Ngf (nerve growth factor) - Rat Genome Database
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Gene: Ngf (nerve growth factor) Rattus norvegicus
Analyze
Symbol: Ngf
Name: nerve growth factor
RGD ID: 1598328
Description: Predicted to have nerve growth factor receptor binding activity; peptidase regulator activity; and signaling receptor activator activity. Involved in several processes, including negative regulation of apoptotic process; positive regulation of protein autophosphorylation; and positive regulation of signal transduction. Localizes to extracellular space. Used to study bladder neck obstruction; cystitis; degenerative disc disease; and neurogenic bladder. Biomarker of several diseases, including diabetic neuropathy; hyperhomocysteinemia; mental depression; myofascial pain syndrome; and respiratory syncytial virus infectious disease. Human ortholog(s) of this gene implicated in IgA glomerulonephritis; asthma; end stage renal disease; hereditary sensory and autonomic neuropathy type 5; and interstitial cystitis. Orthologous to human NGF (nerve growth factor); PARTICIPATES IN apoptotic cell death pathway; mitogen activated protein kinase signaling pathway; neurotrophic factor signaling pathway; INTERACTS WITH (+)-pilocarpine; (R)-noradrenaline; (S)-amphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: beta-nerve growth factor; beta-NGF; nerve growth factor (beta polypeptide); nerve growth factor, beta; nerve growth factor, beta (mapped); Ngfb; Ngfb_mapped; pro-nerve growth factor long
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22189,901,058 - 189,954,452 (+)NCBI
Rnor_6.0 Ensembl2204,886,202 - 204,940,453 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02204,886,158 - 204,939,523 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02224,316,210 - 224,369,663 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42197,621,726 - 197,632,960 (+)NCBIRGSC3.4rn4RGSC3.4
Celera2182,322,945 - 182,375,918 (+)NCBICelera
RH 3.4 Map21294.4RGD
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Lung Injury  (ISO)
Alzheimer's disease  (IEP)
amnestic disorder  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
bacterial meningitis  (IEP)
bladder disease  (ISO)
bladder neck obstruction  (IDA)
Bronchial Hyperreactivity  (ISO)
Burns  (IMP)
Charcot-Marie-Tooth disease  (ISO)
chronic kidney disease  (ISO)
Chronic Pancreatitis  (IEP)
chronic ulcer of skin  (ISO)
Cocaine-Related Disorders  (ISO)
corneal ulcer  (ISO)
coronary artery disease  (ISO)
cystitis  (IMP,ISO)
degenerative disc disease  (IMP)
diabetic encephalopathy  (ISO)
diabetic neuropathy  (IEP)
diabetic retinopathy  (ISO)
end stage renal disease  (ISO)
epilepsy with generalized tonic-clonic seizures  (ISO)
Experimental Autoimmune Encephalomyelitis  (IEP)
Experimental Diabetes Mellitus  (IEP)
glaucoma  (IEP)
glomerulonephritis  (ISO)
hereditary sensory and autonomic neuropathy type 5  (ISO)
hereditary sensory neuropathy  (ISO)
heroin dependence  (ISO)
Hyperalgesia  (IDA,IMP,ISO)
hyperhomocysteinemia  (IEP)
Hyperkinesis  (ISO)
hypertension  (IEP)
hypothyroidism  (IEP)
IgA glomerulonephritis  (ISO)
Inflammation  (IEP,ISO)
interstitial cystitis  (ISO)
interstitial lung disease  (ISO)
interstitial nephritis  (ISO)
Lewy body dementia  (ISO)
Lung Injury  (ISO)
mental depression  (IEP)
Metabolic Syndrome  (ISO)
middle cerebral artery infarction  (ISO)
myofascial pain syndrome  (IEP)
Nerve Degeneration  (ISO)
nervous system disease  (ISO)
Neurobehavioral Manifestations  (ISO)
neurodegenerative disease  (ISO)
neurogenic bladder  (IDA,ISO)
Neurogenic Inflammation  (ISO)
obstructive sleep apnea  (ISO)
Overactive Urinary Bladder  (IDA,ISO)
Pain  (IMP,ISO)
Parkinson's disease  (ISO)
Parkinsonism  (ISO)
Peripheral Nerve Injuries  (IEP)
peripheral nervous system disease  (ISO)
pulmonary fibrosis  (ISO)
pulmonary sarcoidosis  (ISO)
respiratory syncytial virus infectious disease  (IEP)
retinitis pigmentosa  (IEP)
rhinitis  (ISO)
Rib Fractures  (IEP)
sciatic neuropathy  (ISO)
sensorineural hearing loss  (ISO)
Spinal Cord Injuries  (IEP,IMP)
status epilepticus  (ISO)
Stroke  (IMP)
systemic scleroderma  (ISO)
visual epilepsy  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(R)-noradrenaline  (EXP)
(S)-amphetamine  (EXP)
(S)-nicotine  (ISO)
1-chloro-2,4,6-trinitrobenzene  (ISO)
13,14-dihydro-Delta(12)-prostaglandin J2  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2,6-di-tert-butyl-4-methylphenol  (EXP)
2-amino-2-deoxy-D-glucopyranose  (EXP)
2-hydroxypropanoic acid  (ISO)
3',5'-cyclic AMP  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4-methylcatechol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
6-propyl-2-thiouracil  (EXP)
8-Br-cAMP  (ISO)
acrylamide  (EXP)
actinomycin D  (EXP)
aflatoxin B1  (ISO)
agathisflavone  (EXP)
aldehydo-D-glucosamine  (EXP)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (EXP,ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP,ISO)
arsane  (EXP)
arsenic atom  (EXP)
Asiaticoside  (EXP)
ATP  (EXP)
azamethiphos  (EXP)
Bay-K-8644  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
berberine  (ISO)
beta-D-glucosamine  (EXP)
bicuculline  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromocriptine  (ISO)
bucladesine  (ISO)
C60 fullerene  (EXP)
cabergoline  (ISO)
cadmium atom  (EXP)
cadmium dichloride  (ISO)
Calcimycin  (ISO)
calcitriol  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
calmidazolium  (EXP)
capsaicin  (EXP,ISO)
carbon monoxide  (EXP)
carmustine  (EXP)
carrageenan  (EXP)
chlorpyrifos  (EXP,ISO)
choline  (ISO)
chrysin  (ISO)
cisplatin  (EXP,ISO)
cobalt dichloride  (EXP)
cocaine  (ISO)
colforsin daropate hydrochloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
cycloheximide  (ISO)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (EXP,ISO)
cyhalothrin  (EXP)
D-glucose  (EXP,ISO)
dexamethasone  (EXP,ISO)
diazinon  (EXP,ISO)
dibutyl phthalate  (EXP)
dieldrin  (EXP,ISO)
dihydrolipoic acid  (ISO)
dioxygen  (EXP,ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
ebselen  (ISO)
echinacoside  (EXP)
edaravone  (ISO)
endosulfan  (EXP)
epalrestat  (EXP)
epinastine  (ISO)
epothilone B  (EXP)
etacrynic acid  (ISO)
ethanol  (EXP,ISO)
everolimus  (EXP)
excitatory amino acid agonist  (EXP)
fluphenazine  (EXP)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fructose  (EXP)
Fusarenone X  (ISO)
Geniposide pentaacetate  (EXP)
genistein  (EXP)
gentamycin  (EXP)
ginsenoside Rd  (ISO)
ginsenoside Re  (ISO)
glucose  (EXP,ISO)
glutathione  (EXP,ISO)
glutathione disulfide  (ISO)
glycidol  (EXP)
Goe 6976  (EXP)
heptachlor  (EXP)
heroin  (ISO)
histamine  (EXP)
hydrogen peroxide  (EXP)
indometacin  (ISO)
isoprenaline  (EXP)
ketamine  (EXP)
ketotifen  (EXP)
L-methionine  (ISO)
lead diacetate  (EXP,ISO)
lipopolysaccharide  (EXP,ISO)
LY294002  (EXP,ISO)
malathion  (EXP)
manganese atom  (EXP)
manganese(0)  (EXP)
manganese(II) chloride  (ISO)
mangiferin  (ISO)
masoprocol  (EXP)
mepyramine  (EXP)
mercury atom  (EXP,ISO)
mercury(0)  (EXP,ISO)
methamphetamine  (EXP,ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methoxychlor  (EXP)
mithramycin  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
N-acetylsphingosine  (EXP)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
naphthalene  (ISO)
naproxen  (EXP)
nickel atom  (EXP,ISO)
nicotine  (ISO)
nifedipine  (EXP)
nimesulide  (EXP)
nitrates  (EXP)
nitric oxide  (EXP)
nocodazole  (EXP)
O-acetyl-L-carnitine  (EXP)
okadaic acid  (EXP)
oxidopamine  (ISO)
ozone  (EXP,ISO)
paclitaxel  (EXP)
panaxydol  (EXP)
paracetamol  (EXP,ISO)
parathion-methyl  (EXP)
PD-166866  (EXP)
pentane-2,3-dione  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
pergolide  (ISO)
permethrin  (EXP)
peroxynitrous acid  (EXP)
phenethyl caffeate  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
potassium atom  (EXP)
procymidone  (EXP)
progesterone  (EXP)
promethazine  (EXP)
propofol  (EXP)
propranolol  (EXP)
prostaglandin E2  (EXP)
Ptaquiloside  (ISO)
Pyridostigmine bromide  (EXP)
pyrrolidine dithiocarbamate  (EXP)
quercetin  (EXP)
rac-lactic acid  (ISO)
ranitidine  (EXP)
reactive oxygen species  (EXP,ISO)
reserpine  (EXP)
resveratrol  (EXP)
rofecoxib  (EXP)
rotenone  (EXP)
rottlerin  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
Salidroside  (EXP)
salubrinal  (ISO)
SB 203580  (EXP)
scopolamine  (EXP,ISO)
SKF 38393  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
sorbinil  (EXP)
staurosporine  (EXP,ISO)
streptozocin  (EXP)
sulforaphane  (ISO)
sumatriptan  (EXP)
tacrolimus hydrate  (EXP)
taurine  (EXP)
terbutaline  (EXP)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
thimerosal  (ISO)
thiopental  (EXP)
toluene  (ISO)
toluene 2,4-diisocyanate  (EXP)
trichloroethene  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triprolidine  (EXP)
Triptolide  (EXP)
udenafil  (EXP)
valproic acid  (ISO)
vincaleukoblastine  (EXP)
vinclozolin  (EXP)
vincristine  (EXP)
vindesine  (EXP)
wortmannin  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of cysteine-type endopeptidase activity involved in apoptotic process  (ISO)
activation of transmembrane receptor protein tyrosine kinase activity  (IEA)
adult locomotory behavior  (IMP)
aging  (IEP)
circadian rhythm  (ISO)
extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
extrinsic apoptotic signaling pathway via death domain receptors  (ISO)
inflammatory response  (IEP)
memory  (IBA,IMP)
modulation of chemical synaptic transmission  (IBA)
negative regulation of endopeptidase activity  (IEA)
negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  (NAS)
negative regulation of neuron apoptotic process  (IBA,IMP,ISO)
negative regulation of type B pancreatic cell apoptotic process  (IMP)
nerve development  (IBA)
nerve growth factor signaling pathway  (IBA,ISO)
neuron apoptotic process  (ISO)
neuron development  (ISO)
neuron projection development  (IDA,ISO)
neuron projection morphogenesis  (IBA,ISO)
peripheral nervous system development  (IBA,ISO)
positive regulation of axon extension  (ISO)
positive regulation of cell growth  (IDA)
positive regulation of cell population proliferation  (IDA)
positive regulation of collateral sprouting  (IBA,ISO)
positive regulation of DNA binding  (ISO)
positive regulation of DNA-binding transcription factor activity  (IDA)
positive regulation of ERK1 and ERK2 cascade  (IDA)
positive regulation of gene expression  (ISO)
positive regulation of neuron differentiation  (IDA)
positive regulation of neuron maturation  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of neurotrophin TRK receptor signaling pathway  (IDA)
positive regulation of peptidyl-serine phosphorylation  (IBA)
positive regulation of protein autophosphorylation  (IDA)
positive regulation of protein binding  (IMP)
positive regulation of protein phosphorylation  (IDA,ISO)
positive regulation of protein ubiquitination  (ISO)
positive regulation of Ras protein signal transduction  (ISO)
positive regulation of stem cell proliferation  (IDA)
regulation of neuron differentiation  (IBA,ISO)
regulation of neurotransmitter secretion  (ISO)
regulation of release of sequestered calcium ion into cytosol  (ISO)
response to drug  (IEP)
response to electrical stimulus  (IEP)
response to glucocorticoid  (IEP)
response to lipopolysaccharide  (IEP)
response to mechanical stimulus  (IEP)
response to nicotine  (IEP)
response to organic cyclic compound  (IEP)
response to organic substance  (IEP)
response to ozone  (IEP)
response to peptide hormone  (IEP)
response to radiation  (IEP)
sensory perception of pain  (IMP,ISO)
signal transduction  (IEA)
transmembrane receptor protein tyrosine kinase signaling pathway  (IBA)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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Additional References at PubMed
PMID:2025430   PMID:3184206   PMID:6470042   PMID:7854358   PMID:8137419   PMID:8861722   PMID:10362258   PMID:10485890   PMID:10908605   PMID:11278445   PMID:11731452   PMID:11835310  
PMID:11877426   PMID:11927634   PMID:12376548   PMID:12388545   PMID:12473665   PMID:12857442   PMID:14623868   PMID:14736860   PMID:14985763   PMID:15033464   PMID:15262992   PMID:15572370  
PMID:15739121   PMID:16079148   PMID:16153003   PMID:16298082   PMID:16516892   PMID:16854632   PMID:16956580   PMID:17013810   PMID:17045017   PMID:17663741   PMID:17724343   PMID:17764660  
PMID:17870109   PMID:17952852   PMID:17999938   PMID:18006272   PMID:18052984   PMID:18345501   PMID:18351465   PMID:18496748   PMID:18561899   PMID:18601856   PMID:18628984   PMID:18635195  
PMID:18660503   PMID:18690044   PMID:18709849   PMID:18728191   PMID:18817846   PMID:19013137   PMID:19019738   PMID:19036963   PMID:19100726   PMID:19104181   PMID:19125373   PMID:19150448  
PMID:19229990   PMID:19265194   PMID:19286942   PMID:19286963   PMID:19288273   PMID:19291685   PMID:19368814   PMID:19372237   PMID:19473768   PMID:19505442   PMID:19524110   PMID:19581298  
PMID:19585233   PMID:19596387   PMID:19662538   PMID:19696022   PMID:19722155   PMID:19726646   PMID:19762468   PMID:19802389   PMID:20155803   PMID:20164177   PMID:20170723   PMID:20220009  
PMID:20333299   PMID:20335077   PMID:20388358   PMID:20473744   PMID:20490673   PMID:20495008   PMID:20644345   PMID:20683769   PMID:20965859   PMID:21111819   PMID:21137370   PMID:21207218  
PMID:21270900   PMID:21295348   PMID:21312342   PMID:21408608   PMID:21473865   PMID:21549807   PMID:21561603   PMID:21640078   PMID:21642505   PMID:21677785   PMID:21889978   PMID:21938476  
PMID:21961236   PMID:22038828   PMID:22065583   PMID:22073361   PMID:22141271   PMID:22147490   PMID:22233577   PMID:22238106   PMID:22280975   PMID:22323714   PMID:22384148   PMID:22384237  
PMID:22411744   PMID:22479579   PMID:22490502   PMID:22496904   PMID:22500463   PMID:22532231   PMID:22580175   PMID:22742729   PMID:22744968   PMID:22834730   PMID:22871918   PMID:23015435  
PMID:23157347   PMID:23158009   PMID:23190308   PMID:23234417   PMID:23255148   PMID:23460346   PMID:23468336   PMID:23559405   PMID:23743199   PMID:23785138   PMID:23872662   PMID:23874817  
PMID:23959444   PMID:24006456   PMID:24154957   PMID:24265601   PMID:24270184   PMID:24303055   PMID:24327613   PMID:24380503   PMID:24407463   PMID:24508054   PMID:24620979   PMID:24713110  
PMID:24733831   PMID:24760869   PMID:24771956   PMID:24913185   PMID:24921856   PMID:24978930   PMID:25049196   PMID:25231981   PMID:25297375   PMID:25394845   PMID:25397406   PMID:25401376  
PMID:25542970   PMID:25644424   PMID:25691569   PMID:25801841   PMID:25897972   PMID:26121254   PMID:26347141   PMID:26521746   PMID:26588713   PMID:26608656   PMID:26681653   PMID:26709397  
PMID:26724365   PMID:26966186   PMID:27392124   PMID:27569259   PMID:27655914   PMID:27762470   PMID:27789288   PMID:27830679   PMID:27978417   PMID:28067793   PMID:28549966   PMID:28685530  
PMID:28843696   PMID:28865749   PMID:29052293   PMID:29202822   PMID:29420916   PMID:29483280   PMID:29523370   PMID:29609077   PMID:29895019   PMID:29901090   PMID:30553789   PMID:30592331  
PMID:30911955   PMID:31298358   PMID:31575913   PMID:31638328   PMID:31875259   PMID:31980031   PMID:32083755   PMID:32169062   PMID:32246947   PMID:32279149   PMID:33191703  


Genomics

Candidate Gene Status
Ngf is a candidate Gene for QTL Cia10
Comparative Map Data
Ngf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22189,901,058 - 189,954,452 (+)NCBI
Rnor_6.0 Ensembl2204,886,202 - 204,940,453 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02204,886,158 - 204,939,523 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02224,316,210 - 224,369,663 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42197,621,726 - 197,632,960 (+)NCBIRGSC3.4rn4RGSC3.4
Celera2182,322,945 - 182,375,918 (+)NCBICelera
RH 3.4 Map21294.4RGD
Cytogenetic Map2q34NCBI
NGF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1115,285,904 - 115,338,770 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1115,285,918 - 115,338,236 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1115,285,917 - 115,338,249 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl1115,285,917 - 115,338,256 (-)EnsemblGRCh38hg38GRCh38
GRCh381115,285,915 - 115,338,253 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371115,828,538 - 115,880,870 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361115,630,060 - 115,682,380 (-)NCBINCBI36hg18NCBI36
Build 341115,540,580 - 115,592,899NCBI
Celera1114,057,456 - 114,109,776 (-)NCBI
Cytogenetic Map1p13.2NCBI
HuRef1113,686,915 - 113,739,240 (-)NCBIHuRef
CHM1_11115,943,440 - 115,995,752 (-)NCBICHM1_1
Ngf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393102,377,235 - 102,428,329 (+)NCBIGRCm39mm39
GRCm39 Ensembl3102,377,235 - 102,428,329 (+)Ensembl
GRCm383102,469,919 - 102,521,013 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3102,469,919 - 102,521,013 (+)EnsemblGRCm38mm10GRCm38
MGSCv373102,273,851 - 102,324,936 (+)NCBIGRCm37mm9NCBIm37
MGSCv363102,598,989 - 102,650,066 (+)NCBImm8
Celera3104,674,123 - 104,724,621 (+)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map345.25NCBI
Ngf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543518,581,808 - 18,601,059 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543518,581,889 - 18,633,330 (-)NCBIChiLan1.0ChiLan1.0
NGF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11122,272,750 - 122,325,909 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0187,223,597 - 87,276,759 (+)NCBIMhudiblu_PPA_v0panPan3
NGF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1752,900,647 - 52,901,607 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11752,900,647 - 52,901,607 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Ngf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936627635,784 - 641,290 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NGF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4105,256,417 - 105,307,842 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14105,256,691 - 105,307,843 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24115,436,784 - 115,446,393 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NGF
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12018,361,795 - 18,413,987 (+)NCBI
ChlSab1.1 Ensembl2018,413,108 - 18,413,833 (+)Ensembl
Ngf
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477211,009,765 - 11,070,050 (-)NCBI

Position Markers
RH142206  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02204,939,746 - 204,939,938NCBIRnor6.0
Rnor_5.02224,369,886 - 224,370,078UniSTSRnor5.0
RGSC_v3.42197,633,183 - 197,633,375UniSTSRGSC3.4
Celera2182,376,141 - 182,376,333UniSTS
RH 3.4 Map21294.4UniSTS
Cytogenetic Map2q34UniSTS
NGFB  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02204,938,839 - 204,938,985NCBIRnor6.0
Rnor_5.02224,368,979 - 224,369,125UniSTSRnor5.0
RGSC_v3.42197,632,276 - 197,632,422UniSTSRGSC3.4
Celera2182,375,234 - 182,375,380UniSTS
Cytogenetic Map2q34UniSTS
PMC20267P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02204,938,994 - 204,939,287NCBIRnor6.0
Rnor_5.02224,369,134 - 224,369,427UniSTSRnor5.0
RGSC_v3.42197,632,431 - 197,632,724UniSTSRGSC3.4
Celera2182,375,389 - 182,375,682UniSTS
Cytogenetic Map2q34UniSTS
NGFB  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02204,938,750 - 204,938,853NCBIRnor6.0
Rnor_5.02224,368,890 - 224,368,993UniSTSRnor5.0
RGSC_v3.42197,632,187 - 197,632,290UniSTSRGSC3.4
Celera2182,375,145 - 182,375,248UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2140566078217498545Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2147522550217498710Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246537589217498710Rat
61458Bp10Blood pressure QTL 103.42arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204003742231132207Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243133606217498545Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243133606217498545Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2149114878225501939Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2181990297240020001Rat
1331745Bp203Blood pressure QTL 2034.377arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2204585642235290110Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256244671217498710Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141583337217498710Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828049217498710Rat
1298083Bp158Blood pressure QTL 1582.62arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204003742231132207Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147122993240020001Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2147122993240020001Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2183984665228984665Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2204585642243689611Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2199380312244380312Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2157914409217498545Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2116075644228737869Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2169852800217498545Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557254121739Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557237742948Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2161745602206745602Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2181522444226522444Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2194378622239378622Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2116075644228737869Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2175403337239166203Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2118446646227707979Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2138901276217498710Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)275687495221880419Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2158159186217498710Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283819608239166203Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828236243550655Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283819608243901375Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2158159186217498710Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2142053350228984665Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2118446793228582621Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2177680772243901375Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2200453324236318668Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2200453324236318668Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2169852670207612467Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2188838511228984665Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2204585642249585642Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278321410217498710Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204585642249585642Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2194998627239998627Rat
4889834Pur24Proteinuria QTL 245.80.014total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)2198704357217498710Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2197253963242253963Rat
7488929Bp366Blood pressure QTL 3660.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2199954569208081195Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2197253963242253963Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2197253963242253963Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2174160958219160958Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2177339806222339806Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2169852670243026643Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283754907237610852Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2197253963242253963Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2149614466205573168Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2149614466205573168Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:37
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000022200
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium
Low 1 31 32 17 18 17 6 6 35 35 34 8 6
Below cutoff 2 10 19 18 1 18 2 5 37 7 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022200   ⟹   ENSRNOP00000022200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2204,886,202 - 204,939,523 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078376   ⟹   ENSRNOP00000072445
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2204,932,159 - 204,940,453 (+)Ensembl
RefSeq Acc Id: NM_001277055   ⟹   NP_001263984
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22189,901,058 - 189,954,452 (+)NCBI
Rnor_6.02204,886,202 - 204,939,523 (+)NCBI
Rnor_5.02224,316,210 - 224,369,663 (+)NCBI
Celera2182,322,945 - 182,375,918 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006233052   ⟹   XP_006233114
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02204,886,547 - 204,939,523 (+)NCBI
Rnor_5.02224,316,210 - 224,369,663 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006233053   ⟹   XP_006233115
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02204,886,158 - 204,939,523 (+)NCBI
Rnor_5.02224,316,210 - 224,369,663 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039102402   ⟹   XP_038958330
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22189,947,597 - 189,954,452 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001263984 (Get FASTA)   NCBI Sequence Viewer  
  XP_038958330 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41697 (Get FASTA)   NCBI Sequence Viewer  
  AXN77609 (Get FASTA)   NCBI Sequence Viewer  
  EDL85511 (Get FASTA)   NCBI Sequence Viewer  
  P25427 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001263984   ⟸   NM_001277055
- Peptide Label: precursor
- UniProtKB: P25427 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006233115   ⟸   XM_006233053
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006233114   ⟸   XM_006233052
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000072445   ⟸   ENSRNOT00000078376
RefSeq Acc Id: ENSRNOP00000022200   ⟸   ENSRNOT00000022200
RefSeq Acc Id: XP_038958330   ⟸   XM_039102402
- Peptide Label: isoform X1
Protein Domains
NGF

Transcriptome

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

Promoters
RGD ID:13691620
Promoter ID:EPDNEW_R2145
Type:single initiation site
Name:Ngf_1
Description:nerve growth factor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02204,886,202 - 204,886,262EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1598328 AgrOrtholog
Ensembl Genes ENSRNOG00000016571 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022200 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000072445 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022200 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000078376 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor_bsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor_bsu_mml UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nerve_growth_factor_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:310738 UniProtKB/Swiss-Prot
NCBI Gene 310738 ENTREZGENE
PANTHER PTHR11589 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB NGF RGD
PhenoGen Ngf PhenoGen
PIRSF NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS MAMLNGFBETA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NGFBETA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NGF_2 UniProtKB/Swiss-Prot
SMART NGF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K2Z7_RAT UniProtKB/TrEMBL
  NGF_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-17 Ngf  nerve growth factor  Ngf  nerve growth factor (beta polypeptide)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-24 Ngf  nerve growth factor (beta polypeptide)  Ngf  nerve growth factor  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-25 Ngf  nerve growth factor  Ngfb  nerve growth factor, beta  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-13   nerve growth factor, beta  Ngfb  nerve growth factor, beta (mapped)  Name updated 737654 APPROVED
2007-04-11 Ngfb  nerve growth factor, beta (mapped)  Ngfb_mapped  nerve growth factor, beta (mapped)  Data Merged 737654 APPROVED
2006-11-20 Ngfb  nerve growth factor, beta (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Ngfb_mapped  nerve growth factor, beta (mapped)  Ngfb  nerve growth factor, beta  Symbol and Name updated 1556543 APPROVED
2002-06-10 Ngfb  Nerve growth factor, beta polypeptide      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in the CNS 1302255
gene_expression expression is not altered by 60 Hz magnetic fields (EMFs) during gestation and lactation 1302255
gene_function functions in brain development 1302255
gene_homology mouse Ngfb exhibits growth factor, receptor signaling and brain developmental functions 704405
gene_regulation developmentally regulated in the central nervous system 1302255