Ptger4 (prostaglandin E receptor 4) - Rat Genome Database

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Gene: Ptger4 (prostaglandin E receptor 4) Rattus norvegicus
Analyze
Symbol: Ptger4
Name: prostaglandin E receptor 4
RGD ID: 628641
Description: Enables prostaglandin E receptor activity. Involved in several processes, including regulation of circadian sleep/wake cycle, sleep; regulation of cytokine production; and regulation of secretion. Located in several cellular components, including neuron projection terminus; neuronal cell body; and nuclear membrane. Used to study acute kidney failure; cystitis; end stage renal disease; myocarditis; and osteoporosis. Biomarker of retinal ischemia and transient cerebral ischemia. Human ortholog(s) of this gene implicated in ankylosing spondylitis; arteriosclerosis; and ulcerative colitis. Orthologous to human PTGER4 (prostaglandin E receptor 4); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3-bis(4-hydroxyphenyl)propionitrile.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: EP4; PGE receptor EP4 subtype; PGE receptor, EP4 subtype; PGE2 receptor EP4 subtype; prostaglandin E receptor 4 (subtype EP4); prostaglandin E2 receptor EP4 subtype; prostaglandin E2 receptor type 4; prostanoid EP4 receptor; Ptger; Ptgerep4
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
mRatBN7.2254,330,563 - 54,347,451 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl254,335,424 - 54,346,670 (-)Ensembl
Rnor_6.0254,951,625 - 54,966,470 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl254,952,821 - 54,963,448 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0273,974,390 - 73,987,294 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4254,423,280 - 54,433,907 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1254,351,507 - 54,362,753 (-)NCBI
Celera249,982,896 - 49,993,523 (-)NCBICelera
Cytogenetic Map2q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-bis(4-hydroxyphenyl)propionitrile  (EXP)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2,4-dinitrobenzenesulfonic acid  (ISO)
3',5'-cyclic AMP  (ISO)
3,4-dichloroaniline  (ISO)
3-methylcholanthrene  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
8-epi-prostaglandin E2  (ISO)
acetamide  (EXP)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
AH23848  (ISO)
aldehydo-D-glucose  (EXP)
alternariol  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
Botulinum toxin type A  (EXP)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP)
calcitriol  (ISO)
captan  (ISO)
carbon nanotube  (ISO)
celecoxib  (EXP)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
crotonaldehyde  (ISO)
Cryptotanshinone  (ISO)
cyclophosphamide  (EXP)
D-glucose  (EXP)
D-mannitol  (EXP)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP)
Dicyclohexyl phthalate  (EXP)
dieldrin  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
diuron  (EXP,ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzalutamide  (ISO)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furosemide  (ISO)
glucose  (EXP)
hydrazine  (ISO)
isoliquiritigenin  (ISO)
kenpaullone  (EXP)
ketorolac  (EXP)
L-methionine  (ISO)
mercury dibromide  (ISO)
methyl methanesulfonate  (ISO)
methylisothiazolinone  (ISO)
mifepristone  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
Nonylphenol  (EXP)
NS-398  (EXP,ISO)
ochratoxin A  (ISO)
oxidopamine  (ISO)
paclitaxel  (EXP)
panobinostat  (ISO)
paracetamol  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
pristane  (ISO)
progesterone  (EXP)
prostaglandin E2  (EXP,ISO)
puromycin  (ISO)
Rebamipide  (EXP)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium hydrogensulfite  (EXP)
sodium sulfite  (EXP)
sulfur dioxide  (EXP)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vincristine  (ISO)
vinyl carbamate  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adenylate cyclase-activating G protein-coupled receptor signaling pathway  (IBA)
adenylate cyclase-modulating G protein-coupled receptor signaling pathway  (IEA,ISO,ISS)
bone development  (IDA)
cellular response to glucose stimulus  (IEP)
cellular response to interleukin-1  (IEP)
cellular response to mechanical stimulus  (IEA,ISO,ISS)
cellular response to prostaglandin E stimulus  (IBA,IEP)
chemokinesis  (IMP)
ductus arteriosus closure  (IMP)
ERK1 and ERK2 cascade  (IDA)
female pregnancy  (IEP)
immune response  (ISO)
inflammatory response  (IBA)
JNK cascade  (IDA)
maternal process involved in parturition  (IEP)
negative regulation of circadian sleep/wake cycle, REM sleep  (IMP)
negative regulation of cytokine production  (IEA,ISO,ISS)
negative regulation of ductus arteriosus closure  (IMP)
negative regulation of endothelin production  (IMP)
negative regulation of eosinophil extravasation  (IEA,ISO,ISS)
negative regulation of hydrogen peroxide metabolic process  (IMP)
negative regulation of inflammatory response  (IBA,IEA,ISO,ISS)
negative regulation of integrin activation  (IEA,ISO,ISS)
negative regulation of interleukin-1 alpha production  (IMP)
negative regulation of nitric-oxide synthase biosynthetic process  (IMP)
negative regulation of peptide secretion  (IMP)
negative regulation of small intestine smooth muscle contraction  (IMP)
negative regulation of tumor necrosis factor production  (IMP)
positive regulation of antral ovarian follicle growth  (IMP)
positive regulation of bone resorption  (IMP)
positive regulation of calcitonin secretion  (IMP)
positive regulation of cAMP-mediated signaling  (IMP)
positive regulation of cell adhesion  (IMP)
positive regulation of cell population proliferation  (IMP)
positive regulation of chemokinesis  (IMP)
positive regulation of circadian sleep/wake cycle, non-REM sleep  (IMP)
positive regulation of cytokine production  (IEA,ISO,ISS)
positive regulation of cytosolic calcium ion concentration  (IBA)
positive regulation of gene expression  (IMP)
positive regulation of hyaluronan biosynthetic process  (IMP)
positive regulation of inflammatory response  (IEA,ISO,ISS)
positive regulation of interleukin-10 production  (IMP)
positive regulation of interleukin-8 production  (IMP)
positive regulation of matrix metallopeptidase secretion  (IMP)
positive regulation of mucus secretion  (IMP)
positive regulation of neutrophil extravasation  (IMP)
positive regulation of ossification  (IMP)
positive regulation of osteoblast differentiation  (IMP)
positive regulation of ovarian follicle development  (IMP)
positive regulation of protein phosphorylation  (IMP)
positive regulation of protein secretion  (IMP)
positive regulation of renal sodium excretion  (IMP)
positive regulation of smooth muscle cell migration  (IMP)
positive regulation of substance P secretion  (IMP)
positive regulation of substance P secretion, neurotransmission  (IMP)
positive regulation of tyrosine phosphorylation of STAT protein  (IMP)
positive regulation of urine volume  (IMP)
positive regulation of wound healing  (IMP)
regulation of circadian sleep/wake cycle, wakefulness  (IMP)
regulation of ossification  (IEA,ISO)
regulation of stress fiber assembly  (IEA,ISO,ISS)
response to amino acid  (IEP)
response to interleukin-1  (IEP)
response to lipopolysaccharide  (IEA,ISO)
response to mechanical stimulus  (ISO)
response to organic cyclic compound  (IEP)
response to progesterone  (IEP)
response to prostaglandin E  (IEP)
response to salt  (IEP)
response to water-immersion restraint stress  (IEP)
response to xenobiotic stimulus  (IEP)
T-helper cell differentiation  (IEA,ISO,ISS)

Cellular Component

Molecular Function

References

References - curated
1. Bhattacharya M, etal., J Biol Chem. 1999 May 28;274(22):15719-24.
2. Cameron KO, etal., Bioorg Med Chem Lett. 2006 Apr 1;16(7):1799-802. Epub 2006 Jan 26.
3. Chang F, etal., J Orthop Res. 2007 Feb;25(2):221-9.
4. Chen Q, etal., Br J Pharmacol. 2010 May;160(2):292-310. doi: 10.1111/j.1476-5381.2010.00647.x.
5. Chien EK and Macgregor C, Am J Obstet Gynecol. 2003 Nov;189(5):1501-10.
6. Choi JS, etal., Cell Tissue Res. 2006 May;324(2):203-11. Epub 2006 Jan 26.
7. Chuang YC, etal., Neurourol Urodyn. 2011 Mar;30(3):421-7. doi: 10.1002/nau.20981. Epub 2010 Sep 21.
8. Cipollone F, etal., Arterioscler Thromb Vasc Biol. 2005 Sep;25(9):1925-31. Epub 2005 Jul 14.
9. Clark P, etal., J Pharmacol Exp Ther. 2008 May;325(2):425-34. doi: 10.1124/jpet.107.134510. Epub 2008 Feb 20.
10. El-Nefiawy N, etal., Histol Histopathol. 2005 Jul;20(3):825-31.
11. Evans DM, etal., Nat Genet. 2011 Jul 10;43(8):761-7. doi: 10.1038/ng.873.
12. Frias MA, etal., Cardiovasc Res. 2007 Jan 1;73(1):57-65. Epub 2006 Sep 27.
13. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
14. GOA data from the GO Consortium
15. Hamaguchi K, etal., Neuropharmacology. 2012 Mar;62(4):1841-7. Epub 2011 Dec 16.
16. Hatazawa R, etal., Am J Physiol Gastrointest Liver Physiol. 2007 Oct;293(4):G788-97. Epub 2007 Aug 2.
17. Hattori R, etal., Ann Otol Rhinol Laryngol. 2008 Jan;117(1):51-8.
18. Hinton AC, etal., Reprod Sci. 2010 Feb;17(2):136-46. doi: 10.1177/1933719109348068. Epub 2009 Oct 2.
19. Hoshino T, etal., J Neurochem. 2012 Mar;120(5):795-805. doi: 10.1111/j.1471-4159.2011.07567.x. Epub 2012 Jan 23.
20. Jensen BL, etal., Kidney Int. 1999 Aug;56(2):528-37.
21. Jiang GL, etal., J Pharmacol Exp Ther. 2010 Dec;335(3):546-52. Epub 2010 Sep 10.
22. Kopp UC, etal., Am J Physiol Renal Physiol. 2004 Dec;287(6):F1269-82. Epub 2004 Aug 3.
23. Kunikata T, etal., Dig Dis Sci. 2002 Apr;47(4):894-904.
24. Kurihara Y, etal., Clin Exp Immunol. 2001 Feb;123(2):323-30.
25. Latiano A, etal., PLoS One. 2011;6(7):e22688. Epub 2011 Jul 27.
26. Li JH, etal., J Clin Invest. 2009 Oct;119(10):3115-26. doi: 10.1172/JCI39680.
27. Liang X, etal., J Clin Invest. 2011 Nov;121(11):4362-71. doi: 10.1172/JCI46279. Epub 2011 Oct 3.
28. Marui A, etal., J Thorac Cardiovasc Surg. 2006 Mar;131(3):587-93.
29. MGD data from the GO Consortium
30. Minamizaki T, etal., Bone. 2009 Jun;44(6):1177-85. doi: 10.1016/j.bone.2009.02.010. Epub 2009 Feb 21.
31. Momma K, etal., Prostaglandins Other Lipid Mediat. 2005 Dec;78(1-4):117-28. Epub 2005 Jun 8.
32. Nasrallah R, etal., Am J Physiol Renal Physiol. 2003 Dec;285(6):F1068-77. Epub 2003 Jul 29.
33. Ngoc PB, etal., J Cardiovasc Pharmacol. 2011 Mar;57(3):365-72.
34. Nitta M, etal., Scand J Immunol 2002 Jul;56(1):66-75.
35. Oka T, etal., J Comp Neurol. 2000 Dec 4;428(1):20-32.
36. Okumura T, etal., J Pharm Pharmacol. 2008 Jun;60(6):723-30. doi: 10.1211/jpp.60.6.0007.
37. Papay KD and Kennedy TG, Biol Reprod. 2000 Jun;62(6):1515-25.
38. RGD automated data pipeline
39. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
40. RGD automated import pipeline for gene-chemical interactions
41. Sakamoto A, etal., Shock. 2004 Jul;22(1):76-81.
42. Segi E, etal., Biochem Biophys Res Commun. 1998 May 8;246(1):7-12.
43. Sennlaub F, etal., Circulation. 2003 Jul 15;108(2):198-204. Epub 2003 Jun 23.
44. Shamir D, etal., Bone. 2004 Jan;34(1):157-62.
45. Southall MD and Vasko MR, J Biol Chem. 2001 May 11;276(19):16083-91. Epub 2001 Feb 14.
46. St-Jacques B and Ma W, J Neurochem. 2011 Sep;118(5):841-54. doi: 10.1111/j.1471-4159.2011.07230.x. Epub 2011 Mar 28.
47. Suetsugu H, etal., J Lab Clin Med. 2000 Jul;136(1):50-7.
48. Tomita M, etal., Bone 2002 Jan;30(1):159-63.
49. Treffkorn L, etal., Prostaglandins Other Lipid Mediat. 2004 Oct;74(1-4):113-23.
50. Vukicevic S, etal., Kidney Int. 2006 Sep;70(6):1099-106. Epub 2006 Jul 26.
51. Weinreb M, etal., Bone. 2001 Mar;28(3):275-81.
52. Yokoyama U, etal., J Clin Invest. 2006 Nov;116(11):3026-34.
53. Yokoyama U, etal., PLoS One. 2012;7(5):e36724. Epub 2012 May 3.
54. Yoshida K, etal., Proc Natl Acad Sci U S A. 2002 Apr 2;99(7):4580-5. Epub 2002 Mar 26.
55. Yoshida Y, etal., Neuroreport. 2000 Jul 14;11(10):2127-31.
56. Zeng L, etal., Biochemistry. 1996 Jun 4;35(22):7159-64.
57. Zhang J and Rivest S, J Neurochem. 2000 May;74(5):2134-45.
Additional References at PubMed
PMID:8163486   PMID:8185583   PMID:8862514   PMID:9537820   PMID:10749873   PMID:11602631   PMID:12853415   PMID:14552899   PMID:14665434   PMID:15194560   PMID:15626689   PMID:15834430  
PMID:16424369   PMID:17110143   PMID:17943254   PMID:17947453   PMID:18270204   PMID:18684231   PMID:18843255   PMID:19465928   PMID:20586869   PMID:20713561   PMID:21549696   PMID:21681739  
PMID:21723865   PMID:21768374   PMID:21840386   PMID:21939736   PMID:22061836   PMID:23220160   PMID:24146253   PMID:24560715   PMID:24849498   PMID:25263346   PMID:27060485   PMID:29031391  
PMID:31455205   PMID:32094439   PMID:32165825   PMID:34003864  


Genomics

Candidate Gene Status
Ptger4 is a candidate Gene for QTL Gdil2
Comparative Map Data
Ptger4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2254,330,563 - 54,347,451 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl254,335,424 - 54,346,670 (-)Ensembl
Rnor_6.0254,951,625 - 54,966,470 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl254,952,821 - 54,963,448 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0273,974,390 - 73,987,294 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4254,423,280 - 54,433,907 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1254,351,507 - 54,362,753 (-)NCBI
Celera249,982,896 - 49,993,523 (-)NCBICelera
Cytogenetic Map2q16NCBI
PTGER4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl540,679,915 - 40,693,735 (+)EnsemblGRCh38hg38GRCh38
GRCh38540,679,915 - 40,740,936 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37540,680,017 - 40,693,837 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36540,715,789 - 40,729,594 (+)NCBINCBI36hg18NCBI36
Build 34540,715,788 - 40,729,592NCBI
Celera540,568,598 - 40,582,403 (+)NCBI
Cytogenetic Map5p13.1NCBI
HuRef540,632,020 - 40,645,825 (+)NCBIHuRef
CHM1_1540,681,992 - 40,695,797 (+)NCBICHM1_1
Ptger4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39155,262,880 - 5,273,668 (-)NCBIGRCm39mm39
GRCm39 Ensembl155,236,142 - 5,273,668 (-)Ensembl
GRCm38155,233,399 - 5,244,187 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl155,206,661 - 5,244,187 (-)EnsemblGRCm38mm10GRCm38
MGSCv37155,183,404 - 5,193,831 (-)NCBIGRCm37mm9NCBIm37
MGSCv36155,181,080 - 5,191,046 (-)NCBImm8
Celera155,082,719 - 5,093,146 (-)NCBICelera
Cytogenetic Map15A1NCBI
cM Map151.99NCBI
Ptger4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542624,997,811 - 25,010,822 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542624,997,811 - 25,010,822 (+)NCBIChiLan1.0ChiLan1.0
PTGER4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1574,731,470 - 74,745,121 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl574,731,470 - 74,745,148 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0569,686,906 - 69,700,739 (-)NCBIMhudiblu_PPA_v0panPan3
PTGER4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1468,663,362 - 68,676,241 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl468,663,364 - 68,676,358 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha468,339,460 - 68,352,693 (-)NCBI
ROS_Cfam_1.0469,169,559 - 69,182,795 (-)NCBI
UMICH_Zoey_3.1468,929,030 - 68,942,269 (-)NCBI
UNSW_CanFamBas_1.0469,042,114 - 69,055,368 (-)NCBI
UU_Cfam_GSD_1.0469,581,192 - 69,594,491 (-)NCBI
Ptger4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213229,454,672 - 229,468,133 (+)NCBI
SpeTri2.0NW_0049365181,903,636 - 1,916,746 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTGER4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1625,670,862 - 25,686,552 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11625,670,832 - 25,686,556 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PTGER4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1439,440,697 - 39,453,983 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl439,440,276 - 39,454,004 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607129,862,058 - 29,876,121 (+)NCBIVero_WHO_p1.0
Ptger4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475914,243,887 - 14,259,090 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
SHGC-64757  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2254,345,526 - 54,345,700 (+)MAPPERmRatBN7.2
Rnor_6.0254,962,918 - 54,963,091NCBIRnor6.0
Rnor_5.0273,985,678 - 73,985,851UniSTSRnor5.0
RGSC_v3.4254,433,377 - 54,433,550UniSTSRGSC3.4
Celera249,992,993 - 49,993,166UniSTS
Cytogenetic Map2q16UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22490385374786777Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22691781781754745Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22715716072157160Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23064806575648065Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23502311780023117Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23513484188029593Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)240067944102785628Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)240067944102785628Rat
12879863Bp402Blood pressure QTL 4020.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24112578956532139Rat
1300155Bp174Blood pressure QTL 1744.09arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)24280460760653831Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607157142209Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242804607182042367Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242804607202447032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243154682202446871Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243154682202446871Rat
2293676Bmd19Bone mineral density QTL 1910.70.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)243162366111362592Rat
2293682Bmd24Bone mineral density QTL 248.90.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)243162366111362592Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243162366148478373Rat
631208Bw1Body weight QTL15.09mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)24317101783575226Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243171017184114403Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246123260202447032Rat
1354592Rf50Renal function QTL 503.5urine output (VT:0003620)timed urine volume (CMO:0000260)25382274774786777Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:33
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000017886
Prediction methods:Miranda, Rnahybrid, 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 3 8 19 4 4 4
Low 43 41 33 33 8 10 46 31 36 7 8
Below cutoff 8 8 8 1 28 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017886   ⟹   ENSRNOP00000017886
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl254,335,424 - 54,346,670 (-)Ensembl
Rnor_6.0 Ensembl254,952,821 - 54,963,448 (-)Ensembl
RefSeq Acc Id: NM_032076   ⟹   NP_114465
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,335,429 - 54,346,057 (-)NCBI
Rnor_6.0254,952,821 - 54,963,448 (-)NCBI
Rnor_5.0273,974,390 - 73,987,294 (-)NCBI
RGSC_v3.4254,423,280 - 54,433,907 (-)RGD
Celera249,982,896 - 49,993,523 (-)RGD
Sequence:
RefSeq Acc Id: XM_006231996   ⟹   XP_006232058
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,330,563 - 54,347,450 (-)NCBI
Rnor_6.0254,951,625 - 54,966,470 (-)NCBI
Rnor_5.0273,974,390 - 73,987,294 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039103261   ⟹   XP_038959189
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,330,563 - 54,347,451 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_114465   ⟸   NM_032076
- UniProtKB: P43114 (UniProtKB/Swiss-Prot),   A0A0G2JSM6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006232058   ⟸   XM_006231996
- Peptide Label: isoform X1
- UniProtKB: P43114 (UniProtKB/Swiss-Prot),   A0A0G2JSM6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000017886   ⟸   ENSRNOT00000017886
RefSeq Acc Id: XP_038959189   ⟸   XM_039103261
- Peptide Label: isoform X1
Protein Domains
G_PROTEIN_RECEP_F1_2

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
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/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
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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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
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
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
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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Sequenced By: MCW
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
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
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
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
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
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
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/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
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/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
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/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
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
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 54345460 54345461 C G snv F344/NCrl (2019)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
2 54962851 54962852 C G snv F344/NCrl (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:628641 AgrOrtholog
Ensembl Genes ENSRNOG00000013240 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017886 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017886 UniProtKB/TrEMBL
InterPro GPCR_Rhodpsn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prost_EP4_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prostanoid_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prostglndn_DP_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84023 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 84023 ENTREZGENE
PANTHER PTHR11866 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11866:SF6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ptger4 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROSTAGLNDNR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROSTANOIDR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PRSTNOIDEP4R 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
UniProt A0A0G2JSM6 ENTREZGENE, UniProtKB/TrEMBL
  P43114 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary O08728 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Ptger4  prostaglandin E receptor 4  Ptger4  prostaglandin E receptor 4 (subtype EP4)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Ptger4  prostaglandin E receptor 4 (subtype EP4)  Ptger4  prostaglandin E receptor 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Ptger4  prostaglandin E receptor 4 (subtype EP4)      Symbol and Name status set to approved 625702 APPROVED
2003-02-27 Ptger4  prostaglandin E receptor 4 (subtype EP4)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease intestinal mRNA expression increases in a dextran sodium sulfate-induced colitis model 727388