Ntrk3 (neurotrophic receptor tyrosine kinase 3) - Rat Genome Database

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Gene: Ntrk3 (neurotrophic receptor tyrosine kinase 3) Rattus norvegicus
Analyze
Symbol: Ntrk3
Name: neurotrophic receptor tyrosine kinase 3
RGD ID: 3214
Description: Enables GPI-linked ephrin receptor activity. Involved in several processes, including cellular response to retinoic acid; generation of neurons; and regulation of synapse assembly. Located in cytoplasm and plasma membrane. Is active in glutamatergic synapse. Is integral component of postsynaptic membrane. Human ortholog(s) of this gene implicated in adenoid cystic carcinoma; colorectal cancer; and stomach cancer. Orthologous to human NTRK3 (neurotrophic receptor tyrosine kinase 3); PARTICIPATES IN neurotrophic factor signaling pathway; INTERACTS WITH (+)-pilocarpine; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: GP145-TrkC; neural receptor protein-tyrosine kinase; neural receptor protein-tyrosine kinase (trkC); neurotrophic tyrosine kinase receptor type 3; neurotrophic tyrosine kinase, receptor, type 3; NT-3 growth factor receptor; trk-C; trkC; trkC tyrosine kinase
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
mRatBN7.21132,116,472 - 132,503,849 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1132,132,849 - 132,503,286 (-)Ensembl
Rnor_6.01139,890,537 - 140,262,503 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1139,890,560 - 140,262,503 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01140,868,261 - 141,239,954 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41133,925,530 - 134,302,139 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11134,003,872 - 134,380,482 (-)NCBI
Celera1124,206,109 - 124,576,015 (-)NCBICelera
Cytogenetic Map1q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
3,4-methylenedioxymethamphetamine  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
belinostat  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
Butylparaben  (EXP)
C60 fullerene  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
calcium silicate  (ISO)
chlorpyrifos  (EXP)
choline  (ISO)
cisplatin  (ISO)
corticosterone  (EXP)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dieldrin  (EXP)
doxorubicin  (ISO)
enzacamene  (EXP)
ethyl methanesulfonate  (ISO)
folic acid  (ISO)
fonofos  (ISO)
fulvestrant  (ISO)
L-methionine  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (EXP)
nickel atom  (EXP,ISO)
nitrofen  (EXP)
paracetamol  (EXP,ISO)
parathion  (ISO)
pentobarbital  (EXP)
phenobarbital  (EXP)
ponatinib  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
sarin  (ISO)
scopolamine  (EXP)
silicon dioxide  (ISO)
terbufos  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
triclosan  (ISO)
trimethyltin  (ISO)
triptonide  (ISO)
valproic acid  (EXP,ISO)
venlafaxine hydrochloride  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of GTPase activity  (ISO)
activation of protein kinase B activity  (ISO)
axon extension involved in regeneration  (ISO)
cellular response to nerve growth factor stimulus  (IBA)
cellular response to retinoic acid  (IEP)
circadian rhythm  (ISO)
cochlea development  (IEP)
ephrin receptor signaling pathway  (IEA)
heart development  (ISO,ISS)
lens fiber cell differentiation  (ISO)
mechanoreceptor differentiation  (ISO)
modulation by virus of host transcription  (IEP)
myelination in peripheral nervous system  (ISO)
negative regulation of astrocyte differentiation  (IMP)
negative regulation of cell death  (IMP)
negative regulation of protein phosphorylation  (ISO)
neuron fate specification  (IMP)
neuron migration  (IMP)
neuronal action potential propagation  (ISO)
neurotrophin signaling pathway  (IEA)
peptidyl-tyrosine phosphorylation  (IEA)
positive regulation of actin cytoskeleton reorganization  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of axon extension involved in regeneration  (ISO)
positive regulation of cell migration  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of ERK1 and ERK2 cascade  (IBA)
positive regulation of gene expression  (ISO)
positive regulation of kinase activity  (IBA)
positive regulation of MAP kinase activity  (ISO)
positive regulation of neuron projection development  (IBA,IDA)
positive regulation of peptidyl-serine phosphorylation  (ISO)
positive regulation of phosphatidylinositol 3-kinase signaling  (IBA)
positive regulation of positive chemotaxis  (ISO)
positive regulation of synapse assembly  (ISO)
regulation of postsynaptic density assembly  (EXP,IDA)
regulation of presynapse assembly  (IDA,IMP)
regulation of protein kinase B signaling  (IBA)
response to axon injury  (IEP)
response to corticosterone  (IEP)
response to ethanol  (IEP)
transmembrane receptor protein serine/threonine kinase signaling pathway  (IEA)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Behrouz Sharif S, etal., Oncol Lett. 2016 Dec;12(6):5335-5343. doi: 10.3892/ol.2016.5327. Epub 2016 Oct 31.
2. Bu JY, etal., Int J Biol Macromol. 2019 Feb 15;123:1106-1114. doi: 10.1016/j.ijbiomac.2018.11.162. Epub 2018 Nov 17.
3. Castellanos DA, etal., Cell Transplant. 2002;11(3):297-307.
4. Chen Z, etal., J Transl Med. 2021 Feb 16;19(1):73. doi: 10.1186/s12967-021-02740-6.
5. Cheung ZH, etal., PLoS Biol. 2007 Apr;5(4):e63.
6. Fernyhough P, etal., Diabetologia. 1998 Mar;41(3):300-6.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Gestwa G, etal., J Comp Neurol. 1999 Nov 8;414(1):33-49.
9. Ghinelli E, etal., Invest Ophthalmol Vis Sci. 2003 Aug;44(8):3352-7.
10. Hajebrahimi Z, etal., Neurosci Lett. 2008 Aug 29;441(3):261-6. Epub 2008 Jun 21.
11. He Z, etal., J Neurosci. 2012 Jul 4;32(27):9383-95. doi: 10.1523/JNEUROSCI.6363-11.2012.
12. Huang SH, etal., J Neurosci. 2011 Jul 20;31(29):10602-14. doi: 10.1523/JNEUROSCI.0436-11.2011.
13. Ivanov SV, etal., Oncogene. 2013 Aug 8;32(32):3698-710. doi: 10.1038/onc.2012.377. Epub 2012 Oct 1.
14. Jin W, etal., Carcinogenesis. 2010 Nov;31(11):1939-47. doi: 10.1093/carcin/bgq180. Epub 2010 Aug 28.
15. Kuo LT, etal., Neuroscience. 2007 Jun 29;147(2):491-507. Epub 2007 May 29.
16. Light KE, etal., Brain Res. 2002 Jan 4;924(1):71-81.
17. Marler KJ, etal., J Neurosci. 2008 Nov 26;28(48):12700-12. doi: 10.1523/JNEUROSCI.1915-08.2008.
18. Merlio JP, etal., Neuroscience 1992 Dec;51(3):513-32.
19. MGD data from the GO Consortium
20. Miknyoczki SJ, etal., Int J Cancer. 1999 May 5;81(3):417-27.
21. Moqrich A, etal., Nat Neurosci. 2004 Aug;7(8):812-8. Epub 2004 Jul 11.
22. NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Nilsson E, etal., Reproduction. 2009 Oct;138(4):697-707. doi: 10.1530/REP-09-0179. Epub 2009 Jul 7.
24. Pipeline to import KEGG annotations from KEGG into RGD
25. Rabin SJ, etal., J Biol Chem 2002 Dec 20;277(51):49466-72.
26. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
27. RGD automated import pipeline for gene-chemical interactions
28. Robinson KN, etal., J Biol Chem. 2005 Jan 7;280(1):225-35. Epub 2004 Oct 28.
29. Roskoden T, etal., Exp Brain Res. 2004 Jan;154(2):183-91. Epub 2003 Oct 14.
30. Sakamoto Y, etal., Oncol Rep. 2001 May-Jun;8(3):477-84.
31. Seo HS, etal., J Agric Food Chem. 2008 Jun 25;56(12):4665-73. Epub 2008 Jun 3.
32. Simon M, etal., Neurosci Lett 2002 Mar 1;320(1-2):9-12.
33. Takahashi H, etal., Neuron. 2011 Jan 27;69(2):287-303. doi: 10.1016/j.neuron.2010.12.024.
34. Takahashi J, etal., J Neurobiol. 1999 Jan;38(1):65-81.
35. Valenzuela DM, etal., Neuron 1993 May;10(5):963-74.
36. Wood LD, etal., Hum Mutat. 2006 Oct;27(10):1060-1.
37. Zocher M, etal., J Neurovirol. 2000 Dec;6(6):462-77.
Additional References at PubMed
PMID:8494648   PMID:9856458   PMID:10207144   PMID:10486198   PMID:10908605   PMID:11248116   PMID:12471037   PMID:12477932   PMID:12605901   PMID:12858046   PMID:12882335   PMID:12944916  
PMID:14499950   PMID:15304335   PMID:15376326   PMID:16142215   PMID:17072373   PMID:17316612   PMID:17584746   PMID:17686986   PMID:17967490   PMID:18957307   PMID:19141250   PMID:19549834  
PMID:20553714   PMID:21221027   PMID:21441969   PMID:21456016   PMID:21783247   PMID:23136392   PMID:23382219   PMID:23785138   PMID:23954828   PMID:24198040   PMID:24316227   PMID:24484474  
PMID:24613359   PMID:24753016   PMID:25196463   PMID:25398493   PMID:25624497   PMID:27830679   PMID:28614398   PMID:34970951  


Genomics

Candidate Gene Status
Ntrk3 is a candidate Gene for QTL Bp138
Comparative Map Data
Ntrk3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21132,116,472 - 132,503,849 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1132,132,849 - 132,503,286 (-)Ensembl
Rnor_6.01139,890,537 - 140,262,503 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1139,890,560 - 140,262,503 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01140,868,261 - 141,239,954 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41133,925,530 - 134,302,139 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11134,003,872 - 134,380,482 (-)NCBI
Celera1124,206,109 - 124,576,015 (-)NCBICelera
Cytogenetic Map1q31NCBI
NTRK3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381587,859,751 - 88,256,739 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1587,859,751 - 88,256,791 (-)EnsemblGRCh38hg38GRCh38
GRCh371588,402,982 - 88,799,970 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361586,220,992 - 86,600,665 (-)NCBINCBI36hg18NCBI36
Build 341586,220,991 - 86,600,665NCBI
Celera1564,821,267 - 65,200,916 (-)NCBI
Cytogenetic Map15q25.3NCBI
HuRef1564,532,241 - 64,911,404 (-)NCBIHuRef
CHM1_11588,261,800 - 88,641,816 (-)NCBICHM1_1
Ntrk3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39777,825,711 - 78,228,865 (-)NCBIGRCm39mm39
GRCm39 Ensembl777,825,707 - 78,387,760 (-)Ensembl
GRCm38778,179,986 - 78,581,034 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl778,175,959 - 78,738,012 (-)EnsemblGRCm38mm10GRCm38
MGSCv37785,337,000 - 85,722,724 (-)NCBIGRCm37mm9NCBIm37
MGSCv36778,066,072 - 78,451,488 (-)NCBImm8
Celera775,610,791 - 75,991,488 (-)NCBICelera
Cytogenetic Map7D2NCBI
cM Map744.01NCBI
Ntrk3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541616,652,791 - 17,018,188 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541616,652,931 - 17,018,188 (+)NCBIChiLan1.0ChiLan1.0
NTRK3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11585,776,819 - 86,157,209 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1585,776,832 - 86,157,204 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01566,566,219 - 66,953,279 (-)NCBIMhudiblu_PPA_v0panPan3
NTRK3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1351,131,470 - 51,491,112 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl351,138,751 - 51,513,024 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha353,770,192 - 54,150,627 (-)NCBI
ROS_Cfam_1.0351,548,386 - 51,933,727 (-)NCBI
ROS_Cfam_1.0 Ensembl351,554,220 - 51,933,726 (-)Ensembl
UMICH_Zoey_3.1351,071,744 - 51,456,495 (-)NCBI
UNSW_CanFamBas_1.0351,281,270 - 51,665,830 (-)NCBI
UU_Cfam_GSD_1.0351,620,674 - 52,005,592 (-)NCBI
Ntrk3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640132,042,602 - 132,426,830 (+)NCBI
SpeTri2.0NW_00493648313,912,904 - 14,291,881 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NTRK3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1191,535,300 - 191,925,353 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11191,535,262 - 191,941,675 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21212,938,371 - 213,258,768 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NTRK3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1296,441,824 - 6,831,029 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl296,447,256 - 6,830,526 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605940,018,915 - 40,410,728 (+)NCBIVero_WHO_p1.0
Ntrk3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476815,239,111 - 15,619,979 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D1Uia12  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21132,214,399 - 132,214,546 (+)MAPPERmRatBN7.2
Rnor_6.01139,972,085 - 139,972,231NCBIRnor6.0
Rnor_5.01140,949,643 - 140,949,789UniSTSRnor5.0
RGSC_v3.41134,007,903 - 134,008,050RGDRGSC3.4
RGSC_v3.41134,007,904 - 134,008,050UniSTSRGSC3.4
RGSC_v3.11134,086,246 - 134,086,393RGD
Celera1124,287,809 - 124,287,955UniSTS
Cytogenetic Map1q31UniSTS
D1Mco67  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21132,256,726 - 132,256,925 (+)MAPPERmRatBN7.2
Rnor_6.01140,014,403 - 140,014,601NCBIRnor6.0
Rnor_5.01140,992,120 - 140,992,318UniSTSRnor5.0
RGSC_v3.41134,051,455 - 134,051,653UniSTSRGSC3.4
Celera1124,330,125 - 124,330,323UniSTS
Cytogenetic Map1q31UniSTS
BE106688  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21132,132,876 - 132,133,043 (+)MAPPERmRatBN7.2
Rnor_6.01139,890,565 - 139,890,731NCBIRnor6.0
Rnor_5.01140,868,289 - 140,868,455UniSTSRnor5.0
RGSC_v3.41133,925,533 - 133,925,699UniSTSRGSC3.4
Celera1124,206,137 - 124,206,303UniSTS
RH 3.4 Map11053.3UniSTS
Cytogenetic Map1q31UniSTS
Ntrk3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21132,383,823 - 132,383,927 (+)MAPPERmRatBN7.2
Rnor_6.01140,141,474 - 140,141,577NCBIRnor6.0
Rnor_5.01141,118,729 - 141,118,832UniSTSRnor5.0
RGSC_v3.41134,180,066 - 134,180,169UniSTSRGSC3.4
Celera1124,456,732 - 124,456,835UniSTS
Cytogenetic Map1q31UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)187580395150700247Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1300153Bp171Blood pressure QTL 1713.37arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)190664883143200202Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192184926137184926Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)192948896144267916Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
61346Rf2Renal disease susceptibility QTL 23.7urine protein amount (VT:0005160)urine protein level (CMO:0000591)199267916144267916Rat
61399Tcat1Tongue tumor resistance QTL 13.3tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 5 mm (CMO:0001879)199267916144267916Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
2317833Alcrsp19Alcohol response QTL 1912.40.001response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
1641897Alcrsp1Alcohol response QTL 1response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
2303591Gluco41Glucose level QTL 412blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1102168504147168504Rat
61370Mcs3Mammary carcinoma susceptibility QTL 32.15mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1102268556147268556Rat
1354623Rf46Renal function QTL 463.8blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)1102813953151162766Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
9590300Scort16Serum corticosterone level QTL 164.390.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1103111621148111621Rat
8694370Bw154Body weight QTL 1548.910.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)1103111621148111621Rat
631496Bp97Blood pressure QTL 973.08arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847151047847Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
2313060Bss71Bone structure and strength QTL 712.60.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1118944747163944747Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
1598850Bp297Blood pressure QTL 2972.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
2293140Bp313Blood pressure QTL 313arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121833674166833674Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
631570Bp94Blood pressure QTL 940.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123479780142990467Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
631202Gluco13Glucose level QTL 130.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1131763437159756369Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:613
Count of miRNA genes:207
Interacting mature miRNAs:231
Transcripts:ENSRNOT00000025536, ENSRNOT00000041839, ENSRNOT00000045165, ENSRNOT00000046080, ENSRNOT00000046849, ENSRNOT00000047776
Prediction methods:Microtar, 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 4 1 64 10 1
Low 1 36 17 5 17 5 8 8 10 33 31 10 8
Below cutoff 2 7 23 23 1 23 2 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_019248 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008759513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109631 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC078844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L03813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L14445 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L14446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L14447 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S60953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S62924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  S62933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000025536   ⟹   ENSRNOP00000025536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,234,519 - 132,503,286 (-)Ensembl
Rnor_6.0 Ensembl1139,992,204 - 140,262,452 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000041839   ⟹   ENSRNOP00000046059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,132,849 - 132,503,286 (-)Ensembl
Rnor_6.0 Ensembl1139,890,560 - 140,262,503 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000045165   ⟹   ENSRNOP00000049463
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,132,849 - 132,503,286 (-)Ensembl
Rnor_6.0 Ensembl1139,890,715 - 140,262,452 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000046849   ⟹   ENSRNOP00000044402
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,132,849 - 132,503,286 (-)Ensembl
Rnor_6.0 Ensembl1139,890,715 - 140,262,452 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110436   ⟹   ENSRNOP00000094926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,234,193 - 132,503,286 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114826   ⟹   ENSRNOP00000096233
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,260,318 - 132,503,286 (-)Ensembl
RefSeq Acc Id: NM_001270655   ⟹   NP_001257584
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,132,849 - 132,503,286 (-)NCBI
Rnor_6.01139,890,537 - 140,262,503 (-)NCBI
Rnor_5.01140,868,261 - 141,239,954 (-)NCBI
Celera1124,206,109 - 124,576,015 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001270656   ⟹   NP_001257585
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,132,849 - 132,503,286 (-)NCBI
Rnor_6.01139,890,537 - 140,262,503 (-)NCBI
Rnor_5.01140,868,261 - 141,239,954 (-)NCBI
Celera1124,206,109 - 124,576,015 (-)NCBI
Sequence:
RefSeq Acc Id: NM_019248   ⟹   NP_062121
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,132,849 - 132,503,286 (-)NCBI
Rnor_6.01139,890,537 - 140,262,503 (-)NCBI
Rnor_5.01140,868,261 - 141,239,954 (-)NCBI
RGSC_v3.41133,925,530 - 134,302,139 (-)RGD
Celera1124,206,109 - 124,576,015 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008759513   ⟹   XP_008757735
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,232,568 - 132,503,829 (-)NCBI
Rnor_6.01139,990,256 - 140,262,498 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017589061   ⟹   XP_017444550
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,116,472 - 132,503,831 (-)NCBI
Rnor_6.01139,890,538 - 140,262,498 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109624   ⟹   XP_038965552
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,116,472 - 132,503,849 (-)NCBI
RefSeq Acc Id: XM_039109631   ⟹   XP_038965559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,190,886 - 132,503,829 (-)NCBI
RefSeq Acc Id: XM_039109638   ⟹   XP_038965566
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21132,189,358 - 132,503,829 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_062121   ⟸   NM_019248
- Peptide Label: isoform 3 precursor
- UniProtKB: Q03351 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257584   ⟸   NM_001270655
- Peptide Label: isoform 2 precursor
- UniProtKB: Q03351 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257585   ⟸   NM_001270656
- Peptide Label: isoform 1 precursor
- UniProtKB: Q03351 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008757735   ⟸   XM_008759513
- Peptide Label: isoform X4
- UniProtKB: Q68G04 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017444550   ⟸   XM_017589061
- Peptide Label: isoform X2
- UniProtKB: Q03351 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000049463   ⟸   ENSRNOT00000045165
RefSeq Acc Id: ENSRNOP00000046059   ⟸   ENSRNOT00000041839
RefSeq Acc Id: ENSRNOP00000044402   ⟸   ENSRNOT00000046849
RefSeq Acc Id: ENSRNOP00000025536   ⟸   ENSRNOT00000025536
RefSeq Acc Id: XP_038965552   ⟸   XM_039109624
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965566   ⟸   XM_039109638
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038965559   ⟸   XM_039109631
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000094926   ⟸   ENSRNOT00000110436
RefSeq Acc Id: ENSRNOP00000096233   ⟸   ENSRNOT00000114826
Protein Domains
Ig-like   Ig-like C2-type   LRRCT   Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q03351-F1-model_v2 AlphaFold Q03351 1-864 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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
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
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
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
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
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
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
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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
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
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
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
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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
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
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
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
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
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
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 140142739 140142740 T C snv GH/OmrMcwi (MCW)


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 141119994 141119995 T C snv GH/OmrMcwi (MCW)


Assembly: RGSC_v3.4
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
1 134181331 134181332 T C snv GH/OmrMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3214 AgrOrtholog
BioCyc Gene G2FUF-58842 BioCyc
Ensembl Genes ENSRNOG00000018674 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000025536 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000044402 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000046059 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000049463 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000096233 ENTREZGENE
Ensembl Transcript ENSRNOT00000025536 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000041839 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000045165 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000046849 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000114826 ENTREZGENE
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7121171 IMAGE-MGC_LOAD
InterPro Cys-rich_flank_reg_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Immunoglobulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  Leu-rich_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NTRK_C2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/Swiss-Prot
  Tyr_kin_neurotrophic_rcpt_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/Swiss-Prot
  Tyr_kinase_cat_dom UniProtKB/Swiss-Prot
  Tyr_kinase_NGF_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_rcpt_2_CS UniProtKB/Swiss-Prot
KEGG Report rno:29613 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93481 IMAGE-MGC_LOAD
NCBI Gene 29613 ENTREZGENE
Pfam I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00047 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/Swiss-Prot
  TPKR_C2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ntrk3 PhenoGen
PRINTS NTKRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NTKRECEPTOR3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYRKINASE UniProtKB/Swiss-Prot
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_TYR UniProtKB/Swiss-Prot
  RECEPTOR_TYR_KIN_II UniProtKB/Swiss-Prot
SMART LRRCT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TyrKc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56112 UniProtKB/Swiss-Prot
UniProt NTRK3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q68G04 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-14 Ntrk3  neurotrophic receptor tyrosine kinase 3  Ntrk3  neurotrophic tyrosine kinase, receptor, type 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Ntrk3  neurotrophic tyrosine kinase, receptor, type 3    neural receptor protein-tyrosine kinase  Name updated 1299863 APPROVED
2002-06-10 Ntrk3  neural receptor protein-tyrosine kinase      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_regulation activated by GM1 gangliosides 727459
gene_transcript multiple alternative splice forms exist and may have different functional capabilities 729049