Ptafr (platelet-activating factor receptor)

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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 gene expression; positive regulation of transport; and regulation of cellular extravasation. 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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	144,765,770 - 144,795,057 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	5	144,765,976 - 144,795,251 (+)	Ensembl
Rnor_6.0	5	150,746,284 - 150,775,675 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	150,754,021 - 150,775,672 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	154,414,542 - 154,443,798 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	152,565,687 - 152,587,342 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	152,575,728 - 152,597,381 (-)	NCBI
Celera	5	143,199,712 - 143,221,168 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Acute Experimental Pancreatitis (IDA)

acute kidney failure (IMP)

Acute Liver Failure (IEP)

conjunctivitis (IEP)

Endotoxemia (IMP)

Experimental Liver Cirrhosis (ISO)

glomerulonephritis (IMP)

Hyperalgesia (IMP)

Hypotension (IMP)

Multiple Organ Failure (IMP)

neutropenia (IMP)

Neutrophilia (IMP)

Otitis Media with Effusion (ISO)

Oxygen-Induced Retinopathy (IMP)

perinatal necrotizing enterocolitis (IDA)

pleurisy (IMP)

polycystic ovary syndrome (ISO)

Reperfusion Injury (IMP,ISO)

sciatic neuropathy (IEP)

transient cerebral ischemia (IEP,IMP)

Traumatic Shock (IMP)

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)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

amphetamine (EXP)

antirheumatic drug (ISO)

Apafant (ISO)

arachidonic acid (EXP)

aristolochic acid (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)

chlorpyrifos (EXP,ISO)

choline (ISO)

cisplatin (ISO)

Cuprizon (EXP)

dexamethasone (EXP)

dextran sulfate (ISO)

dichlorine (EXP)

elemental selenium (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

fenvalerate (EXP)

flavonoids (EXP)

folic acid (ISO)

formaldehyde (ISO)

gentamycin (EXP)

indometacin (EXP)

L-arginine (EXP)

L-methionine (ISO)

lipopolysaccharide (EXP)

lipoxin A4 (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)

phorbol 13-acetate 12-myristate (EXP)

potassium chromate (ISO)

selenium atom (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,ISO)

inflammatory response (ISO)

inositol trisphosphate biosynthetic process (ISO)

lipopolysaccharide-mediated signaling pathway (IEA,ISO)

negative regulation of blood pressure (IMP)

parturition (IMP)

phosphatidylinositol-mediated signaling (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 sensory perception of pain (IMP)

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

integral component of membrane (IEA)

membrane (IDA)

plasma membrane (IDA)

Molecular Function

G protein-coupled purinergic nucleotide receptor activity (IBA)

lipopolysaccharide binding (ISO)

lipopolysaccharide immune receptor activity (ISO)

mitogen-activated protein kinase binding (IDA)

phospholipid binding (ISO)

platelet activating factor receptor activity (IDA,ISO)

protein binding (IPI,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

calcium/calcium-mediated signaling pathway (IEA)

Staphylococcus aureus infection pathway (IEA)

References

References - curated


1.	Beauchamp MH, etal., Invest Ophthalmol Vis Sci. 2002 Oct;43(10):3327-37.
2.	Bito H, etal., Eur J Biochem 1994 Apr 1;221(1):211-8.
3.	Borges CM, etal., J Leukoc Biol. 2000 Apr;67(4):515-9.
4.	Carlson SA, etal., J Biol Chem. 1996 Sep 20;271(38):23146-53.
5.	Carlson SA, etal., Mol Pharmacol. 1998 Mar;53(3):451-8.
6.	Chao W, etal., J Biol Chem. 1990 Oct 15;265(29):17576-83.
7.	Doebber TW, etal., J Immunol. 1986 Jun 15;136(12):4659-68.
8.	Dubois C, etal., J Immunol. 1989 Aug 1;143(3):964-70.
9.	Fletcher JR, etal., Ann Surg. 1990 Mar;211(3):312-6.
10.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11.	GOA data from the GO Consortium
12.	Handley DA, etal., Immunopharmacology. 1986 Aug;12(1):11-6.
13.	Hruby ZW, etal., Arch Immunol Ther Exp (Warsz). 1991;39(5-6):575-86.
14.	Hu WM and Man RY, Br J Pharmacol. 1991 Dec;104(4):773-5.
15.	Ichinowatari G, etal., Eur J Pharmacol. 2002 Jan 11;434(3):187-96.
16.	Jesus-Morais CM, etal., Planta Med. 2000 Apr;66(3):211-6.
17.	Ji RL, etal., World J Gastroenterol. 2011 May 7;17(17):2241-7. doi: 10.3748/wjg.v17.i17.2241.
18.	Karasawa A, etal., Methods Find Exp Clin Pharmacol. 1990 May;12(4):231-7.
19.	Kassuya CA, etal., Eur J Pharmacol. 2006 Sep 28;546(1-3):182-8. Epub 2006 Jul 22.
20.	Kim YH, etal., J Lipid Res. 2013 Oct;54(10):2678-86. doi: 10.1194/jlr.M037176. Epub 2013 Aug 2.
21.	Kumei Y, etal., Ann N Y Acad Sci. 2004 Dec;1030:116-20.
22.	Lu J, etal., Pediatr Res. 2007 Apr;61(4):427-32.
23.	Man RY and Kinnaird AA, Br J Pharmacol. 1995 Nov;116(5):2359-64.
24.	Marotta DM, etal., Biochem Pharmacol. 2009 Apr 1;77(7):1223-35.
25.	Martins MA, etal., Eur J Pharmacol. 1993 Jun 11;237(1):17-22.
26.	MGD data from the GO Consortium
27.	Mizuno S, etal., Dig Dis Sci. 2001 Jun;46(6):1299-304.
28.	Nakao A, etal., Am J Physiol. 1997 Sep;273(3 Pt 2):F445-50.
29.	Nakasaki T, etal., Prostaglandins Other Lipid Mediat. 1999 Aug;58(1):29-41.
30.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
31.	Okubo M, etal., Mol Pain. 2012 Feb 2;8:8. doi: 10.1186/1744-8069-8-8.
32.	Pipeline to import KEGG annotations from KEGG into RGD
33.	Ponpipom MM, etal., Biochem Biophys Res Commun. 1988 Feb 15;150(3):1213-20.
34.	Predescu D, etal., Eur J Cell Biol. 1996 Jan;69(1):86-98.
35.	Raisanen A, etal., Transpl Int. 1993;6(5):251-7.
36.	RGD automated data pipeline
37.	RGD automated import pipeline for gene-chemical interactions
38.	Ring A, etal., J Clin Invest. 1998 Jul 15;102(2):347-60.
39.	Schmidt H, etal., J Surg Res. 1996 Jan;60(1):29-35.
40.	Souza DG, etal., Br J Pharmacol. 2000 Dec;131(8):1800-8.
41.	Souza DG, etal., Br J Pharmacol. 2003 Jun;139(4):733-40.
42.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
43.	Sun D and Gilboe DD, J Neurochem. 1994 May;62(5):1929-38.
44.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
45.	Tolins JP, etal., J Lab Clin Med. 1989 Mar;113(3):316-24.
46.	Vergnolle N J Immunol. 1999 Nov 1;163(9):5064-9.
47.	Wang H, etal., Biochem J. 1997 Mar 1;322 ( Pt 2):603-8.
48.	Wang H, etal., Immunology. 1999 Jul;97(3):447-54.
49.	Yamano M, etal., Naunyn Schmiedebergs Arch Pharmacol. 1998 Aug;358(2):253-63.
50.	Yoshikawa D, etal., Eur J Pharmacol. 1998 Jan 26;342(2-3):241-5.
51.	Zhang X, etal., Neurochem Res. 2007 Mar;32(3):451-6.
52.	Zhu YP, etal., Biol Reprod. 1991 Jan;44(1):39-42.
53.	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

Genomics

Comparative Map Data

Ptafr
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	144,765,770 - 144,795,057 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	5	144,765,976 - 144,795,251 (+)	Ensembl
Rnor_6.0	5	150,746,284 - 150,775,675 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	150,754,021 - 150,775,672 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	154,414,542 - 154,443,798 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	152,565,687 - 152,587,342 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	152,575,728 - 152,597,381 (-)	NCBI
Celera	5	143,199,712 - 143,221,168 (+)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

PTAFR
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	28,147,166 - 28,193,856 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	1	28,147,166 - 28,193,936 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	28,473,677 - 28,520,367 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	28,348,425 - 28,375,778 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	28,160,005 - 28,187,333	NCBI
Celera	1	26,869,321 - 26,916,090 (-)	NCBI
Cytogenetic Map	1	p35.3	NCBI
HuRef	1	26,730,992 - 26,777,615 (-)	NCBI		HuRef
CHM1_1	1	28,589,192 - 28,635,951 (-)	NCBI		CHM1_1

Ptafr
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	132,291,378 - 132,309,994 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	4	132,291,378 - 132,309,994 (+)	Ensembl
GRCm38	4	132,564,067 - 132,582,683 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	132,564,067 - 132,582,683 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	132,119,982 - 132,136,781 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	4	131,836,143 - 131,852,942 (+)	NCBI			mm8
Celera	4	130,724,940 - 130,741,731 (+)	NCBI		Celera
Cytogenetic Map	4	D2.3	NCBI
cM Map	4	65.56	NCBI

Ptafr
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955452	7,311,901 - 7,312,929 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955452	7,309,854 - 7,345,579 (-)	NCBI	ChiLan1.0	ChiLan1.0

PTAFR
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	1	28,447,178 - 28,474,623 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	28,447,833 - 28,448,861 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	27,405,880 - 27,436,184 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

PTAFR
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	72,225,386 - 72,256,353 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	72,225,386 - 72,256,352 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	68,803,234 - 68,834,141 (+)	NCBI
ROS_Cfam_1.0	2	72,785,522 - 72,816,261 (+)	NCBI
ROS_Cfam_1.0 Ensembl	2	72,785,522 - 72,816,261 (+)	Ensembl
UMICH_Zoey_3.1	2	69,612,919 - 69,643,905 (+)	NCBI
UNSW_CanFamBas_1.0	2	70,622,939 - 70,654,206 (+)	NCBI
UU_Cfam_GSD_1.0	2	71,619,611 - 71,650,615 (+)	NCBI

Ptafr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405058	46,509,123 - 46,540,460 (-)	NCBI
SpeTri2.0	NW_004936474	12,333,905 - 12,337,140 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PTAFR
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	85,235,390 - 85,272,333 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	85,235,390 - 85,272,360 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	84,789,514 - 84,851,193 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PTAFR
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	104,627,591 - 104,658,840 (+)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	20	104,657,179 - 104,658,207 (+)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666033	11,819,318 - 11,850,460 (-)	NCBI	Vero_WHO_p1.0

Ptafr
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624764	11,996,454 - 12,025,751 (-)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH128779

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	144,794,789 - 144,795,009 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	150,775,411 - 150,775,630	NCBI	Rnor6.0
Rnor_5.0	5	154,443,534 - 154,443,753	UniSTS	Rnor5.0
RGSC_v3.4	5	152,565,732 - 152,565,951	UniSTS	RGSC3.4
Celera	5	143,220,904 - 143,221,123	UniSTS
RH 3.4 Map	5	965.51	UniSTS
Cytogenetic Map	5	q36	UniSTS

UniSTS:144285

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	144,792,122 - 144,792,657 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	150,772,744 - 150,773,278	NCBI	Rnor6.0
Rnor_5.0	5	154,440,867 - 154,441,401	UniSTS	Rnor5.0
RGSC_v3.4	5	152,568,084 - 152,568,618	UniSTS	RGSC3.4
Celera	5	143,218,237 - 143,218,771	UniSTS
Cytogenetic Map	5	q36	UniSTS

UniSTS:484979

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	144,791,818 - 144,793,228 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	150,772,440 - 150,773,849	NCBI	Rnor6.0
Rnor_5.0	5	154,440,563 - 154,441,972	UniSTS	Rnor5.0
RGSC_v3.4	5	152,567,513 - 152,568,922	UniSTS	RGSC3.4
Celera	5	143,217,933 - 143,219,342	UniSTS
Cytogenetic Map	5	q36	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40128307	148607290	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	46711509	161317411	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	60293434	161481680	Rat
1354598	Srn6	Serum renin concentration QTL 6	3.8		blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	5	69540295	151018848	Rat
1302790	Scl20	Serum cholesterol level QTL 20	6.4	0.0001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	82394392	166664054	Rat
1331796	Thshl2	Thyroid stimulating hormone level QTL 2	2.3		blood thyroid-stimulating hormone amount (VT:0005119)	serum thyroid stimulating hormone level (CMO:0001248)	5	97059760	147465714	Rat
1358187	Emca1	Estrogen-induced mammary cancer QTL 1	4.4		mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	5	99216724	148607142	Rat
1578673	Bmd13	Bone mineral density QTL 13	4.9		femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	5	103689353	148689353	Rat
2317056	Wbc3	White blood cell count QTL 3	2.51	0.01	leukocyte quantity (VT:0000217)	white blood cell count (CMO:0000027)	5	105999803	150999803	Rat
7207488	Bss110	Bone structure and strength QTL 1	8.4		femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	5	106906205	151906205	Rat
7207491	Bss112	Bone structure and strength QTL 112	7		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	5	106906205	151906205	Rat
7207481	Bss106	Bone structure and strength QTL 106	7.9		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	106906205	151906205	Rat
7207486	Bss109	Bone structure and strength QTL 109			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	5	106906205	151906205	Rat
1549838	Bss4	Bone structure and strength QTL 4	9.2		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	5	106906205	151906205	Rat
1298089	Scl14	Serum cholesterol level QTL 14	5.8	0.0004	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	108845856	153845856	Rat
1598847	Cm62	Cardiac mass QTL 62	3.4		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	108845856	153845856	Rat
8657050	Bw146	Body weight QTL 146	19.84	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	108938288	153938288	Rat
8694441	Bw169	Body weight QTL 169	17.61	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	5	111416838	156416838	Rat
8694198	Abfw3	Abdominal fat weight QTL 3	16.13	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	5	111416838	156416838	Rat
8694389	Bw160	Body weight QTL 160	6.17	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	5	111416838	156416838	Rat
8552960	Pigfal15	Plasma insulin-like growth factor 1 level QTL 15			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	111416838	156416838	Rat
2293642	Bss37	Bone structure and strength QTL 37	4.64	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	5	120740824	151018848	Rat
1641920	Colcs1	Colorectal carcinoma susceptibility QTL 1	2.99	0.0055	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	5	121846814	166846814	Rat
10053720	Scort26	Serum corticosterone level QTL 26	2.06	0.0147	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	124965598	166875058	Rat
724525	Bp147	Blood pressure QTL 147	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	126424772	166875058	Rat
1598819	Bp292	Blood pressure QTL 292	4.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	127798274	166875058	Rat
1598861	Cm64	Cardiac mass QTL 64	2.9		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	5	127798274	166875058	Rat
8552908	Pigfal4	Plasma insulin-like growth factor 1 level QTL 4	6.6		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	128506074	166875058	Rat
8694169	Bw148	Body weight QTL 148	5	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	128506074	166875058	Rat
634349	Bp139	Blood pressure QTL 139		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	128924607	166875058	Rat
70156	Niddm30	Non-insulin dependent diabetes mellitus QTL 30	3.98		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	5	129132447	151006154	Rat
738018	Anxrr4	Anxiety related response QTL 4	5.1		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	5	130130159	166875058	Rat
7794791	Mcs33	Mammary carcinoma susceptibility QTL 33	1.93		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	5	131345754	166875058	Rat
631505	Bp103	Blood pressure QTL 103	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	132717196	165560427	Rat
631562	Apr2	Acute phase response QTL 2	3.7		blood murinoglobulin 1 amount (VT:0010597)	plasma murinoglobulin 1 level (CMO:0001931)	5	135927956	166875058	Rat
61444	Strs2	Sensitivity to stroke QTL 2	4.7		cerebrum integrity trait (VT:0010549)	post-insult time to onset of cerebrovascular lesion (CMO:0002343)	5	135929696	166875058	Rat
1331721	Bp210	Blood pressure QTL 210	3.413		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	143069996	166846814	Rat
2302369	Scl60	Serum cholesterol level QTL 60	3.13		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	143608201	161165651	Rat
631263	Cm24	Cardiac mass QTL 24	3.5		heart mass (VT:0007028)	heart left ventricle weight to body weight ratio (CMO:0000530)	5	143799107	158428037	Rat
1300119	Bp180	Blood pressure QTL 180	3.82		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	5	144358090	157869054	Rat
2313096	Bmd78	Bone mineral density QTL 78	3.1	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	5	144377876	161317411	Rat

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.

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

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053321	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006239063	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006239064	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC123895	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC072491	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ233765	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000162	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U04740	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000017687 ⟹ ENSRNOP00000017687

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	144,765,983 - 144,795,251 (+)	Ensembl
Rnor_6.0 Ensembl	5	150,754,021 - 150,775,672 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000097551 ⟹ ENSRNOP00000079229

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	144,773,279 - 144,795,245 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000119353 ⟹ ENSRNOP00000085904

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	144,765,976 - 144,795,251 (+)	Ensembl

RefSeq Acc Id:

NM_053321 ⟹ NP_445773

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	144,773,398 - 144,795,054 (+)	NCBI
Rnor_6.0	5	150,754,021 - 150,775,675 (+)	NCBI
Rnor_5.0	5	154,414,542 - 154,443,798 (+)	NCBI
RGSC_v3.4	5	152,565,687 - 152,587,342 (-)	RGD
Celera	5	143,199,712 - 143,221,168 (+)	RGD

Sequence:

show sequence

CTGAGGCTTGGACCCGGAGGGACACGCAGAGCCTACGGCTGAGCTCCTATAGGGACATACAACG
TTCCATGACCAGGTGACCCTTCCTGCCCAGAGCAATGGAGCAAAATGGCTCCTTCCGTGTGGAT
TCTGAGTTTCGATACACCCTCTTTCCGATCGTTTACAGCGTCATCTTTGTACTGGGCGTGGTTG
CCAATGGCTATGTGCTGTGGGTCTTTGCCACCTTGTACCCGTCCAAGAAACTGAATGAGATAAA
GATCTTCATGGTGAATCTCACCGTGGCGGACCTGCTCTTCTTGATGACCCTCCCGCTGTGGATT
GTCTATTACTCCAACGAGGGCGACTGGATTGTACACAAATTCCTGTGCAACCTGGCTGGCTGCC
TCTTCTTCATCAATACCTACTGCAGTGTGGCCTTCCTTGGCGTCATCACTTATAACCGCTACCA
GGCAGTAGCCTATCCCATCAAGACCGCCCAGGCCACCACCCGCAAGCGTGGCATCACTTTGTCC
CTGGTCATTTGGATATCCATCGCGGCTACTGCATCCTACTTCCTGGCCACAGACTCTACCAACG
TGGTGCCCAAAAAGGATGGCTCAGGTAACATCACCCGCTGCTTTGAGCATTATGAGCCATACAG
TGTGCCCATCCTTGTCGTCCACATCTTCATCACCTCCTGTTTCTTCCTCGTCTTCTTCCTCATC
TTCTACTGCAACATGGTCATCATCCACACGCTGCTCACGCGGCCTGTGCGGCAGCAGCGCAAAC
CGGAAGTGAAGCGCCGGGCGCTGTGGATGGTCTGCACTGTCTTGGCGGTATTTGTCATCTGCTT
TGTGCCCCATCACGTGGTCCAGCTACCCTGGACCCTAGCAGAGTTGGGCTACCAGACCAACTTC
CATCAGGCTATTAATGATGCCCACCAAATCACCCTCTGCCTCCTGAGCACCAACTGCGTCTTAG
ATCCTGTTATCTACTGCTTTCTCACCAAGAAGTTCCGGAAGCACCTCAGCGAAAAGTTTTACAG
CATGCGAAGTAGCCGGAAGTGCTCCCGAGCCACTAGCGACACGTGCACCGAGGTGATGATGCCA
GCCAACCAGACTCCTGTCCTGCCATTGAAAAATTAATCAATGCTTATTAAAGCCAGGTCTAGAG
CCTTCTCTTTTATGGCCCCCACCGATGGCGCAGAAAGCTAAGAGGTTCCTGCCTGTGGCCAACC
CCCAACTTGGACCCTGGTGGACTCTTAAGTGAGGCAGTTACTTCCTCACAGAGAGCCATTTGCT
GGAAAATACAGAACTCCAATGCTCCTTTTCATCCATCCTTGAGTCAACACTAGAGGGTTGTGGC
TGATGGACTCATCCAGGGCTTCAGATTGTGACAACCCTGCTAGCACCAGACCTTGGGGAGAGAC
GCTGAGCAGCCCAGTTCATTCAACTGGGACAGCAATTTAAGGATTGGGCAGTGACTTCCGGGTG
CTACAGGAAGAGGGGAGAGGGGTTGTGGGGACTCTTCACTGATTGTGATCTTTGGCAAAACAAT
TGGGTTTAGGATGGTGCCTTCCTTTATCCATCTACAGATACAAGGTCTTTGTGGCTCTTCCTAG
AGGAAGTGGTTTGGTGGTTATCGCCTGACTCACCCAGCACCTTGCCTCAGACATAACCAGAGGA
GATAACACAGACGCTGACCAGAAGCTAGGATGGGTGCATGTTTGCTGAGGCAGCTGAGTTTTGC
CCGGGCCTGAGTGAGTGCTGAGGGAATGGAAGAGAGGTGGCTACCTCAGAACACTGCACTTTCC
ACTTCCGGCAGGCAGCTTCTTTTGAGGTCCTCTGGCCACCTGGTGGTGATTTTTTGACAAGTGT
CTTAGTCTCATTTCACTCACCGTGCCCAGAAAACAACTCGAGGAGGGAGAGATTTATTTTGGCT
CACAGTTTGGAGGACCTCAGTCCCTCACGGCAAGGAAGGCATGGTGGGGCTCAGACTCTGGTGG
TGGGAATAGGAGACGGAGGTTGTCCACGTGGCAGTGAGCCAGGAACCAAGACTGCACCTTAACC
CAGGGTTGGGATATAACCCACGCCCCCGCGCCCCCAGCCACCTACTTCTACAGCCAGGTCCTAC
CTCCTCCTAAAGGTTCCACAGTCTCCCGACCTAGAGAGCACGGCCCTGGGCCAGTGAGATGGTC
GTGGAGGGTAGAGAGCACTTGCAGCTAACACTGCTGATCAGAGTTTGATCCCAGAAGCCACATG
GTACAAAGAGAGAACAGATTTCTGCAAGTTGTCCTTTGACCTTTGCTTTCATGCTGCGGCACAC
ACATGTCCCGCCTCCCCCATATACATATAAATAAATGTACAAAATTAATAGGATAAAGCAAAAC
GAATATGACCCCATAGGAGTATACATGAAACGGCAGGTGTATTCAAAACATACCTGCTATTTCA
TTTAAGTGAGATCCCCCCCGGCCCTCTGAGAAGTATCCAGAAGCCTCAGACTCAGAACTCTGAG
GACCTTTTCCTGTTTTCCTGAGCCTTGTGCTTTCGAGTGTCTCCTTGAAGCTGGGTCAATTGCT
TCCTGTCTGCTAGACAAGCATAGGCTTGTTCCAACGGACAAGCTTGAGTTTGGAATGATGACGG
CAGTCTGGATCTAGCTGAAGGGGACAAAGTGGCTAAAACAACTTGAACTTCGTAGACATCTTAC
AAACCCGGGTTCAAGTCTTGCCTGTGCTGAATGTTGCTTAGGACGTGGGAATATAATTTTCTAC
CTCTTGGTGTTGTTAGCTGGGAGGTTCAACCTACCTCACGGGACTTCTGGGCAGTGCGTGTTCA
GCTGACTCTGGGCTATTTATCCCTATCCTCCCCTTTGCTGGGAATTTGGTGCCCTCGATCCTTG
GTTTAGAACTGAAGGGGTGAGGGTTAGATGTCTGGATGCGGGGTGCACCTTTTGGGGAGCTGTG
ACCATGTTTACATGTGAAGTGGGTTGGGTGGCCACCTAGGTGACTGGTAGATAGAAGTGGCTTT
TCAAAGAAATCAGGTTAGACCAGACAGAAGCTAGAACGTGGCGAGAACACTCAGCTTCAGAGGG
GCCAGCAGGCACGTCCCCGGTGCTTTCTCTTGCGTCCCGGGAGGTTCTTGTCAGGATTCCTTCT
CTCTCCTTCCCTAAGCTCATTGAAATGGTTGTCTAGTGCTTTCAATCAAATAACATCCTCTGCC
TCTGTGTTAATATGATATAGTCTGAATTTCATCGTCTGCAAATCTCCCTTGCCACTGGTTTGCA
ATATCCATTTACCACAGTAGGTTTGCTTAATAAACATTTTTCTCTTCAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006239063 ⟹ XP_006239125

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	144,765,770 - 144,795,057 (+)	NCBI
Rnor_6.0	5	150,746,284 - 150,775,675 (+)	NCBI
Rnor_5.0	5	154,414,542 - 154,443,798 (+)	NCBI

Sequence:

show sequence

CTCGGCTTTAGATGGGCCGGGTGTTGGCTGAATTGTGTAGATCCTGGTTGGGTGGGACTATTTT
GGGGAAGCTTGGGGTTGGGACTCTGCCCAGGGAGTTAGCTTCCTGGCCTCAGGTGCCCTACTGT
TCAACAGAGGCGGCAGGCAAGCTTCTCCTAGTTATTCATTCTACCGTCAGCTTTGAGTAAAAAG
GGATGGGAGGGCGAAATGAAGTGAATCACACACTTGGGTCTGGGCCTGACCCTGCCTACTCCTC
CCTCATTCTATATCCGGCTTCCTGTGCTCTGAGAAATCAAGGAAACATGCTCTCAAAGAAGCAA
GCTCTCAGCGGCTTCCGTCCCCTGCAGCTCCACCATCTCTTGAACAAGCATCTTCACCACTGCT
CAGGGACATACAACGTTCCATGACCAGGTGACCCTTCCTGCCCAGAGCAATGGAGCAAAATGGC
TCCTTCCGTGTGGATTCTGAGTTTCGATACACCCTCTTTCCGATCGTTTACAGCGTCATCTTTG
TACTGGGCGTGGTTGCCAATGGCTATGTGCTGTGGGTCTTTGCCACCTTGTACCCGTCCAAGAA
ACTGAATGAGATAAAGATCTTCATGGTGAATCTCACCGTGGCGGACCTGCTCTTCTTGATGACC
CTCCCGCTGTGGATTGTCTATTACTCCAACGAGGGCGACTGGATTGTACACAAATTCCTGTGCA
ACCTGGCTGGCTGCCTCTTCTTCATCAATACCTACTGCAGTGTGGCCTTCCTTGGCGTCATCAC
TTATAACCGCTACCAGGCAGTAGCCTATCCCATCAAGACCGCCCAGGCCACCACCCGCAAGCGT
GGCATCACTTTGTCCCTGGTCATTTGGATATCCATCGCGGCTACTGCATCCTACTTCCTGGCCA
CAGACTCTACCAACGTGGTGCCCAAAAAGGATGGCTCAGGTAACATCACCCGCTGCTTTGAGCA
TTATGAGCCATACAGTGTGCCCATCCTTGTCGTCCACATCTTCATCACCTCCTGTTTCTTCCTC
GTCTTCTTCCTCATCTTCTACTGCAACATGGTCATCATCCACACGCTGCTCACGCGGCCTGTGC
GGCAGCAGCGCAAACCGGAAGTGAAGCGCCGGGCGCTGTGGATGGTCTGCACTGTCTTGGCGGT
ATTTGTCATCTGCTTTGTGCCCCATCACGTGGTCCAGCTACCCTGGACCCTAGCAGAGTTGGGC
TACCAGACCAACTTCCATCAGGCTATTAATGATGCCCACCAAATCACCCTCTGCCTCCTGAGCA
CCAACTGCGTCTTAGATCCTGTTATCTACTGCTTTCTCACCAAGAAGTTCCGGAAGCACCTCAG
CGAAAAGTTTTACAGCATGCGAAGTAGCCGGAAGTGCTCCCGAGCCACTAGCGACACGTGCACC
GAGGTGATGATGCCAGCCAACCAGACTCCTGTCCTGCCATTGAAAAATTAATCAATGCTTATTA
AAGCCAGGTCCAGAGCCTTCTCTTTTATGGCCCCCACCGATGGCGCAGAAAGCTAAGAGGTTCC
TGCCTGTGGCCAACCCCCAACTTGGACCCTGGTGGACTCTTAAGTGAGGCAGTTACTTCCTCAC
AGAGAGCCATTTGCTGGAAAATACAGAACTCCAATGCTCCTTTTCATCCATCTTTGAGTCAACA
CTAGAGGGTTGTGGCTGATGGACTCATCCAGGGCTTCAGATTGTGACAACCCTGCTAGCACCAG
ACCTTGGGGAGAGACGCTGAGCAGCCCAGTTCATTCAACTGGGACAGCAATTTAAGGATTGGGC
AGTGACTTCCGGGTGCTACAGGAAGAGGGGAGAGGGGTTGTGGGGACTCTTCACTGATTGTGAT
CTTTGGCAAAACAATTGGGTTTAGGATGGTGCCTTCCTTTATCCATCTACAGATACAAGGTCTT
TGTGGCTCTTCCTAGAGGAAGTGGTTTGGTGGTTATCGCCTGACTCACCCAGCACCTTGCCTCA
GACATAACCAGAGGAGATAACACAGACGCTGACCAGAAGCTAGGATGGGTGCATGTTTGCTGAG
GCAGCTGAGTTTTGCCCGGGCCTGAGTGAGTGCTGAGGGAATGGAAGAGAGGTGGCTACCTCAG
AACACTGCACTTTCCACTTCCGGCAGGCAGCTTCTTTTGAGGTCCTCTGGCCACCTGGTGGTGA
TTTTTTGACAAGTGTCTTAGTCTCATTTCACTCACCGTGCCCAGAAAACAACTCGAGGAGGGAG
AGATTTATTTTGGCTCACAGTTTGGAGGACCTCAGTCCCTCACGGCAAGGAAGGCATGGTGGGG
CTCAGACTCTGGTGGTGGGAATAGGAGACGGAGGTTGTCCACGTGGCAGTGAGCCAGGAACCAA
GACTGCACCTTAACCCAGGGTTGGGATATAACCCACGCCCCCGCGCCCCCAGCCACCTACTTCT
ACAGCCAGGTCCTACCTCCTCCTAAAGGTTCCACAGTCTCCCGACCTAGAGAGCACGGCCCTGG
GCCAGTGAGATGGTCGTGGAGGGTAGAGAGCACTTGCAGCTAACACTGCTGATCAGAGTTTGAT
CCCAGAAGCCACATGGTACAAAGAGAGAACAGATTTCTGCAAGTTGTCCTTTGACCTTTGCTTT
CATGCTGCGGCACACACATGTCCCGCCTCCCCCATATACATATAAATAAATGTACAAAATTAAT
AGGATAAAGCAAAACGAATATGACCCCATAGGAGTATACATGAAACGGCAGGTGTATTCAAAAC
ATACCTGCTATTTCATTTAAGTGAGATCCCCCCCGGCCCTCTGAGAAGTATCCAGAAGCCTCAG
ACTCAGAACTCTGAGGACCTTTTCCTGTTTTCCTGAGCCTTGTGCTTTCGAGTGTCTCCTTGAA
GCTGGGTCAATTGCTTCCTGTCTGCTAGACAAGCATAGGCTTGTTCCAACGGACAAGCTTGAGT
TTGGAATGATGACGGCAGTCTGGATCTAGCTGAAGGGGACAAAGTGGCTAAAACAACTTGAACT
TCGTAGACATCTTACAAACCCGGGTTCAAGTCTTGCCTGTGCTGAATGTTGCTTAGGACGTGGG
AATATAATTTTCTACCTCTTGGTGTTGTTAGCTGGGAGGTTCAACCTACCTCACGGGACTTCTG
GGCAGTGCGTGTTCAGCTGACTCTGGGCTATTTATCCCTATCCTCCCCTTTGCTGGGAATTTGG
TGCCCTCGATCCTTGGTTTAGAACTGAAGGGGTGAGGGTTAGATGTCTGGATGCGGGGTGCACC
TTTTGGGGAGCTGTGACCATGTTTACATGTGAAGTGGGTTGGGTGGCCACCTAGGTGACTGGTA
GATAGAAGTGGCTTTTCAAAGAAATCAGGTTAGACCAGACAGAAGCTAGAACGTGGCGAGAACA
CTCAGCTTCAGAGGGGCCAGCAGGCACGTCCCCGGTGCTTTCTCTTGCGTCCCGGGAGGTTCTT
GTCAGGATTCCTTCTCTCTCCTTCCCTAAGCTCATTGAAATGGTTGTCTAGTGCTTTCAATCAA
ATAACATCCTCTGCCTCTGTGTTAATATGATATAGTCTGAATTTCATCGTCTGCAAATCTCCCT
TGCCACTGGTTTGCAATATCCATTTACCACAGTAGGTTTGCTTAATAAACATTTTTCTCTTCAA
A

hide sequence

RefSeq Acc Id:

XM_006239064 ⟹ XP_006239126

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	144,785,215 - 144,795,057 (+)	NCBI
Rnor_6.0	5	150,765,465 - 150,775,675 (+)	NCBI
Rnor_5.0	5	154,414,542 - 154,443,798 (+)	NCBI

Sequence:

show sequence

ACCAAAATGAAAAGAAATCAATATCTTAAGCCTATGGTGAGCTAGGCATGGCGTTGTAGGTTTG
TGGTCCCAGCAAATCAGAATTTCAAGTTCAATTCCTGCCTGGATAAGTTAATGACACCAGAAGA
GCTAAAGGAGAACTTGGGGTACCAAGACGTAGAATGCTTGGTCAGCTCATGCAAGGCCCTGGCT
TTGTACCCCTACTACAGAAAAACAGTTGTAGCGAAGCTTTATGTAGGCTGATAAATAGAAGGTT
GGCACTCCTCTTTGGCAAACCCAGTGAGTGCCTCGCTTACCAAACCATAGGCTTTCTCAGCGGG
CCTGCGCAGGCATGACACAGGGCAGGGCCCACCATGTCTTGAGCAGGCCCTCTGATTCGAGATT
TTCTAGAGATAGTCATGGGTATCCCCCTAATGGGAGCCAGACCCAAGAGAAGGAAGGAACTTCC
TGTGTGACTTGTGGGTAGAGACATGATTTCCCCACAGATACAGAGTGAGTGCCCCGAGCTGCCC
AGCTGTGGACTGCAGCCACTCCCTGCCCTTCTCAGAGAGCTAGACCAGATGTGCTTCCCACCTC
AGGAGCACCCCCAGTCAGGACAGAGAAGAGGATCAGAAGAAGGGGCTGGGACTGTGGGACAGAG
ACATGCACATTTTCTCATCCCTGGGACATACAACGTTCCATGACCAGGTGACCCTTCCTGCCCA
GAGCAATGGAGCAAAATGGCTCCTTCCGTGTGGATTCTGAGTTTCGATACACCCTCTTTCCGAT
CGTTTACAGCGTCATCTTTGTACTGGGCGTGGTTGCCAATGGCTATGTGCTGTGGGTCTTTGCC
ACCTTGTACCCGTCCAAGAAACTGAATGAGATAAAGATCTTCATGGTGAATCTCACCGTGGCGG
ACCTGCTCTTCTTGATGACCCTCCCGCTGTGGATTGTCTATTACTCCAACGAGGGCGACTGGAT
TGTACACAAATTCCTGTGCAACCTGGCTGGCTGCCTCTTCTTCATCAATACCTACTGCAGTGTG
GCCTTCCTTGGCGTCATCACTTATAACCGCTACCAGGCAGTAGCCTATCCCATCAAGACCGCCC
AGGCCACCACCCGCAAGCGTGGCATCACTTTGTCCCTGGTCATTTGGATATCCATCGCGGCTAC
TGCATCCTACTTCCTGGCCACAGACTCTACCAACGTGGTGCCCAAAAAGGATGGCTCAGGTAAC
ATCACCCGCTGCTTTGAGCATTATGAGCCATACAGTGTGCCCATCCTTGTCGTCCACATCTTCA
TCACCTCCTGTTTCTTCCTCGTCTTCTTCCTCATCTTCTACTGCAACATGGTCATCATCCACAC
GCTGCTCACGCGGCCTGTGCGGCAGCAGCGCAAACCGGAAGTGAAGCGCCGGGCGCTGTGGATG
GTCTGCACTGTCTTGGCGGTATTTGTCATCTGCTTTGTGCCCCATCACGTGGTCCAGCTACCCT
GGACCCTAGCAGAGTTGGGCTACCAGACCAACTTCCATCAGGCTATTAATGATGCCCACCAAAT
CACCCTCTGCCTCCTGAGCACCAACTGCGTCTTAGATCCTGTTATCTACTGCTTTCTCACCAAG
AAGTTCCGGAAGCACCTCAGCGAAAAGTTTTACAGCATGCGAAGTAGCCGGAAGTGCTCCCGAG
CCACTAGCGACACGTGCACCGAGGTGATGATGCCAGCCAACCAGACTCCTGTCCTGCCATTGAA
AAATTAATCAATGCTTATTAAAGCCAGGTCCAGAGCCTTCTCTTTTATGGCCCCCACCGATGGC
GCAGAAAGCTAAGAGGTTCCTGCCTGTGGCCAACCCCCAACTTGGACCCTGGTGGACTCTTAAG
TGAGGCAGTTACTTCCTCACAGAGAGCCATTTGCTGGAAAATACAGAACTCCAATGCTCCTTTT
CATCCATCTTTGAGTCAACACTAGAGGGTTGTGGCTGATGGACTCATCCAGGGCTTCAGATTGT
GACAACCCTGCTAGCACCAGACCTTGGGGAGAGACGCTGAGCAGCCCAGTTCATTCAACTGGGA
CAGCAATTTAAGGATTGGGCAGTGACTTCCGGGTGCTACAGGAAGAGGGGAGAGGGGTTGTGGG
GACTCTTCACTGATTGTGATCTTTGGCAAAACAATTGGGTTTAGGATGGTGCCTTCCTTTATCC
ATCTACAGATACAAGGTCTTTGTGGCTCTTCCTAGAGGAAGTGGTTTGGTGGTTATCGCCTGAC
TCACCCAGCACCTTGCCTCAGACATAACCAGAGGAGATAACACAGACGCTGACCAGAAGCTAGG
ATGGGTGCATGTTTGCTGAGGCAGCTGAGTTTTGCCCGGGCCTGAGTGAGTGCTGAGGGAATGG
AAGAGAGGTGGCTACCTCAGAACACTGCACTTTCCACTTCCGGCAGGCAGCTTCTTTTGAGGTC
CTCTGGCCACCTGGTGGTGATTTTTTGACAAGTGTCTTAGTCTCATTTCACTCACCGTGCCCAG
AAAACAACTCGAGGAGGGAGAGATTTATTTTGGCTCACAGTTTGGAGGACCTCAGTCCCTCACG
GCAAGGAAGGCATGGTGGGGCTCAGACTCTGGTGGTGGGAATAGGAGACGGAGGTTGTCCACGT
GGCAGTGAGCCAGGAACCAAGACTGCACCTTAACCCAGGGTTGGGATATAACCCACGCCCCCGC
GCCCCCAGCCACCTACTTCTACAGCCAGGTCCTACCTCCTCCTAAAGGTTCCACAGTCTCCCGA
CCTAGAGAGCACGGCCCTGGGCCAGTGAGATGGTCGTGGAGGGTAGAGAGCACTTGCAGCTAAC
ACTGCTGATCAGAGTTTGATCCCAGAAGCCACATGGTACAAAGAGAGAACAGATTTCTGCAAGT
TGTCCTTTGACCTTTGCTTTCATGCTGCGGCACACACATGTCCCGCCTCCCCCATATACATATA
AATAAATGTACAAAATTAATAGGATAAAGCAAAACGAATATGACCCCATAGGAGTATACATGAA
ACGGCAGGTGTATTCAAAACATACCTGCTATTTCATTTAAGTGAGATCCCCCCCGGCCCTCTGA
GAAGTATCCAGAAGCCTCAGACTCAGAACTCTGAGGACCTTTTCCTGTTTTCCTGAGCCTTGTG
CTTTCGAGTGTCTCCTTGAAGCTGGGTCAATTGCTTCCTGTCTGCTAGACAAGCATAGGCTTGT
TCCAACGGACAAGCTTGAGTTTGGAATGATGACGGCAGTCTGGATCTAGCTGAAGGGGACAAAG
TGGCTAAAACAACTTGAACTTCGTAGACATCTTACAAACCCGGGTTCAAGTCTTGCCTGTGCTG
AATGTTGCTTAGGACGTGGGAATATAATTTTCTACCTCTTGGTGTTGTTAGCTGGGAGGTTCAA
CCTACCTCACGGGACTTCTGGGCAGTGCGTGTTCAGCTGACTCTGGGCTATTTATCCCTATCCT
CCCCTTTGCTGGGAATTTGGTGCCCTCGATCCTTGGTTTAGAACTGAAGGGGTGAGGGTTAGAT
GTCTGGATGCGGGGTGCACCTTTTGGGGAGCTGTGACCATGTTTACATGTGAAGTGGGTTGGGT
GGCCACCTAGGTGACTGGTAGATAGAAGTGGCTTTTCAAAGAAATCAGGTTAGACCAGACAGAA
GCTAGAACGTGGCGAGAACACTCAGCTTCAGAGGGGCCAGCAGGCACGTCCCCGGTGCTTTCTC
TTGCGTCCCGGGAGGTTCTTGTCAGGATTCCTTCTCTCTCCTTCCCTAAGCTCATTGAAATGGT
TGTCTAGTGCTTTCAATCAAATAACATCCTCTGCCTCTGTGTTAATATGATATAGTCTGAATTT
CATCGTCTGCAAATCTCCCTTGCCACTGGTTTGCAATATCCATTTACCACAGTAGGTTTGCTTA
ATAAACATTTTTCTCTTCAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_445773	(Get FASTA)	NCBI Sequence Viewer
	XP_006239125	(Get FASTA)	NCBI Sequence Viewer
	XP_006239126	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA18422	(Get FASTA)	NCBI Sequence Viewer
	AAH72491	(Get FASTA)	NCBI Sequence Viewer
	EDL80644	(Get FASTA)	NCBI Sequence Viewer
	P46002	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_445773 ⟸ NM_053321

- UniProtKB:

P46002 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MEQNGSFRVDSEFRYTLFPIVYSVIFVLGVVANGYVLWVFATLYPSKKLNEIKIFMVNLTVADL
LFLMTLPLWIVYYSNEGDWIVHKFLCNLAGCLFFINTYCSVAFLGVITYNRYQAVAYPIKTAQA
TTRKRGITLSLVIWISIAATASYFLATDSTNVVPKKDGSGNITRCFEHYEPYSVPILVVHIFIT
SCFFLVFFLIFYCNMVIIHTLLTRPVRQQRKPEVKRRALWMVCTVLAVFVICFVPHHVVQLPWT
LAELGYQTNFHQAINDAHQITLCLLSTNCVLDPVIYCFLTKKFRKHLSEKFYSMRSSRKCSRAT
SDTCTEVMMPANQTPVLPLKN

hide sequence

RefSeq Acc Id:	XP_006239125 ⟸ XM_006239063
- Peptide Label:	isoform X1
- UniProtKB:	P46002 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MEQNGSFRVDSEFRYTLFPIVYSVIFVLGVVANGYVLWVFATLYPSKKLNEIKIFMVNLTVADL LFLMTLPLWIVYYSNEGDWIVHKFLCNLAGCLFFINTYCSVAFLGVITYNRYQAVAYPIKTAQA TTRKRGITLSLVIWISIAATASYFLATDSTNVVPKKDGSGNITRCFEHYEPYSVPILVVHIFIT SCFFLVFFLIFYCNMVIIHTLLTRPVRQQRKPEVKRRALWMVCTVLAVFVICFVPHHVVQLPWT LAELGYQTNFHQAINDAHQITLCLLSTNCVLDPVIYCFLTKKFRKHLSEKFYSMRSSRKCSRAT SDTCTEVMMPANQTPVLPLKN hide sequence

RefSeq Acc Id:	XP_006239126 ⟸ XM_006239064
- Peptide Label:	isoform X1
- UniProtKB:	P46002 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MEQNGSFRVDSEFRYTLFPIVYSVIFVLGVVANGYVLWVFATLYPSKKLNEIKIFMVNLTVADL LFLMTLPLWIVYYSNEGDWIVHKFLCNLAGCLFFINTYCSVAFLGVITYNRYQAVAYPIKTAQA TTRKRGITLSLVIWISIAATASYFLATDSTNVVPKKDGSGNITRCFEHYEPYSVPILVVHIFIT SCFFLVFFLIFYCNMVIIHTLLTRPVRQQRKPEVKRRALWMVCTVLAVFVICFVPHHVVQLPWT LAELGYQTNFHQAINDAHQITLCLLSTNCVLDPVIYCFLTKKFRKHLSEKFYSMRSSRKCSRAT SDTCTEVMMPANQTPVLPLKN hide sequence

RefSeq Acc Id:

ENSRNOP00000017687 ⟸ ENSRNOT00000017687

RefSeq Acc Id:

ENSRNOP00000085904 ⟸ ENSRNOT00000119353

RefSeq Acc Id:

ENSRNOP00000079229 ⟸ ENSRNOT00000097551

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 Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	150,753,983 - 150,754,043	EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)

ACI/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN-Lx/CubMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BUF/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

DA/OlaHsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE16/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/FarMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB10/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF10A/StmMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/NRrrcMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MWF/Hsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHR/OlalpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WAG/RijCrl (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:61897	AgrOrtholog
BioCyc Gene	G2FUF-39679	BioCyc
Ensembl Genes	ENSRNOG00000013231	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000017687	UniProtKB/Swiss-Prot
	ENSRNOP00000079229	ENTREZGENE
	ENSRNOP00000085904	ENTREZGENE
Ensembl Transcript	ENSRNOT00000017687	UniProtKB/Swiss-Prot
	ENSRNOT00000097551	ENTREZGENE
	ENSRNOT00000119353	ENTREZGENE
IMAGE_CLONE	IMAGE:7097307	IMAGE-MGC_LOAD
InterPro	GPCR_Rhodpsn	UniProtKB/Swiss-Prot
	GPCR_Rhodpsn_7TM	UniProtKB/Swiss-Prot
	PAF_rcpt	UniProtKB/Swiss-Prot
KEGG Report	rno:58949	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:91594	IMAGE-MGC_LOAD
NCBI Gene	58949	ENTREZGENE
Pfam	7tm_1	UniProtKB/Swiss-Prot
PhenoGen	Ptafr	PhenoGen
PRINTS	GPCRRHODOPSN	UniProtKB/Swiss-Prot
	PAFRECEPTOR	UniProtKB/Swiss-Prot
PROSITE	G_PROTEIN_RECEP_F1_1	UniProtKB/Swiss-Prot
	G_PROTEIN_RECEP_F1_2	UniProtKB/Swiss-Prot
TIGR	TC215610
UniProt	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

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)