Ntrk2 (neurotrophic receptor tyrosine kinase 2) - Rat Genome Database

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Gene: Ntrk2 (neurotrophic receptor tyrosine kinase 2) Rattus norvegicus
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Symbol: Ntrk2
Name: neurotrophic receptor tyrosine kinase 2
RGD ID: 3213
Description: Enables several functions, including brain-derived neurotrophic factor binding activity; brain-derived neurotrophic factor receptor activity; and protein homodimerization activity. Involved in several processes, including brain-derived neurotrophic factor receptor signaling pathway; positive regulation of cell communication; and regulation of neuron projection development. Acts upstream of or within positive regulation of glucocorticoid receptor signaling pathway. Located in several cellular components, including distal axon; perikaryon; and postsynaptic density. Is integral component of plasma membrane. Is active in glutamatergic synapse and postsynapse. Used to study glaucoma. Biomarker of several diseases, including attention deficit hyperactivity disorder; colitis; mental depression; post-traumatic stress disorder; and temporal lobe epilepsy. Human ortholog(s) of this gene implicated in Alzheimer's disease; autistic disorder; developmental and epileptic encephalopathy 58; major depressive disorder; and morbid obesity. Orthologous to human NTRK2 (neurotrophic receptor tyrosine kinase 2); PARTICIPATES IN brain-derived neurotrophic factor signaling pathway; mitogen activated protein kinase signaling pathway; neurotrophic factor signaling pathway; INTERACTS WITH (+)-pilocarpine; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BDNF/NT-3 growth factors receptor; GP145-TrkB/GP95-TrkB; Neural receptor protein-tyrosine kinase (trkB); neurotrophic tyrosine kinase, receptor, type 2; neurotrophic tyrosine receptor kinase type 2; RATTRKB1; Tkrb; trk-B; trkB; trkB tyrosine kinase; TRKB1
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
mRatBN7.2175,558,992 - 5,870,299 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl175,559,043 - 5,869,136 (-)Ensembl
Rnor_6.0175,934,651 - 6,245,778 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl175,933,729 - 6,244,676 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0178,156,432 - 8,464,522 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41711,494,463 - 11,811,654 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11711,494,462 - 11,811,645 (-)NCBI
Celera175,673,895 - 6,828,108 (-)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(+)-syringaresinol beta-D-glucoside  (ISO)
(20S)-ginsenoside Rg3  (ISO)
(S)-amphetamine  (ISO)
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile  (ISO)
1-fluoro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,4-methylenedioxymethamphetamine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (EXP)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
aldrin  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
androgen antagonist  (EXP)
Aroclor 1254  (ISO)
arsane  (EXP)
arsanilic acid  (EXP)
arsenic atom  (EXP)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
buprenorphine  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
Butylparaben  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
cannabidiol  (EXP)
carbon nanotube  (ISO)
chlorpyrifos  (EXP)
choline  (ISO)
citalopram  (ISO)
Citreoviridin  (ISO)
clomipramine  (ISO)
cocaine  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
Cuprizon  (EXP)
curcumin  (EXP)
cyclophosphamide  (EXP)
cyclosporin A  (ISO)
cypermethrin  (EXP)
cyproconazole  (ISO)
DDD  (ISO)
DDE  (EXP,ISO)
DDT  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibutyl phthalate  (EXP)
dieldrin  (EXP,ISO)
dioxygen  (EXP)
disodium selenite  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
echinacoside  (EXP,ISO)
endrin  (ISO)
entinostat  (ISO)
enzacamene  (EXP)
epoxiconazole  (EXP)
ethanol  (EXP,ISO)
fenvalerate  (EXP)
fipronil  (EXP)
flavonoids  (EXP)
fluoxetine  (EXP,ISO)
folic acid  (ISO)
gamma-hexachlorocyclohexane  (ISO)
genistein  (EXP)
gentamycin  (EXP)
glyphosate  (ISO)
graphite  (EXP)
heroin  (ISO)
hydrogen peroxide  (ISO)
imipramine  (ISO)
indometacin  (ISO)
isotretinoin  (ISO)
kainic acid  (EXP)
ketamine  (EXP,ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
lead(0)  (EXP,ISO)
lead(2+)  (EXP,ISO)
linuron  (EXP)
lipopolysaccharide  (ISO)
malathion  (ISO)
maneb  (ISO)
manganese(II) chloride  (ISO)
melatonin  (ISO)
methamphetamine  (ISO)
methapyrilene  (ISO)
methoxychlor  (EXP)
methylglyoxal  (ISO)
methyllycaconitine  (ISO)
methylmercury chloride  (ISO)
methylphenidate  (ISO)
mifepristone  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (ISO)
N-ethyl-N-nitrosourea  (EXP)
naphthalene  (ISO)
naphthalenes  (EXP)
nickel atom  (EXP)
nicotine  (ISO)
nicotinic acid  (EXP)
papaverine  (EXP)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
perfluorononanoic acid  (ISO)
permethrin  (EXP)
Phenelzine  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
physostigmine  (ISO)
pirinixic acid  (ISO)
ponatinib  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
Ptaquiloside  (ISO)
reboxetine  (ISO)
reserpine  (ISO)
rolipram  (EXP,ISO)
rotenone  (EXP,ISO)
sarin  (ISO)
SB 431542  (ISO)
scopolamine  (EXP,ISO)
simvastatin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (EXP,ISO)
Soman  (EXP)
sterigmatocystin  (EXP)
streptozocin  (ISO)
sulforaphane  (ISO)
T-2 toxin  (ISO)
tacrine  (ISO)
tamibarotene  (EXP,ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
Tetrachlorobisphenol A  (ISO)
titanium dioxide  (ISO)
toluene  (ISO)
tranylcypromine  (EXP)
trichloroethene  (EXP)
triclosan  (ISO)
trimellitic anhydride  (ISO)
undecane  (EXP)
valproic acid  (EXP,ISO)
venlafaxine hydrochloride  (EXP)
vinclozolin  (EXP)
vorinostat  (ISO)
WIN 55212-2  (ISO)
zalcitabine  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
brain-derived neurotrophic factor receptor signaling pathway  (IDA,IEA,IMP,ISO)
calcium-mediated signaling using intracellular calcium source  (ISO)
cellular response to amino acid stimulus  (IEA,ISO)
cellular response to brain-derived neurotrophic factor stimulus  (IBA,IEP)
cellular response to nerve growth factor stimulus  (IBA,IEP)
cellular response to tumor necrosis factor  (IEP)
central nervous system neuron development  (IEA,ISO,ISS)
cerebral cortex development  (IEA,ISO,ISS)
circadian rhythm  (IEA,ISO)
feeding behavior  (IEA,ISO)
glutamate secretion  (IEA,ISO)
inflammatory response  (IEP)
learning  (IEA,ISO,ISS)
long-term memory  (IDA)
long-term synaptic potentiation  (IEA,ISO)
mechanoreceptor differentiation  (IEA,ISO)
myelination in peripheral nervous system  (IEA,ISO)
negative regulation of amyloid-beta formation  (IEA,ISO)
negative regulation of anoikis  (IEA,ISO)
negative regulation of neuron apoptotic process  (IMP)
neuromuscular junction development  (ISO)
neuron differentiation  (ISO,ISS)
neuron migration  (IEA,ISO,ISS)
neuronal action potential propagation  (IEA,ISO)
neurotrophin signaling pathway  (IEA)
oligodendrocyte differentiation  (IEA,ISO)
peptidyl-serine phosphorylation  (IEA,ISO)
peptidyl-tyrosine phosphorylation  (IEA)
peripheral nervous system neuron development  (IEA,ISO)
positive regulation of axonogenesis  (IMP)
positive regulation of cell population proliferation  (IDA)
positive regulation of ERK1 and ERK2 cascade  (IBA)
positive regulation of gene expression  (IEA,ISO,ISS)
positive regulation of glucocorticoid receptor signaling pathway  (IGI)
positive regulation of kinase activity  (IBA)
positive regulation of MAPK cascade  (IMP)
positive regulation of neuron projection development  (IBA,IEA,ISO,ISS)
positive regulation of peptidyl-serine phosphorylation  (IEA,ISO)
positive regulation of phosphatidylinositol 3-kinase signaling  (IBA,IMP)
positive regulation of synapse assembly  (IEA,ISO)
positive regulation of synaptic transmission, glutamatergic  (IMP)
protein autophosphorylation  (IDA,IMP)
regulation of dendrite development  (IMP)
regulation of GTPase activity  (IEA,ISO,ISS)
regulation of MAPK cascade  (IDA)
regulation of metabolic process  (ISO)
regulation of neurotransmitter secretion  (IDA)
regulation of protein kinase B signaling  (IBA,IEA,ISO)
response to auditory stimulus  (IEP)
response to light stimulus  (IEP)
retina development in camera-type eye  (ISO)
retinal rod cell development  (IEA,ISO)
trans-synaptic signaling by BDNF, modulating synaptic transmission  (IEA,ISO)
trans-synaptic signaling by neuropeptide, modulating synaptic transmission  (IBA,IEA,ISO)
transmembrane receptor protein serine/threonine kinase signaling pathway  (IEA)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA)
vasculogenesis  (IEA,ISO)

Cellular Component

References

References - curated
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Additional References at PubMed
PMID:1846020   PMID:8106527   PMID:8402890   PMID:9856458   PMID:10196222   PMID:10486198   PMID:10516311   PMID:10571233   PMID:10595510   PMID:10908605   PMID:11083466   PMID:11248116  
PMID:11251075   PMID:11389170   PMID:11738045   PMID:11860191   PMID:12049326   PMID:12367511   PMID:12373512   PMID:12471037   PMID:12605901   PMID:12646573   PMID:12796784   PMID:12798291  
PMID:12858046   PMID:14603320   PMID:14642449   PMID:15014113   PMID:15231696   PMID:15282267   PMID:15329723   PMID:15372074   PMID:15376326   PMID:15384067   PMID:15507485   PMID:15518646  
PMID:15601948   PMID:15665879   PMID:15703388   PMID:15721221   PMID:16173113   PMID:16175575   PMID:16264195   PMID:16357196   PMID:16399679   PMID:16500620   PMID:16612579   PMID:16769156  
PMID:16781670   PMID:16819522   PMID:16877354   PMID:16996037   PMID:17072373   PMID:17168119   PMID:17394529   PMID:17445239   PMID:17463054   PMID:17492691   PMID:17584746   PMID:17647101  
PMID:17828750   PMID:17959796   PMID:17967490   PMID:18063479   PMID:18063676   PMID:18338800   PMID:18353779   PMID:18381284   PMID:18420184   PMID:18432062   PMID:18446825   PMID:18474605  
PMID:18511210   PMID:18515408   PMID:18550280   PMID:18559670   PMID:18957307   PMID:19036963   PMID:19141250   PMID:19159346   PMID:19179431   PMID:19222991   PMID:19224567   PMID:19332029  
PMID:19351881   PMID:19424097   PMID:19460344   PMID:19546592   PMID:19549834   PMID:19551874   PMID:19583705   PMID:19585233   PMID:19671665   PMID:19686240   PMID:19726361   PMID:20047714  
PMID:20064930   PMID:20146080   PMID:20333308   PMID:20407211   PMID:20610389   PMID:20615547   PMID:20635439   PMID:21044076   PMID:21187387   PMID:21210848   PMID:21279681   PMID:21474450  
PMID:21756980   PMID:21849472   PMID:21945647   PMID:21946312   PMID:22022509   PMID:22128160   PMID:22345308   PMID:22374757   PMID:22563458   PMID:22649026   PMID:22678720   PMID:22710915  
PMID:22806574   PMID:22841916   PMID:22878065   PMID:22961271   PMID:23017014   PMID:23058367   PMID:23086941   PMID:23382219   PMID:23392678   PMID:23526925   PMID:23550026   PMID:23785138  
PMID:23844255   PMID:23867621   PMID:23975404   PMID:24021607   PMID:24035762   PMID:24045895   PMID:24069373   PMID:24103847   PMID:24198040   PMID:24271058   PMID:24316227   PMID:24361450  
PMID:24372023   PMID:24465591   PMID:24484474   PMID:24599793   PMID:24613359   PMID:24714156   PMID:24830751   PMID:24934279   PMID:24991961   PMID:25072185   PMID:25143381   PMID:25226925  
PMID:25453757   PMID:25542970   PMID:25661191   PMID:25665281   PMID:25761522   PMID:25886766   PMID:26019338   PMID:26088421   PMID:26094765   PMID:26222433   PMID:26339375   PMID:26574547  
PMID:26712630   PMID:26899129   PMID:27151332   PMID:27334657   PMID:27438618   PMID:27735948   PMID:27771283   PMID:27830679   PMID:27926876   PMID:27984178   PMID:28004953   PMID:28500221  
PMID:28607168   PMID:28705440   PMID:28757509   PMID:28821448   PMID:28821608   PMID:28890399   PMID:29075579   PMID:29098710   PMID:29420916   PMID:29425916   PMID:29468822   PMID:29611441  
PMID:29680698   PMID:29694277   PMID:29704115   PMID:30076998   PMID:30266684   PMID:30373907   PMID:30472367   PMID:30477252   PMID:30489133   PMID:30710509   PMID:30741614   PMID:31014242  
PMID:31114979   PMID:31219215   PMID:31329835   PMID:32043504   PMID:32193501   PMID:32194188   PMID:32507324   PMID:33043964   PMID:33130041   PMID:33206632   PMID:33359781   PMID:33571451  
PMID:33616872   PMID:33874962   PMID:33954182   PMID:34695541  


Genomics

Comparative Map Data
Ntrk2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2175,558,992 - 5,870,299 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl175,559,043 - 5,869,136 (-)Ensembl
Rnor_6.0175,934,651 - 6,245,778 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl175,933,729 - 6,244,676 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0178,156,432 - 8,464,522 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41711,494,463 - 11,811,654 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11711,494,462 - 11,811,645 (-)NCBI
Celera175,673,895 - 6,828,108 (-)NCBICelera
Cytogenetic Map17p14NCBI
NTRK2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38984,668,522 - 85,027,054 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl984,668,375 - 85,095,751 (+)EnsemblGRCh38hg38GRCh38
GRCh37987,283,437 - 87,641,969 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36986,473,286 - 86,828,325 (+)NCBINCBI36hg18NCBI36
Build 34984,514,246 - 84,866,963NCBI
Celera957,854,390 - 58,209,019 (+)NCBI
Cytogenetic Map9q21.33NCBI
HuRef957,108,647 - 57,463,914 (+)NCBIHuRef
CHM1_1987,429,973 - 87,785,074 (+)NCBICHM1_1
T2T-CHM13v2.0996,818,888 - 97,177,857 (+)NCBI
Ntrk2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391358,954,286 - 59,281,784 (+)NCBIGRCm39mm39
GRCm39 Ensembl1358,954,383 - 59,281,784 (+)Ensembl
GRCm381358,806,472 - 59,133,970 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1358,806,569 - 59,133,970 (+)EnsemblGRCm38mm10GRCm38
MGSCv371358,907,957 - 59,231,337 (+)NCBIGRCm37mm9NCBIm37
MGSCv361358,816,219 - 59,139,599 (+)NCBImm8
Celera1359,869,829 - 60,184,466 (+)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1331.2NCBI
Ntrk2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554322,288,898 - 2,630,878 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554322,284,283 - 2,629,631 (-)NCBIChiLan1.0ChiLan1.0
NTRK2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1984,022,677 - 84,378,307 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl984,021,837 - 84,372,678 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0939,663,986 - 40,208,770 (-)NCBIMhudiblu_PPA_v0panPan3
NTRK2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1174,447,927 - 74,777,910 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl174,449,060 - 74,777,032 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha175,211,260 - 75,538,451 (-)NCBI
ROS_Cfam_1.0174,754,263 - 75,081,259 (-)NCBI
ROS_Cfam_1.0 Ensembl174,755,372 - 75,083,341 (-)Ensembl
UMICH_Zoey_3.1174,562,918 - 74,890,457 (-)NCBI
UNSW_CanFamBas_1.0174,331,860 - 74,658,907 (-)NCBI
UU_Cfam_GSD_1.0175,035,216 - 75,362,564 (-)NCBI
Ntrk2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947121,116,646 - 121,472,444 (-)NCBI
SpeTri2.0NW_004936680267,850 - 621,467 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NTRK2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1030,033,379 - 30,429,882 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11030,030,050 - 30,429,938 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21034,211,939 - 34,350,822 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NTRK2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11295,477,612 - 95,836,734 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1295,479,447 - 95,620,364 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603883,830,767 - 84,200,895 (+)NCBIVero_WHO_p1.0
Ntrk2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248098,276,951 - 8,616,765 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248098,274,736 - 8,622,287 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D17Wox10  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0178,464,362 - 8,464,522NCBIRnor5.0
RGSC_v3.41711,811,510 - 11,811,669RGDRGSC3.4
RGSC_v3.11711,811,510 - 11,811,669RGD
RH 3.4 Map1753.5RGD
RH 3.4 Map1753.5UniSTS
RH 2.0 Map1743.9RGD
Cytogenetic Map17p14UniSTS
D17Rat4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,705,480 - 5,705,653 (+)MAPPERmRatBN7.2
Rnor_6.0176,081,441 - 6,081,613NCBIRnor6.0
Rnor_5.0178,303,029 - 8,303,201UniSTSRnor5.0
RGSC_v3.41711,642,374 - 11,642,546UniSTSRGSC3.4
RGSC_v3.41711,642,373 - 11,642,546RGDRGSC3.4
RGSC_v3.11711,642,374 - 11,642,546RGD
Celera175,819,628 - 5,819,800UniSTS
RH 3.4 Map1753.6RGD
RH 3.4 Map1753.6UniSTS
RH 2.0 Map1741.7RGD
SHRSP x BN Map175.9601RGD
Cytogenetic Map17p14UniSTS
D17Got7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,846,851 - 5,846,967 (+)MAPPERmRatBN7.2
Rnor_6.0176,222,036 - 6,222,149NCBIRnor6.0
Rnor_5.0178,441,931 - 8,442,044UniSTSRnor5.0
RGSC_v3.41711,789,390 - 11,789,504RGDRGSC3.4
RGSC_v3.41711,789,391 - 11,789,504UniSTSRGSC3.4
RGSC_v3.11711,789,391 - 11,789,504RGD
Celera175,959,620 - 5,959,733UniSTS
RH 3.4 Map1773.7UniSTS
RH 3.4 Map1773.7RGD
RH 2.0 Map1738.2RGD
Cytogenetic Map17p14UniSTS
D17Arb15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,868,983 - 5,869,137 (+)MAPPERmRatBN7.2
Rnor_6.0176,244,475 - 6,244,628NCBIRnor6.0
Rnor_5.0178,464,370 - 8,464,523UniSTSRnor5.0
RGSC_v3.41711,811,516 - 11,811,669RGDRGSC3.4
RGSC_v3.41711,811,517 - 11,811,670UniSTSRGSC3.4
RGSC_v3.11711,811,516 - 11,811,669RGD
Celera175,981,709 - 5,981,850UniSTS
Cytogenetic Map17p14UniSTS
BF388200  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,683,917 - 5,684,106 (+)MAPPERmRatBN7.2
Rnor_6.0176,060,589 - 6,060,777NCBIRnor6.0
Rnor_5.0178,282,177 - 8,282,365UniSTSRnor5.0
RGSC_v3.41711,620,134 - 11,620,322UniSTSRGSC3.4
Celera175,798,149 - 5,798,337UniSTS
RH 3.4 Map1773.7UniSTS
Cytogenetic Map17p14UniSTS
RH135318  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,835,067 - 5,835,260 (+)MAPPERmRatBN7.2
Rnor_6.0176,210,245 - 6,210,437NCBIRnor6.0
Rnor_5.0178,430,140 - 8,430,332UniSTSRnor5.0
RGSC_v3.41711,777,573 - 11,777,765UniSTSRGSC3.4
Celera175,947,917 - 5,948,109UniSTS
RH 3.4 Map1753.5UniSTS
Cytogenetic Map17p14UniSTS
RH140355  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,559,068 - 5,559,315 (+)MAPPERmRatBN7.2
Rnor_6.0175,934,716 - 5,934,962NCBIRnor6.0
Rnor_5.0178,156,458 - 8,156,704UniSTSRnor5.0
RGSC_v3.41711,494,489 - 11,494,735UniSTSRGSC3.4
Celera175,673,921 - 5,674,167UniSTS
Cytogenetic Map17p14UniSTS
RH129925  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,739,292 - 5,739,485 (+)MAPPERmRatBN7.2
Rnor_6.0176,114,720 - 6,114,912NCBIRnor6.0
Rnor_5.0178,335,513 - 8,335,705UniSTSRnor5.0
RGSC_v3.41711,676,780 - 11,676,972UniSTSRGSC3.4
Celera175,852,552 - 5,852,744UniSTS
RH 3.4 Map1754.5UniSTS
Cytogenetic Map17p14UniSTS
RH133106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,743,832 - 5,744,018 (+)MAPPERmRatBN7.2
Rnor_6.0176,119,115 - 6,119,300NCBIRnor6.0
Rnor_5.0178,339,908 - 8,340,093UniSTSRnor5.0
RGSC_v3.41711,681,320 - 11,681,505UniSTSRGSC3.4
Celera175,857,092 - 5,857,277UniSTS
RH 3.4 Map1773.3UniSTS
Cytogenetic Map17p14UniSTS
BF386266  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,715,697 - 5,715,860 (+)MAPPERmRatBN7.2
Rnor_6.0176,091,659 - 6,091,821NCBIRnor6.0
Rnor_5.0178,312,470 - 8,312,632UniSTSRnor5.0
RGSC_v3.41711,652,039 - 11,652,201UniSTSRGSC3.4
Celera175,828,923 - 5,829,085UniSTS
RH 3.4 Map1773.4UniSTS
Cytogenetic Map17p14UniSTS
BE097527  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,703,161 - 5,703,376 (+)MAPPERmRatBN7.2
Rnor_6.0176,079,122 - 6,079,336NCBIRnor6.0
Rnor_5.0178,300,710 - 8,300,924UniSTSRnor5.0
RGSC_v3.41711,640,055 - 11,640,269UniSTSRGSC3.4
Celera175,817,362 - 5,817,576UniSTS
RH 3.4 Map1772.8UniSTS
Cytogenetic Map17p14UniSTS
RH138199  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,667,249 - 5,667,431 (+)MAPPERmRatBN7.2
Rnor_6.0176,043,939 - 6,044,120NCBIRnor6.0
Rnor_5.0178,265,619 - 8,265,800UniSTSRnor5.0
RGSC_v3.41711,603,648 - 11,603,829UniSTSRGSC3.4
Celera175,781,473 - 5,781,654UniSTS
RH 3.4 Map1753.4UniSTS
Cytogenetic Map17p14UniSTS
RH138872  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,701,329 - 5,701,568 (+)MAPPERmRatBN7.2
Rnor_6.0176,077,290 - 6,077,528NCBIRnor6.0
Rnor_5.0178,298,878 - 8,299,116UniSTSRnor5.0
RGSC_v3.41711,638,223 - 11,638,461UniSTSRGSC3.4
Celera175,815,530 - 5,815,768UniSTS
RH 3.4 Map1752.5UniSTS
Cytogenetic Map17p14UniSTS
RH139520  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,559,212 - 5,559,432 (+)MAPPERmRatBN7.2
Rnor_6.0175,934,860 - 5,935,079NCBIRnor6.0
Rnor_5.0178,156,602 - 8,156,821UniSTSRnor5.0
RGSC_v3.41711,494,633 - 11,494,852UniSTSRGSC3.4
Celera175,674,065 - 5,674,284UniSTS
RH 3.4 Map1755.0UniSTS
Cytogenetic Map17p14UniSTS
BF390725  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2175,748,331 - 5,748,504 (+)MAPPERmRatBN7.2
Rnor_6.0176,123,562 - 6,123,734NCBIRnor6.0
Rnor_5.0178,344,193 - 8,344,365UniSTSRnor5.0
RGSC_v3.41711,686,081 - 11,686,253UniSTSRGSC3.4
Celera175,861,597 - 5,861,769UniSTS
RH 3.4 Map1773.7UniSTS
Cytogenetic Map17p14UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
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
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
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
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:545
Count of miRNA genes:254
Interacting mature miRNAs:310
Transcripts:ENSRNOT00000042145
Prediction methods:Microtar, Miranda, Pita, 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 1 11 74 12 24
Low 2 39 21 6 8 6 8 11 20 16 11 8
Below cutoff 1 4 22 22 22 3 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001163168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_012731 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006253507 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771425 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771426 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008771427 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600456 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039095372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AY265419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY266346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC855568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M55291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M55292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M55293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000042145   ⟹   ENSRNOP00000045635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl175,559,043 - 5,869,121 (-)Ensembl
Rnor_6.0 Ensembl175,934,690 - 6,244,612 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082611   ⟹   ENSRNOP00000073595
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl175,559,043 - 5,869,121 (-)Ensembl
Rnor_6.0 Ensembl175,933,729 - 6,244,676 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090914   ⟹   ENSRNOP00000070128
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl175,739,171 - 5,869,136 (-)Ensembl
Rnor_6.0 Ensembl176,114,598 - 6,244,627 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100565   ⟹   ENSRNOP00000082641
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl175,784,667 - 5,869,136 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000101783   ⟹   ENSRNOP00000078799
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl175,784,517 - 5,869,136 (-)Ensembl
RefSeq Acc Id: NM_001163168   ⟹   NP_001156640
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,739,171 - 5,869,136 (-)NCBI
Rnor_6.0176,114,598 - 6,244,627 (-)NCBI
Rnor_5.0178,156,432 - 8,464,522 (-)NCBI
RGSC_v3.41711,494,463 - 11,811,654 (-)RGD
Celera175,852,430 - 6,828,108 (-)NCBI
Sequence:
RefSeq Acc Id: NM_012731   ⟹   NP_036863
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,559,043 - 5,869,121 (-)NCBI
Rnor_6.0175,934,690 - 6,244,612 (-)NCBI
Rnor_5.0178,156,432 - 8,464,522 (-)NCBI
RGSC_v3.41711,494,463 - 11,811,654 (-)RGD
Celera175,673,895 - 6,828,108 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006253507   ⟹   XP_006253569
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,683,893 - 5,868,087 (-)NCBI
Rnor_6.0176,060,564 - 6,244,716 (-)NCBI
Rnor_5.0178,156,432 - 8,464,522 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771425   ⟹   XP_008769647
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,560,666 - 5,869,126 (-)NCBI
Rnor_6.0175,934,651 - 6,244,725 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771426   ⟹   XP_008769648
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,560,666 - 5,870,171 (-)NCBI
Rnor_6.0175,934,651 - 6,245,662 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771427   ⟹   XP_008769649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,689,623 - 5,868,087 (-)NCBI
Rnor_6.0176,060,564 - 6,244,715 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017600456   ⟹   XP_017455945
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,560,666 - 5,870,299 (-)NCBI
Rnor_6.0175,934,651 - 6,245,778 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039095370   ⟹   XP_038951298
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,560,666 - 5,869,466 (-)NCBI
RefSeq Acc Id: XM_039095371   ⟹   XP_038951299
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,558,992 - 5,868,087 (-)NCBI
RefSeq Acc Id: XM_039095372   ⟹   XP_038951300
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2175,739,171 - 5,869,136 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036863   ⟸   NM_012731
- Peptide Label: isoform 1 precursor
- UniProtKB: Q63604 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001156640   ⟸   NM_001163168
- Peptide Label: isoform 2 precursor
- UniProtKB: Q63604 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253569   ⟸   XM_006253507
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008769648   ⟸   XM_008771426
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K5X6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769647   ⟸   XM_008771425
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K5X6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008769649   ⟸   XM_008771427
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017455945   ⟸   XM_017600456
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K5X6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073595   ⟸   ENSRNOT00000082611
RefSeq Acc Id: ENSRNOP00000070128   ⟸   ENSRNOT00000090914
RefSeq Acc Id: ENSRNOP00000045635   ⟸   ENSRNOT00000042145
RefSeq Acc Id: XP_038951299   ⟸   XM_039095371
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951298   ⟸   XM_039095370
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038951300   ⟸   XM_039095372
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000082641   ⟸   ENSRNOT00000100565
RefSeq Acc Id: ENSRNOP00000078799   ⟸   ENSRNOT00000101783
Protein Domains
Ig-like   Ig-like C2-type   LRRCT   LRRNT   Protein kinase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63604-F1-model_v2 AlphaFold Q63604 1-821 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)
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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
SR/JrHsd (2020)
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
SS/JrHsdMcwi (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
WAG/RijCrl (2020)
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
WKY/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
WKY/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
WN/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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 8423144 8423145 G A snv SHRSP/Gcrc (KNAW), SDLEF7/Barth (UDEL), ZFDM (KyushuU), ZF (KyushuU), Crl:SD (UDEL)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 11770480 11770481 G A snv SHRSP/Gcrc (ICL), SHRSP/Gcrc (MDC)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3213 AgrOrtholog
BioCyc Gene G2FUF-10400 BioCyc
Ensembl Genes ENSRNOG00000018839 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045635 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000070128 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000073595 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000078799 ENTREZGENE
  ENSRNOP00000082641 ENTREZGENE
Ensembl Transcript ENSRNOT00000042145 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000082611 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000090914 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000100565 ENTREZGENE
  ENSRNOT00000101783 ENTREZGENE
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.80.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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
  Ig_sub2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  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, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser-Thr/Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kin_neurotrophic_rcpt_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_NGF_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_kinase_rcpt_2_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25054 UniProtKB/Swiss-Prot
NCBI Gene 25054 ENTREZGENE
Pfam I-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRR_8 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRNT UniProtKB/TrEMBL
  Pkinase_Tyr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TPKR_C2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB NTRK2 RGD
PhenoGen Ntrk2 PhenoGen
PRINTS NTKRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NTKRECEPTOR2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYRKINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_TYR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RECEPTOR_TYR_KIN_II UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IGc2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRCT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LRRNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TyrKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC207397
  TC233755
UniProt A0A0G2K5X6 ENTREZGENE, UniProtKB/TrEMBL
  NTRK2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q7TSD7_RAT UniProtKB/TrEMBL
UniProt Secondary Q63605 UniProtKB/Swiss-Prot
  Q63606 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-14 Ntrk2  neurotrophic receptor tyrosine kinase 2  Ntrk2  neurotrophic tyrosine kinase, receptor, type 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Ntrk2  neurotrophic tyrosine kinase, receptor, type 2    Neural receptor protein-tyrosine kinase (trkB)  Name updated 625702 APPROVED
2002-06-10 Ntrk2  Neural receptor protein-tyrosine kinase (trkB)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function responsible for tyrosine phosphorylation of voltage-gated potassium channel Kv1.3 633084
gene_regulation activated by GM1 ganglioside 727459