Chrm3 (cholinergic receptor, muscarinic 3) - Rat Genome Database

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Gene: Chrm3 (cholinergic receptor, muscarinic 3) Rattus norvegicus
Analyze
Symbol: Chrm3
Name: cholinergic receptor, muscarinic 3
RGD ID: 2343
Description: Enables G protein-coupled acetylcholine receptor activity and acetylcholine binding activity. Involved in G protein-coupled acetylcholine receptor signaling pathway; negative regulation of heart rate by acetylcholine; and positive regulation of vascular associated smooth muscle contraction. Located in several cellular components, including asymmetric synapse; axon terminus; and dendrite. Is integral component of presynaptic membrane. Is active in glutamatergic synapse. Is integral component of postsynaptic density membrane. Human ortholog(s) of this gene implicated in bladder disease; chronic obstructive pulmonary disease; prune belly syndrome; and pulmonary fibrosis. Orthologous to human CHRM3 (cholinergic receptor muscarinic 3); PARTICIPATES IN acetylcholine signaling pathway via muscarinic acetylcholine receptors engaging G alphaq protein family; cimetidine pharmacodynamics pathway; esomeprazole pharmacodynamics pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cholinergic receptor, muscarinic 3, cardiac; muscarinic acetylcholine receptor M3
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
mRatBN7.21760,005,137 - 60,467,250 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1760,005,202 - 60,467,278 (+)Ensembl
Rnor_6.01763,990,599 - 64,463,222 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1763,990,599 - 63,994,169 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01765,753,665 - 66,217,211 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41771,214,906 - 71,218,463 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11771,081,449 - 71,229,296 (+)NCBI
Celera1760,109,356 - 60,562,246 (-)NCBICelera
Cytogenetic Map17q12.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
2-deoxy-D-glucose  (ISO)
2-methyl-2-[4-(1,2,3,4-tetrahydronaphthalen-1-yl)phenoxy]propanoic acid  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
4-DAMP methiodide  (IDA)
4-DAMP(1+)  (ISO)
6-propyl-2-thiouracil  (EXP)
acetylcholine  (EXP,ISO)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arecoline  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atropine  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bethanechol  (ISO)
bisphenol A  (EXP)
brucine  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
caracurine VII  (ISO)
carbachol  (EXP,ISO)
chlorohydrocarbon  (EXP)
chlorpyrifos  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
Cuprizon  (EXP)
darifenacin  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dichlorvos  (EXP)
diethylstilbestrol  (EXP)
dimethoate  (EXP,ISO)
disulfoton  (EXP)
dorsomorphin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ethanol  (ISO)
fipronil  (EXP)
fructose  (EXP)
furan  (EXP)
furtrethonium  (ISO)
genistein  (EXP,ISO)
glycidol  (EXP)
guanosine 5'-[beta,gamma-imido]triphosphate  (ISO)
hexacosan-1-ol  (EXP)
histamine  (ISO)
hydrogen chloride  (EXP)
ketamine  (ISO)
KT 5720  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
Licochalcone B  (ISO)
methoxychlor  (EXP)
methscopolamine  (EXP,ISO)
methylmercury chloride  (ISO)
metoclopramide  (EXP)
N-acetyl-L-cysteine  (ISO)
nafenopin  (EXP)
nickel atom  (ISO)
oxotremorine M  (ISO)
oxybutynin  (ISO)
pancuronium  (ISO)
panobinostat  (ISO)
paraoxon  (ISO)
parathion-methyl  (EXP)
picrotoxin  (EXP)
Pipecuronium  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pregnenolone  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (EXP)
propanal  (ISO)
quercetin  (EXP)
resveratrol  (EXP)
rocuronium  (ISO)
SB 203580  (EXP)
SB 431542  (ISO)
Securinine  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
Solifenacin succinate  (ISO)
staurosporine  (EXP)
streptozocin  (EXP)
strychnine  (EXP,ISO)
sunitinib  (ISO)
taurodeoxycholic acid  (ISO)
taurolithocholic acid  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thiopental  (ISO)
tiotropium bromide  (ISO)
tolterodine tartrate  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
Tropicamide  (ISO)
valproic acid  (ISO)
vecuronium bromide  (ISO)
vorinostat  (ISO)
zinc oxide  (ISO)
zinc sulfate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

References

References - curated
1. Abrams P and Andersson KE, BJU Int. 2007 Nov;100(5):987-1006.
2. Asano K, etal., Int J Chron Obstruct Pulmon Dis. 2008;3(4):781-9.
3. Bonner TI, etal., Science 1987 Jul 31;237(4814):527-32.
4. Boulanger CM, etal., Br J Pharmacol. 1994 Jun;112(2):519-24.
5. Braun T, etal., Biochem Biophys Res Commun 1987 Nov 30;149(1):125-32.
6. Braverman AS, etal., Am J Physiol Regul Integr Comp Physiol 2002 Sep;283(3):R663-8.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. GOA data from the GO Consortium
9. Guo ML, etal., EMBO J. 2010 Jun 16;29(12):2070-81. doi: 10.1038/emboj.2010.93. Epub 2010 May 11.
10. Haag S, etal., Eur Respir J. 2008 Sep;32(3):555-62. Epub 2008 May 14.
11. Hamdan FF, etal., Biochemistry 2002 Jun 18;41(24):7647-58.
12. Hersch SM, etal., J Neurosci. 1994 May;14(5 Pt 2):3351-63.
13. Hoover DB and Neely DA, J Pharmacol Exp Ther. 1997 Sep;282(3):1337-44.
14. Limke TL, etal., Toxicol Sci. 2004 Jul;80(1):60-8. Epub 2004 May 12.
15. Lin LH, etal., Eur J Pharmacol. 2008 Apr 28;584(2-3):398-404. Epub 2008 Feb 19.
16. MGD data from the GO Consortium
17. NCBI rat LocusLink and RefSeq merged data July 26, 2002
18. OMIM Disease Annotation Pipeline
19. Pfaffendorf M and Van Zwieten PA, Br J Pharmacol. 1993 Jan;108(1):132-8.
20. Pipeline to import KEGG annotations from KEGG into RGD
21. Pipeline to import SMPDB annotations from SMPDB into RGD
22. RGD automated data pipeline
23. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
24. RGD automated import pipeline for gene-chemical interactions
25. Selivanova PA, etal., J Asthma. 2010 Apr;47(3):269-75.
26. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
27. Thiele A Annu Rev Neurosci. 2013 Jul 8;36:271-94. doi: 10.1146/annurev-neuro-062012-170433.
28. Tseng J, etal., Hear Res 2002 Dec;174(1-2):86-92.
29. Wess J, etal., J Biol Chem. 1992 Sep 25;267(27):19313-9.
30. Yamada M, etal., Nature 2001 Mar 8;410(6825):207-12.
31. Yazawa H and Honda K, Jpn J Pharmacol. 1993 Apr;61(4):319-24.
32. Zhang S, etal., Anticancer Res. 2010 Jan;30(1):97-106.
Additional References at PubMed
PMID:1657592   PMID:2380182   PMID:3272174   PMID:9972520   PMID:10944224   PMID:12925702   PMID:14766941   PMID:15062561   PMID:15350825   PMID:15572356   PMID:15870064   PMID:16093246  
PMID:16709645   PMID:17065150   PMID:17478539   PMID:17596535   PMID:17845913   PMID:18237275   PMID:18246091   PMID:18938154   PMID:19111904   PMID:19160866   PMID:19416629   PMID:19473345  
PMID:19494196   PMID:19554469   PMID:19627722   PMID:19666081   PMID:19685039   PMID:19741053   PMID:19779020   PMID:20445960   PMID:20541544   PMID:20600670   PMID:20655720   PMID:21054404  
PMID:21056967   PMID:21126518   PMID:21543213   PMID:21913336   PMID:22031716   PMID:22141271   PMID:22358844   PMID:22396777   PMID:22513211   PMID:22990911   PMID:23184186   PMID:24028210  
PMID:24866457   PMID:25417050   PMID:25474381   PMID:25681120   PMID:25891767   PMID:25920933   PMID:26033578   PMID:26626425   PMID:27858307   PMID:30354759   PMID:32534071  


Genomics

Candidate Gene Status
Chrm3 is a candidate Gene for QTL Cm15
Comparative Map Data
Chrm3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21760,005,137 - 60,467,250 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1760,005,202 - 60,467,278 (+)Ensembl
Rnor_6.01763,990,599 - 64,463,222 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1763,990,599 - 63,994,169 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01765,753,665 - 66,217,211 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41771,214,906 - 71,218,463 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11771,081,449 - 71,229,296 (+)NCBI
Celera1760,109,356 - 60,562,246 (-)NCBICelera
Cytogenetic Map17q12.1NCBI
CHRM3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1239,386,565 - 239,915,452 (+)EnsemblGRCh38hg38GRCh38
GRCh381239,386,565 - 239,915,450 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371239,549,868 - 240,078,750 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361237,858,996 - 238,139,343 (+)NCBINCBI36hg18NCBI36
Build 341236,118,413 - 236,398,756NCBI
Celera1213,047,986 - 213,328,202 (+)NCBI
Cytogenetic Map1q43NCBI
HuRef1210,250,783 - 210,531,551 (+)NCBIHuRef
CHM1_11241,065,995 - 241,346,299 (+)NCBICHM1_1
Chrm3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39139,925,522 - 10,411,131 (-)NCBIGRCm39mm39
GRCm39 Ensembl139,925,522 - 10,410,883 (-)Ensembl
GRCm38139,875,486 - 10,361,062 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl139,875,486 - 10,360,847 (-)EnsemblGRCm38mm10GRCm38
MGSCv37139,875,859 - 10,360,049 (-)NCBIGRCm37mm9NCBIm37
MGSCv36139,875,859 - 10,360,049 (-)NCBImm8
Celera139,820,205 - 10,316,018 (-)NCBICelera
Cytogenetic Map13A1NCBI
cM Map133.72NCBI
Chrm3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955492958,949 - 960,721 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955492958,347 - 1,429,832 (-)NCBIChiLan1.0ChiLan1.0
CHRM3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11219,927,079 - 220,446,830 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01214,931,514 - 215,452,739 (+)NCBIMhudiblu_PPA_v0panPan3
CHRM3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.14504,663 - 999,550 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl4506,990 - 520,613 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha4547,625 - 1,042,706 (-)NCBI
ROS_Cfam_1.04528,395 - 1,026,611 (-)NCBI
UMICH_Zoey_3.14522,413 - 1,023,728 (-)NCBI
UNSW_CanFamBas_1.04628,064 - 1,134,213 (-)NCBI
UU_Cfam_GSD_1.04882,752 - 1,377,924 (-)NCBI
Chrm3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934437,787,915 - 38,208,967 (-)NCBI
SpeTri2.0NW_00493648413,953,141 - 14,373,174 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHRM3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1451,828,052 - 51,830,077 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11451,818,625 - 52,363,662 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21455,361,402 - 55,363,168 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHRM3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12576,772,212 - 77,009,433 (+)NCBI
ChlSab1.1 Ensembl2577,001,477 - 77,003,249 (+)Ensembl
Vero_WHO_p1.0NW_02366605578,598,053 - 79,113,674 (+)NCBI
Chrm3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477510,948,075 - 11,427,898 (-)NCBI

Position Markers
D17Mit4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21760,463,412 - 60,463,643 (-)MAPPERmRatBN7.2
Rnor_6.01763,994,205 - 63,994,435NCBIRnor6.0
Rnor_5.01765,757,271 - 65,757,501UniSTSRnor5.0
RGSC_v3.41771,214,626 - 71,214,857RGDRGSC3.4
RGSC_v3.41771,214,627 - 71,214,857UniSTSRGSC3.4
RGSC_v3.11771,225,459 - 71,225,690RGD
Celera1760,112,962 - 60,113,192UniSTS
RH 3.4 Map17559.3UniSTS
RH 3.4 Map17559.3RGD
RH 2.0 Map17498.3RGD
Cytogenetic Map17q12.1UniSTS
D17Arb7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21760,463,405 - 60,463,642 (-)MAPPERmRatBN7.2
Rnor_6.01763,994,206 - 63,994,442NCBIRnor6.0
Rnor_5.01765,757,272 - 65,757,508UniSTSRnor5.0
RGSC_v3.41771,214,619 - 71,214,856RGDRGSC3.4
RGSC_v3.41771,214,620 - 71,214,856UniSTSRGSC3.4
RGSC_v3.11771,225,452 - 71,225,689RGD
Celera1760,112,963 - 60,113,199UniSTS
SHRSP x BN Map1732.6199UniSTS
SHRSP x BN Map1732.6199RGD
Cytogenetic Map17q12.1UniSTS
D17Wox12  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21760,463,500 - 60,463,637 (-)MAPPERmRatBN7.2
Rnor_6.01763,994,211 - 63,994,347NCBIRnor6.0
Rnor_5.01765,757,277 - 65,757,413UniSTSRnor5.0
RGSC_v3.41771,214,714 - 71,214,851RGDRGSC3.4
RGSC_v3.41771,214,715 - 71,214,851UniSTSRGSC3.4
RGSC_v3.11771,225,547 - 71,225,684RGD
Celera1760,112,968 - 60,113,104UniSTS
RH 3.4 Map17559.0UniSTS
RH 3.4 Map17559.0RGD
RH 2.0 Map17514.1RGD
Cytogenetic Map17q12.1UniSTS
D17Wox13  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21760,463,483 - 60,463,633 (-)MAPPERmRatBN7.2
Rnor_6.01763,994,215 - 63,994,364NCBIRnor6.0
Rnor_5.01765,757,281 - 65,757,430UniSTSRnor5.0
RGSC_v3.41771,214,697 - 71,214,847RGDRGSC3.4
RGSC_v3.41771,214,698 - 71,214,847UniSTSRGSC3.4
RGSC_v3.11771,225,530 - 71,225,680RGD
Celera1760,112,972 - 60,113,121UniSTS
RH 2.0 Map17511.6RGD
Cytogenetic Map17q12.1UniSTS
D17Wox1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,465,698 - 5,465,879 (+)MAPPERmRatBN7.2
Rnor_6.0175,841,679 - 5,841,859NCBIRnor6.0
Rnor_5.0178,064,007 - 8,064,187UniSTSRnor5.0
RGSC_v3.41711,399,694 - 11,399,874UniSTSRGSC3.4
RGSC_v3.11711,399,693 - 11,399,874RGD
Celera175,580,639 - 5,580,819UniSTS
RH 3.4 Map1774.1UniSTS
RH 3.4 Map1774.1RGD
Cytogenetic Map17p14UniSTS
Cytogenetic Map17q12.1UniSTS
D17Mit4  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01763,994,206 - 63,994,435NCBIRnor6.0
Rnor_5.01765,757,272 - 65,757,501UniSTSRnor5.0
RGSC_v3.41771,214,627 - 71,214,856UniSTSRGSC3.4
Celera1760,112,963 - 60,113,192UniSTS
Cytogenetic Map17q12.1UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
1354640Scl32Serum cholesterol level QTL 325.4blood HDL cholesterol amount (VT:0000184)blood high density lipoprotein cholesterol level (CMO:0000052)171578159260781592Rat
1354659Scl68Serum cholesterol level QTL 683.9blood VLDL cholesterol amount (VT:0005144)blood very low density lipoprotein cholesterol level (CMO:0000648)171578159260781592Rat
7394837Memor18Memory QTL 18exploratory behavior trait (VT:0010471)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)171864018263640182Rat
1354628Stl13Serum triglyceride level QTL 133.8blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)172129303960781592Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172365318468653184Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172365318468653184Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172365318468653184Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172365318468653184Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318468653184Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172365318470974005Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172459934069599340Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172702794960463643Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat
10450503Bp386Blood pressure QTL 3860.28arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173136839162109574Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173136839173951021Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173199078476990784Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173455084373951021Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173583708569599340Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat
2317054Aia12Adjuvant induced arthritis QTL 124.24joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)173828150983281509Rat
2317060Aia26Adjuvant induced arthritis QTL 263.22joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)173828150983281509Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174054004180387013Rat
1358295Aocep1Aortic cell protein QTL 16.10.00000071thoracic aorta cellular protein amount (VT:0010598)aortic cell percentage174099000585990005Rat
631497Bp98Blood pressure QTL 983.66arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)174135465160463643Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)174207316069599340Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)174207316069599340Rat
7411575Bw140Body weight QTL 14030.20.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
8694181Bw151Body weight QTL 1514.360.001body mass (VT:0001259)body weight gain (CMO:0000420)174856093586533673Rat
2317038Ginf3Gastrointestinal inflammation QTL 32.890.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)174992015486533673Rat
2303580Gluco49Glucose level QTL 492blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)175004027186533673Rat
1354629Scl31Serum cholesterol level QTL 314.1blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)175089090860781592Rat
1354654Spl7Serum phospholipid level QTL 75.5blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)175089090860781592Rat
4889894Eae33Experimental allergic encephalomyelitis QTL 335.20.0001nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)175090909986022412Rat
2317053Aia25Adjuvant induced arthritis QTL 252.69joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)175090919660781426Rat
1354588Bvd4Brain ventricular dilatation QTL 45.310.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)175349882882479847Rat
61466Niddm12Non-insulin dependent diabetes mellitus QTL 123.20.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)175402992960463637Rat
70210Cm15Cardiac mass QTL 156.5heart right ventricle mass (VT:0007033)heart right ventricle wet weight (CMO:0000072)175724672370156904Rat
1600398Edcs5Endometrial carcinoma susceptibility QTL 52.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)175724672370852846Rat
2302365Gluco40Glucose level QTL 404.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)175724684382046127Rat
7488963Bp369Blood pressure QTL 3690.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)175900564977910000Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:116
Count of miRNA genes:98
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000075651
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


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 37 1
Low 3 11 14 6 10 6 1 31 35 29 9
Below cutoff 32 37 31 7 31 8 10 6 8 2 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075651   ⟹   ENSRNOP00000067435
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1760,439,032 - 60,467,278 (+)Ensembl
Rnor_6.0 Ensembl1763,990,599 - 63,994,169 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102670   ⟹   ENSRNOP00000090085
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1760,005,202 - 60,467,278 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000103154   ⟹   ENSRNOP00000090433
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1760,005,202 - 60,467,278 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000107962   ⟹   ENSRNOP00000086603
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1760,005,202 - 60,467,278 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113544   ⟹   ENSRNOP00000087869
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1760,005,259 - 60,467,278 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118676   ⟹   ENSRNOP00000080306
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1760,005,202 - 60,467,278 (+)Ensembl
RefSeq Acc Id: NM_012527   ⟹   NP_036659
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21760,005,505 - 60,467,249 (+)NCBI
Rnor_6.01763,990,599 - 64,463,222 (-)NCBI
Rnor_5.01765,753,665 - 66,217,211 (-)NCBI
RGSC_v3.41771,214,906 - 71,218,463 (+)RGD
Celera1760,109,356 - 60,562,246 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600449   ⟹   XP_017455938
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21760,005,137 - 60,467,250 (+)NCBI
Rnor_6.01763,990,603 - 64,462,985 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600451   ⟹   XP_017455940
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21760,360,801 - 60,467,250 (+)NCBI
Rnor_6.01763,990,603 - 64,095,891 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039095336   ⟹   XP_038951264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21760,005,137 - 60,467,250 (+)NCBI
RefSeq Acc Id: XM_039095337   ⟹   XP_038951265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21760,005,137 - 60,467,250 (+)NCBI
RefSeq Acc Id: XM_039095338   ⟹   XP_038951266
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21760,125,139 - 60,467,250 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_036659   ⟸   NM_012527
- UniProtKB: P08483 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017455938   ⟸   XM_017600449
- Peptide Label: isoform X1
- UniProtKB: P08483 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017455940   ⟸   XM_017600451
- Peptide Label: isoform X1
- UniProtKB: P08483 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067435   ⟸   ENSRNOT00000075651
RefSeq Acc Id: XP_038951265   ⟸   XM_039095337
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951264   ⟸   XM_039095336
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951266   ⟸   XM_039095338
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000090085   ⟸   ENSRNOT00000102670
RefSeq Acc Id: ENSRNOP00000087869   ⟸   ENSRNOT00000113544
RefSeq Acc Id: ENSRNOP00000090433   ⟸   ENSRNOT00000103154
RefSeq Acc Id: ENSRNOP00000086603   ⟸   ENSRNOT00000107962
RefSeq Acc Id: ENSRNOP00000080306   ⟸   ENSRNOT00000118676

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)
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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
LH/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
LL/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
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)
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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
MR/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
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)
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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
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)
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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/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2343 AgrOrtholog
Ensembl Genes ENSRNOG00000049410 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000067435 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000075651 UniProtKB/Swiss-Prot
InterPro GPCR_Rhodpsn UniProtKB/Swiss-Prot
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot
  Musac_Ach_M3_rcpt UniProtKB/Swiss-Prot
  Musac_Ach_rcpt UniProtKB/Swiss-Prot
KEGG Report rno:24260 UniProtKB/Swiss-Prot
NCBI Gene 24260 ENTREZGENE
Pfam 7tm_1 UniProtKB/Swiss-Prot
PharmGKB CHRM3 RGD
PhenoGen Chrm3 PhenoGen
PRINTS GPCRRHODOPSN UniProtKB/Swiss-Prot
  MUSCARINICR UniProtKB/Swiss-Prot
  MUSCRINICM3R UniProtKB/Swiss-Prot
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/Swiss-Prot
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot
SMART 7TM_GPCR_Srsx UniProtKB/Swiss-Prot
UniProt ACM3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q9QWK9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-25 Chrm3  cholinergic receptor, muscarinic 3  Chrm3  cholinergic receptor, muscarinic 3, cardiac  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Chrm3  cholinergic receptor, muscarinic 3, cardiac  Chrm3  cholinergic receptor, muscarinic 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Chrm3  cholinergic receptor, muscarinic 3      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function G protein-coupled receptor  
gene_process controls smooth muscle contraction and secretion in glandular tissue  
gene_process acts with M2 receptor to control smooth muscle contraction in the bladder 724728