-activating factor receptor-mediated biological responses by cAMP in rat Kupffer cells. Chao W, etal., J Biol Chem. 1990 Oct 15;265(29):17576-83.
7. Platelet-activating factor (PAF) mediation of rat anaphylactic responses to soluble immune complexes. Studies with PAF receptor antagonist L-652,731. Doebber TW, etal., J Immunol. 1986 Jun 15;136(12):4659-68.
8. Platelet-activating factor (PAF) enhances tumor necrosis factor production by alveolar macrophages. Prevention by PAF receptor antagonists and lipoxygenase inhibitors. Dubois C, etal., J Immunol. 1989 Aug 1;143(3):964-70.
9. Platelet activating factor receptor antagonist improves survival and attenuates eicosanoid release in severe endotoxemia. Fletcher JR, etal., Ann Surg. 1990 Mar;211(3):312-6.
10. 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.
11. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
12. Inhibition and reversal of endotoxin-, aggregated IgG- and paf-induced hypotension in the rat by SRI 63-072, a paf receptor antagonist. Handley DA, etal., Immunopharmacology. 1986 Aug;12(1):11-6.
13. Mechanisms of glomerular injury in experimental immune nephritis. II. Effect of a platelet activating factor receptor antagonist in an autologous nephritis model. Hruby ZW, etal., Arch Immunol Ther Exp (Warsz). 1991;39(5-6):575-86.
14. Differential actions of platelet-activating factor (PAF) receptor antagonists on the vasodilator and vasoconstrictor effects of PAF in the rat perfused heart. Hu WM and Man RY, Br J Pharmacol. 1991 Dec;104(4):773-5.
15. Participation of prostaglandin E2 and platelet-activating factor in thapsigargin-induced production of interleukin-6. Ichinowatari G, etal., Eur J Pharmacol. 2002 Jan 11;434(3):187-96.
16. Yangambin, a lignan obtained from Ocotea duckei, differentiates putative PAF receptor subtypes in the gastrointestinal tract of rats. Jesus-Morais CM, etal., Planta Med. 2000 Apr;66(3):211-6.
17. Mechanism and dose-effect of Ginkgolide B on severe acute pancreatitis of rats. Ji RL, etal., World J Gastroenterol. 2011 May 7;17(17):2241-7. doi: 10.3748/wjg.v17.i17.2241.
18. Beneficial actions of BN 50739, a new PAF receptor antagonist, in murine traumatic shock. Karasawa A, etal., Methods Find Exp Clin Pharmacol. 1990 May;12(4):231-7.
19. Antiinflammatory and antiallodynic actions of the lignan niranthin isolated from Phyllanthus amarus. Evidence for interaction with platelet activating factor receptor. Kassuya CA, etal., Eur J Pharmacol. 2006 Sep 28;546(1-3):182-8. Epub 2006 Jul 22.
20. PAF enhances MMP-2 production in rat aortic VSMCs via a beta-arrestin2-dependent ERK signaling pathway. Kim YH, etal., J Lipid Res. 2013 Oct;54(10):2678-86. doi: 10.1194/jlr.M037176. Epub 2013 Aug 2.
21. Platelet-activating factor receptor signals in rat osteoblasts during spaceflight. Kumei Y, etal., Ann N Y Acad Sci. 2004 Dec;1030:116-20.
22. Polyunsaturated fatty acid supplementation alters proinflammatory gene expression and reduces the incidence of necrotizing enterocolitis in a neonatal rat model. Lu J, etal., Pediatr Res. 2007 Apr;61(4):427-32.
23. Similar coronary vascular effects in the rat perfused heart of platelet-activating factor structural analogues with agonist and antagonist properties. Man RY and Kinnaird AA, Br J Pharmacol. 1995 Nov;116(5):2359-64.
24. Mechanisms underlying the nociceptive responses induced by platelet-activating factor (PAF) in the rat paw. Marotta DM, etal., Biochem Pharmacol. 2009 Apr 1;77(7):1223-35.
25. Interference of the PAF receptor antagonist, PCA 4248, with the rat pleurisy evoked by inflammatory mediators or allergen. Martins MA, etal., Eur J Pharmacol. 1993 Jun 11;237(1):17-22.
26. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
27. Role of PAF in acute liver injury after extended hepatectomy: overexpression of PAF receptor mRNA in Kupffer cells. Mizuno S, etal., Dig Dis Sci. 2001 Jun;46(6):1299-304.
28. cAMP mediates homologous downregulation of PAF receptor mRNA expression in mesangial cells. Nakao A, etal., Am J Physiol. 1997 Sep;273(3 Pt 2):F445-50.
29. Effects of PAF on histamine H1 receptor mRNA expression in rat trigeminal ganglia. Nakasaki T, etal., Prostaglandins Other Lipid Mediat. 1999 Aug;58(1):29-41.
30. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
31. Up-regulation of platelet-activating factor synthases and its receptor in spinal cord contribute to development of neuropathic pain following peripheral nerve injury. Okubo M, etal., Mol Pain. 2012 Feb 2;8:8. doi: 10.1186/1744-8069-8-8.
32. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
33. (+/-)-trans-2-(3-Methoxy-5-methylsulfonyl-4-propoxyphenyl)-5-(3,4,5- trimethoxyphenyl)tetrahydrofuran (L-659,989), a novel, potent PAF receptor antagonist. Ponpipom MM, etal., Biochem Biophys Res Commun. 1988 Feb 15;150(3):1213-20.
34. The vascular distribution of the platelet-activating factor receptor. Predescu D, etal., Eur J Cell Biol. 1996 Jan;69(1):86-98.
35. Effect of platelet-activating factor (PAF) receptor blockers on smooth muscle cell replication in vitro and allograft arteriosclerosis in vivo. Raisanen A, etal., Transpl Int. 1993;6(5):251-7.
36. GOA pipeline RGD automated data pipeline
37. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
38. Pneumococcal trafficking across the blood-brain barrier. Molecular analysis of a novel bidirectional pathway. Ring A, etal., J Clin Invest. 1998 Jul 15;102(2):347-60.
39. Influence of the platelet-activating factor receptor antagonist BN52021 on endotoxin-induced leukocyte adherence in rat mesenteric venules. Schmidt H, etal., J Surg Res. 1996 Jan;60(1):29-35.
40. Effects of the PAF receptor antagonist UK74505 on local and remote reperfusion injuries following ischaemia of the superior mesenteric artery in the rat. Souza DG, etal., Br J Pharmacol. 2000 Dec;131(8):1800-8.
41. Role of PAF receptors during intestinal ischemia and reperfusion injury. A comparative study between PAF receptor-deficient mice and PAF receptor antagonist treatment. Souza DG, etal., Br J Pharmacol. 2003 Jun;139(4):733-40.
42. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
43. Effect of the platelet-activating factor antagonist BN 50739 and its diluents on mitochondrial respiration and membrane lipids during and following cerebral ischemia. Sun D and Gilboe DD, J Neurochem. 1994 May;62(5):1929-38.
44. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
45. Role of platelet activating factor in endotoxemic acute renal failure in the male rat. Tolins JP, etal., J Lab Clin Med. 1989 Mar;113(3):316-24.
46. Proteinase-activated receptor-2-activating peptides induce leukocyte rolling, adhesion, and extravasation in vivo. Vergnolle N J Immunol. 1999 Nov 1;163(9):5064-9.
47. Regulation of platelet-activating factor receptor gene expression in vivo by endotoxin, platelet-activating factor and endogenous tumour necrosis factor. Wang H, etal., Biochem J. 1997 Mar 1;322 ( Pt 2):603-8.
48. Platelet-activating factor receptor mRNA is localized in eosinophils and epithelial cells in rat small intestine: regulation by dexamethasone and gut flora. Wang H, etal., Immunology. 1999 Jul;97(3):447-54.
49. Protective effects of a PAF receptor antagonist and a neutrophil elastase inhibitor on multiple organ failure induced by cerulein plus lipopolysaccharide in rats. Yamano M, etal., Naunyn Schmiedebergs Arch Pharmacol. 1998 Aug;358(2):253-63.
50. Platelet-activating factor receptor antagonist attenuates endotoxin-induced vascular hyporeactivity in the pithed rat. Yoshikawa D, etal., Eur J Pharmacol. 1998 Jan 26;342(2-3):241-5.
51. Down-regulation of platelet-activating factor receptor gene expression during focal reversible cerebral ischemia in rats. Zhang X, etal., Neurochem Res. 2007 Mar;32(3):451-6.
52. Prolongation of parturition in the pregnant rat following treatment with a platelet activating factor receptor antagonist. Zhu YP, etal., Biol Reprod. 1991 Jan;44(1):39-42.
53. Direct action of platelet activating factor (PAF) induces eosinophil accumulation and enhances expression of PAF receptors in conjunctivitis. Zinchuk O, etal., Mol Vis. 2005 Feb 9;11:114-23.
Additional References at PubMed
PMID:1281995   PMID:1374385   PMID:1656963   PMID:1657923   PMID:9013981   PMID:14742561   PMID:15489334   PMID:16920964   PMID:17589953   PMID:18186558   PMID:21298035   PMID:21391918  
PMID:32329883   PMID:36682136  


Genomics

Comparative Map Data
Ptafr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85150,049,322 - 150,079,060 (+)NCBIGRCr8
mRatBN7.25144,765,770 - 144,795,057 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5144,765,976 - 144,795,251 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5147,473,683 - 147,495,127 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05149,243,260 - 149,264,707 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05149,231,360 - 149,253,019 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05150,746,284 - 150,775,675 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5150,754,021 - 150,775,672 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05154,414,542 - 154,443,798 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45152,565,687 - 152,587,342 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15152,575,728 - 152,597,381 (-)NCBI
Celera5143,199,712 - 143,221,168 (+)NCBICelera
Cytogenetic Map5q36NCBI
PTAFR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38128,147,166 - 28,193,856 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl128,147,166 - 28,193,936 (-)EnsemblGRCh38hg38GRCh38
GRCh37128,473,677 - 28,520,367 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36128,348,425 - 28,375,778 (-)NCBINCBI36Build 36hg18NCBI36
Build 34128,160,005 - 28,187,333NCBI
Celera126,869,321 - 26,916,090 (-)NCBICelera
Cytogenetic Map1p35.3NCBI
HuRef126,730,992 - 26,777,615 (-)NCBIHuRef
CHM1_1128,589,192 - 28,635,951 (-)NCBICHM1_1
T2T-CHM13v2.0127,988,997 - 28,035,686 (-)NCBIT2T-CHM13v2.0
Ptafr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394132,291,378 - 132,309,994 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4132,291,378 - 132,309,994 (+)EnsemblGRCm39 Ensembl
GRCm384132,564,067 - 132,582,683 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4132,564,067 - 132,582,683 (+)EnsemblGRCm38mm10GRCm38
MGSCv374132,119,982 - 132,136,781 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364131,836,143 - 131,852,942 (+)NCBIMGSCv36mm8
Celera4130,724,940 - 130,741,731 (+)NCBICelera
Cytogenetic Map4D2.3NCBI
cM Map465.56NCBI
Ptafr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554527,311,901 - 7,312,929 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554527,309,854 - 7,345,579 (-)NCBIChiLan1.0ChiLan1.0
PTAFR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21198,678,044 - 198,707,889 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11197,792,619 - 197,829,135 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0127,405,880 - 27,436,184 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1128,447,178 - 28,474,623 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl128,447,833 - 28,448,861 (-)Ensemblpanpan1.1panPan2
PTAFR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1272,225,386 - 72,256,353 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl272,225,386 - 72,256,352 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha268,803,234 - 68,834,141 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0272,785,522 - 72,816,261 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl272,785,522 - 72,816,261 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1269,612,919 - 69,643,905 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0270,622,939 - 70,654,206 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0271,619,611 - 71,650,615 (+)NCBIUU_Cfam_GSD_1.0
Ptafr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505846,509,123 - 46,540,460 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647412,336,071 - 12,337,099 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647412,333,905 - 12,337,140 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTAFR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl685,235,394 - 85,261,760 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1685,235,390 - 85,272,360 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2684,789,514 - 84,851,193 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTAFR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120104,627,591 - 104,658,840 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20104,657,179 - 104,658,207 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603311,819,318 - 11,850,460 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptafr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476411,998,657 - 11,999,685 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476411,996,454 - 12,025,751 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ptafr
178 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:686
Count of miRNA genes:281
Interacting mature miRNAs:369
Transcripts:ENSRNOT00000017687
Prediction methods:Microtar, Miranda, Targetscan
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
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat

Markers in Region
RH128779  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25144,794,789 - 144,795,009 (+)MAPPERmRatBN7.2
Rnor_6.05150,775,411 - 150,775,630NCBIRnor6.0
Rnor_5.05154,443,534 - 154,443,753UniSTSRnor5.0
RGSC_v3.45152,565,732 - 152,565,951UniSTSRGSC3.4
Celera5143,220,904 - 143,221,123UniSTS
RH 3.4 Map5965.51UniSTS
Cytogenetic Map5q36UniSTS
UniSTS:144285  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25144,792,122 - 144,792,657 (+)MAPPERmRatBN7.2
Rnor_6.05150,772,744 - 150,773,278NCBIRnor6.0
Rnor_5.05154,440,867 - 154,441,401UniSTSRnor5.0
RGSC_v3.45152,568,084 - 152,568,618UniSTSRGSC3.4
Celera5143,218,237 - 143,218,771UniSTS
Cytogenetic Map5q36UniSTS
UniSTS:484979  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25144,791,818 - 144,793,228 (+)MAPPERmRatBN7.2
Rnor_6.05150,772,440 - 150,773,849NCBIRnor6.0
Rnor_5.05154,440,563 - 154,441,972UniSTSRnor5.0
RGSC_v3.45152,567,513 - 152,568,922UniSTSRGSC3.4
Celera5143,217,933 - 143,219,342UniSTS
Cytogenetic Map5q36UniSTS


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 11 5 1
Low 1 43 57 41 8 41 8 11 70 35 30 10 8
Below cutoff 4 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017687   ⟹   ENSRNOP00000017687
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5144,765,983 - 144,795,251 (+)Ensembl
Rnor_6.0 Ensembl5150,754,021 - 150,775,672 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097551   ⟹   ENSRNOP00000079229
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5144,773,279 - 144,795,245 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119353   ⟹   ENSRNOP00000085904
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5144,765,976 - 144,795,251 (+)Ensembl
RefSeq Acc Id: NM_053321   ⟹   NP_445773
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85150,057,404 - 150,079,060 (+)NCBI
mRatBN7.25144,773,398 - 144,795,054 (+)NCBI
Rnor_6.05150,754,021 - 150,775,675 (+)NCBI
Rnor_5.05154,414,542 - 154,443,798 (+)NCBI
RGSC_v3.45152,565,687 - 152,587,342 (-)RGD
Celera5143,199,712 - 143,221,168 (+)RGD
Sequence:
RefSeq Acc Id: XM_006239063   ⟹   XP_006239125
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85150,049,768 - 150,079,060 (+)NCBI
mRatBN7.25144,765,770 - 144,795,057 (+)NCBI
Rnor_6.05150,746,284 - 150,775,675 (+)NCBI
Rnor_5.05154,414,542 - 154,443,798 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006239064   ⟹   XP_006239126
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85150,069,239 - 150,079,060 (+)NCBI
mRatBN7.25144,785,215 - 144,795,057 (+)NCBI
Rnor_6.05150,765,465 - 150,775,675 (+)NCBI
Rnor_5.05154,414,542 - 154,443,798 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063288332   ⟹   XP_063144402
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85150,049,322 - 150,079,060 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_445773   ⟸   NM_053321
- UniProtKB: P46002 (UniProtKB/Swiss-Prot),   A6ISU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239125   ⟸   XM_006239063
- Peptide Label: isoform X1
- UniProtKB: P46002 (UniProtKB/Swiss-Prot),   A6ISU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239126   ⟸   XM_006239064
- Peptide Label: isoform X1
- UniProtKB: P46002 (UniProtKB/Swiss-Prot),   A6ISU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000017687   ⟸   ENSRNOT00000017687
RefSeq Acc Id: ENSRNOP00000085904   ⟸   ENSRNOT00000119353
RefSeq Acc Id: ENSRNOP00000079229   ⟸   ENSRNOT00000097551
RefSeq Acc Id: XP_063144402   ⟸   XM_063288332
- Peptide Label: isoform X1
- UniProtKB: P46002 (UniProtKB/Swiss-Prot),   A6ISU3 (UniProtKB/TrEMBL)
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P46002-F1-model_v2 AlphaFold P46002 1-341 view protein structure

Transcriptome

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

Promoters
RGD ID:13694099
Promoter ID:EPDNEW_R4624
Type:multiple initiation site
Name:Ptafr_1
Description:platelet-activating factor receptor
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_6.05150,753,983 - 150,754,043EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61897 AgrOrtholog
BioCyc Gene G2FUF-39679 BioCyc
Ensembl Genes ENSRNOG00000013231 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055028383 UniProtKB/Swiss-Prot
  ENSRNOG00060024948 UniProtKB/Swiss-Prot
  ENSRNOG00065028328 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000017687.5 UniProtKB/Swiss-Prot
  ENSRNOT00000097551 ENTREZGENE
  ENSRNOT00000097551.1 UniProtKB/Swiss-Prot
  ENSRNOT00000119353.1 UniProtKB/Swiss-Prot
  ENSRNOT00055049133 UniProtKB/Swiss-Prot
  ENSRNOT00055049154 UniProtKB/Swiss-Prot
  ENSRNOT00055049164 UniProtKB/Swiss-Prot
  ENSRNOT00060043126 UniProtKB/Swiss-Prot
  ENSRNOT00060043139 UniProtKB/Swiss-Prot
  ENSRNOT00060043158 UniProtKB/Swiss-Prot
  ENSRNOT00065048799 UniProtKB/Swiss-Prot
  ENSRNOT00065048806 UniProtKB/Swiss-Prot
  ENSRNOT00065048813 UniProtKB/Swiss-Prot
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7097307 IMAGE-MGC_LOAD
InterPro GPCR_Rhodpsn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAF_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:58949 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:91594 IMAGE-MGC_LOAD
NCBI Gene 58949 ENTREZGENE
PANTHER P2Y PURINOCEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLATELET-ACTIVATING FACTOR RECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ptafr PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAFRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013231 RatGTEx
  ENSRNOG00055028383 RatGTEx
  ENSRNOG00060024948 RatGTEx
  ENSRNOG00065028328 RatGTEx
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC215610
UniProt A6ISU3 ENTREZGENE, UniProtKB/TrEMBL
  P46002 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Ptafr  platelet-activating factor receptor       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference