Ep300 (E1A binding protein p300) - Rat Genome Database

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Gene: Ep300 (E1A binding protein p300) Rattus norvegicus
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Symbol: Ep300
Name: E1A binding protein p300
RGD ID: 620036
Description: Enables several functions, including DNA binding activity; DNA-binding transcription factor binding activity; and p53 binding activity. Involved in several processes, including cellular response to organic cyclic compound; positive regulation of cell differentiation; and regulation of protein metabolic process. Located in chromatin; cytoplasm; and nucleus. Part of protein-DNA complex. Used to study diabetic retinopathy and membranoproliferative glomerulonephritis. Biomarker of congenital diaphragmatic hernia; heart disease; hepatocellular carcinoma; hypertension; and transient cerebral ischemia. Human ortholog(s) of this gene implicated in Rubinstein-Taybi syndrome; colorectal cancer; and congestive heart failure. Orthologous to human EP300 (E1A binding protein p300); PARTICIPATES IN androgen signaling pathway; cortisol signaling pathway; estrogen signaling pathway; INTERACTS WITH 1-(5-isoquinolinesulfonyl)-2-methylpiperazine; 11-deoxycorticosterone; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: MODEL
Also known as: histone acetyltransferase p300; LOW QUALITY PROTEIN: histone acetyltransferase p300
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27113,108,476 - 113,178,529 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7113,106,247 - 113,136,088 (+)Ensembl
Rnor_6.07122,818,194 - 122,889,055 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7122,818,975 - 122,861,296 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07122,792,742 - 122,863,551 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47119,938,507 - 120,008,886 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17119,972,736 - 120,000,026 (+)NCBI
Celera7109,426,729 - 109,497,522 (+)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adenoid cystic carcinoma  (ISO)
Agenesis of Corpus Callosum  (ISO)
Alzheimer's disease  (ISO)
Brain Hypoxia  (IEP)
breast carcinoma  (ISO)
Breast Neoplasms  (ISO)
cardiac arrest  (ISO)
Cardiomegaly  (IEP)
cardiomyopathy  (ISO)
CHARGE syndrome  (ISO)
clear cell renal cell carcinoma  (ISO)
colon carcinoma  (ISO)
colorectal cancer  (ISO)
Colorectal Neoplasms  (ISO)
congenital diaphragmatic hernia  (IEP)
congestive heart failure  (ISO)
Craniofacial Abnormalities  (ISO)
Diabetic Nephropathies  (IDA,IEP)
diabetic retinopathy  (IMP)
Dwarfism  (ISO)
Endometrial Neoplasms  (ISO)
Endotoxemia  (IEP)
esophageal carcinoma  (ISO)
esophagus squamous cell carcinoma  (ISO)
Experimental Diabetes Mellitus  (IDA,IEP,IMP,ISO)
genetic disease  (ISO)
glomerulonephritis  (ISO)
head and neck squamous cell carcinoma  (ISO)
heart disease  (IEP)
hepatocellular carcinoma  (IEP)
hereditary breast ovarian cancer syndrome  (ISO)
Huntington's disease  (ISO)
Hyperalgesia  (IMP)
hypertension  (IEP)
intellectual disability  (ISO)
Kidney Reperfusion Injury  (IEP)
Lead Poisoning, Nervous System  (IEP)
lung adenocarcinoma  (ISO)
lung small cell carcinoma  (ISO)
lung squamous cell carcinoma  (ISO)
medulloblastoma  (ISO)
melanoma  (ISO)
membranoproliferative glomerulonephritis  (IMP)
Menke-Hennekam Syndrome 2  (ISO)
microcephaly  (ISO)
Multicystic Dysplastic Kidney  (ISO)
Multiple Abnormalities  (ISO)
nephronophthisis-like nephropathy 1  (ISO)
Neurodevelopmental Disorders  (ISO)
obesity  (ISO)
Optic Nerve Injuries  (IEP,ISO)
Painful Neuropathy  (IEP,IMP)
prostate cancer  (ISO)
Reperfusion Injury  (IDA,IEP)
Rubinstein-Taybi syndrome  (ISO)
Sepsis  (IEP)
squamous cell carcinoma  (ISO)
Stevens-Johnson syndrome  (ISO)
systemic lupus erythematosus  (ISS)
T-Cell Lymphoma  (ISO)
Thumb Deformity  (ISO)
transient cerebral ischemia  (IEP)
transitional cell carcinoma  (ISO)
type 2 diabetes mellitus  (ISO)
urinary bladder cancer  (ISO)
Uterine Cervical Neoplasms  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1-(5-isoquinolinesulfonyl)-2-methylpiperazine  (EXP)
11-deoxycorticosterone  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,4,7,8-Pentachlorodibenzofuran  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4-dinitrotoluene  (EXP)
2-Hydroxy-6-(8,11,14-pentadecatrienyl)benzoic acid  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3-aminobenzamide  (EXP)
5-(2-chloroethyl)-4-methylthiazole  (ISO)
5-(2-methylpiperazine-1-sulfonyl)isoquinoline  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (ISO)
8-Br-cAMP  (ISO)
aconitine  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinyl palmitate  (EXP)
allethrin  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphotericin B  (ISO)
antimycin A  (ISO)
apigenin  (ISO)
apocynin  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
berberine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
butyric acid  (ISO)
cadmium atom  (ISO)
calcitriol  (ISO)
camptothecin  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
chromium atom  (ISO)
chromium(6+)  (ISO)
cilostazol  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP,ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
cyproconazole  (EXP)
cyproterone acetate  (ISO)
D-glucose  (ISO)
deguelin  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibenziodolium  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dinophysistoxin 1  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
doxorubicin  (EXP,ISO)
ellagic acid  (ISO)
entinostat  (ISO)
enzalutamide  (ISO)
epoxiconazole  (EXP)
ethanol  (EXP,ISO)
etoposide  (ISO)
fenpyroximate  (ISO)
fenvalerate  (EXP)
fisetin  (ISO)
flavone  (ISO)
folic acid  (ISO)
furan  (EXP)
galangin  (ISO)
gallic acid  (ISO)
Garcinol  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glucose  (ISO)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hyaluronic acid  (ISO)
irinotecan  (ISO)
ivermectin  (ISO)
kaempferol  (ISO)
kojic acid  (ISO)
KT 5720  (ISO)
lead(0)  (EXP)
lead(2+)  (EXP)
LY294002  (EXP)
menadione  (ISO)
miconazole  (EXP,ISO)
mifepristone  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
myricetin  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (EXP,ISO)
niclosamide  (ISO)
nitrofen  (EXP)
ochratoxin A  (ISO)
okadaic acid  (ISO)
omeprazole  (ISO)
oxaliplatin  (EXP)
p-menthan-3-ol  (ISO)
phenylephrine  (EXP,ISO)
phlorizin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
prochloraz  (EXP)
prostaglandin E2  (ISO)
prostaglandin J2  (ISO)
pyrazinecarboxamide  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
SB 203580  (EXP)
scutellarin  (ISO)
Se-methyl-L-selenocysteine  (ISO)
Se-methylselenocysteine  (ISO)
silicon dioxide  (ISO)
sirtinol  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
streptozocin  (EXP)
sulforaphane  (ISO)
sunitinib  (ISO)
superoxide  (ISO)
tamoxifen  (ISO)
tetrathiomolybdate(2-)  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (EXP,ISO)
tungsten  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (ISO)
apoptotic process  (ISO)
B cell differentiation  (ISO)
behavioral defense response  (ISO)
cellular response to antibiotic  (IEP)
cellular response to cAMP  (IEP)
cellular response to dexamethasone stimulus  (IEP)
cellular response to glucose stimulus  (IEP)
cellular response to hydrogen peroxide  (IEP)
cellular response to mineralocorticoid stimulus  (IEP)
cellular response to nerve growth factor stimulus  (IEP)
cellular response to organic cyclic compound  (IEP)
cellular response to retinoic acid  (IEP)
cellular response to trichostatin A  (IEP)
cellular response to UV  (ISO)
cellular response to xenobiotic stimulus  (IEP)
circadian rhythm  (ISO)
digestive tract development  (IEP)
epigenetic maintenance of chromatin in transcription-competent conformation  (ISO)
face morphogenesis  (ISO)
fat cell differentiation  (ISO)
heart development  (ISO)
histone acetylation  (IMP,ISO)
histone H2B acetylation  (ISO)
histone H3 acetylation  (IMP)
histone H3-K56 acetylation  (ISO)
histone H4 acetylation  (ISO)
internal peptidyl-lysine acetylation  (IMP,ISO)
internal protein amino acid acetylation  (ISO)
intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator  (ISO)
learning or memory  (ISO)
lung development  (ISO)
macrophage derived foam cell differentiation  (ISO)
megakaryocyte development  (ISO)
memory  (IEP)
multicellular organism growth  (ISO)
N-terminal peptidyl-lysine acetylation  (ISO)
negative regulation of cell death  (IMP)
negative regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IMP)
negative regulation of gluconeogenesis  (ISO)
negative regulation of miRNA metabolic process  (IMP)
negative regulation of protein-containing complex assembly  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
peptidyl-lysine acetylation  (IMP,ISO)
peptidyl-lysine butyrylation  (ISO)
peptidyl-lysine crotonylation  (ISO)
peptidyl-lysine propionylation  (ISO)
platelet formation  (ISO)
positive regulation by host of viral transcription  (ISO)
positive regulation of axon extension  (IMP)
positive regulation of cell death  (IMP)
positive regulation of cell growth  (IMP)
positive regulation of cell growth involved in cardiac muscle cell development  (IMP)
positive regulation of cell size  (IMP)
positive regulation of cellular response to hypoxia  (IMP)
positive regulation of collagen biosynthetic process  (IMP)
positive regulation of DNA binding  (IMP)
positive regulation of DNA-binding transcription factor activity  (IMP,ISO)
positive regulation of gene expression  (IDA,IMP,ISO)
positive regulation of glycoprotein biosynthetic process  (IMP)
positive regulation of histone acetylation  (IMP)
positive regulation of muscle atrophy  (IMP)
positive regulation of neuron projection development  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of NIK/NF-kappaB signaling  (ISO)
positive regulation of protein acetylation  (IMP)
positive regulation of protein binding  (ISO)
positive regulation of protein import into nucleus  (IMP)
positive regulation of protein phosphorylation  (IMP)
positive regulation of protein secretion  (IMP)
positive regulation of proteolysis  (IMP)
positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding  (ISO)
positive regulation of sarcomere organization  (IMP)
positive regulation of transcription by RNA polymerase II  (IMP,ISO)
positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response  (ISO)
positive regulation of transcription, DNA-templated  (ISO)
positive regulation of transforming growth factor beta receptor signaling pathway  (ISO)
positive regulation of translation  (IMP)
protein acetylation  (ISO)
protein destabilization  (ISO)
protein kinase B signaling  (IDA)
protein stabilization  (ISO)
protein-DNA complex assembly  (IDA)
regulation of androgen receptor signaling pathway  (ISO)
regulation of angiotensin metabolic process  (IDA)
regulation of glycolytic process  (ISO)
regulation of mitochondrion organization  (ISO)
regulation of transcription by RNA polymerase II  (ISO)
regulation of tubulin deacetylation  (ISO)
response to calcium ion  (IMP)
response to cobalt ion  (IEP)
response to dexamethasone  (IMP)
response to estrogen  (IEP,ISO)
response to ethanol  (IEP)
response to fatty acid  (IEP)
response to glucose  (IMP)
response to hydrogen peroxide  (IEP)
response to hypoxia  (IEP,ISO)
response to organic cyclic compound  (IEP)
response to retinoic acid  (IEP)
response to tumor necrosis factor  (IEP)
response to xenobiotic stimulus  (IMP)
skeletal muscle tissue development  (ISO)
somitogenesis  (ISO)
swimming  (ISO)
thigmotaxis  (ISO)

Cellular Component

Molecular Function
acetyltransferase activity  (ISO)
acyltransferase activity  (ISO)
androgen receptor binding  (ISO)
antigen binding  (IDA)
beta-catenin binding  (ISO)
bHLH transcription factor binding  (IPI)
chromatin binding  (IDA,ISO)
chromatin DNA binding  (IDA,ISO)
cis-regulatory region sequence-specific DNA binding  (IDA)
damaged DNA binding  (ISO)
DNA binding  (ISO)
DNA-binding transcription factor binding  (IPI,ISO)
glucocorticoid receptor binding  (IDA)
H3 histone acetyltransferase activity  (ISO)
H4 histone acetyltransferase activity  (ISO)
histone acetyltransferase activity  (IDA,ISO)
histone butyryltransferase activity  (ISO)
histone crotonyltransferase activity  (ISO)
histone lactyltransferase activity  (ISO)
lysine N-acetyltransferase activity, acting on acetyl phosphate as donor  (ISO)
metal ion binding  (IEA)
mitogen-activated protein kinase binding  (IPI)
NF-kappaB binding  (IPI,ISO)
nuclear receptor binding  (ISO)
p53 binding  (IPI,ISO)
peptide butyryltransferase activity  (ISO)
peptide-lysine-N-acetyltransferase activity  (ISO)
peroxisome proliferator activated receptor binding  (IDA)
pre-mRNA intronic binding  (ISO)
promoter-specific chromatin binding  (IDA)
protein antigen binding  (IPI)
protein binding  (IPI,ISO)
protein C-terminus binding  (ISO)
protein kinase binding  (IPI)
protein propionyltransferase activity  (ISO)
protein-containing complex binding  (IDA,IPI)
RNA polymerase II cis-regulatory region sequence-specific DNA binding  (IDA)
RNA polymerase II-specific DNA-binding transcription factor binding  (IPI,ISO)
SMAD binding  (IPI)
STAT family protein binding  (ISO)
transcription coactivator activity  (IGI,ISO)
transcription coactivator binding  (ISO)
transcription coregulator binding  (IPI,ISO)
transcription factor binding  (IPI)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
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Additional References at PubMed
PMID:8684459   PMID:9194565   PMID:9512516   PMID:9679056   PMID:9742083   PMID:9862959   PMID:9887100   PMID:10518217   PMID:10733570   PMID:10783242   PMID:10893273   PMID:11349124  
PMID:11567019   PMID:11581164   PMID:11940591   PMID:12040021   PMID:12408825   PMID:12435739   PMID:12456660   PMID:12464179   PMID:12477932   PMID:12586840   PMID:12929931   PMID:14517255  
PMID:14517256   PMID:14645221   PMID:15100295   PMID:15199055   PMID:15220332   PMID:15261140   PMID:15601870   PMID:15616592   PMID:15669015   PMID:15681609   PMID:15937931   PMID:15994095  
PMID:16087680   PMID:16135789   PMID:16245309   PMID:16293776   PMID:16325578   PMID:16619037   PMID:16687403   PMID:16801560   PMID:17150957   PMID:17197080   PMID:17267393   PMID:17403783  
PMID:17475479   PMID:17591690   PMID:17641689   PMID:18458156   PMID:18486321   PMID:18487222   PMID:18605988   PMID:18684867   PMID:18722353   PMID:18724031   PMID:19359245   PMID:19423655  
PMID:19710011   PMID:19822209   PMID:19828133   PMID:19966502   PMID:20018936   PMID:20019387   PMID:20228809   PMID:20590529   PMID:20955178   PMID:21030595   PMID:21567395   PMID:21791614  
PMID:22523253   PMID:22780989   PMID:23129231   PMID:23415232   PMID:23752591   PMID:23811396   PMID:23962722   PMID:24216764   PMID:24565863   PMID:24743731   PMID:24759103   PMID:24886336  
PMID:24939902   PMID:25088002   PMID:25200183   PMID:25514493   PMID:25818647   PMID:26479788   PMID:26504087   PMID:26833564   PMID:27094368   PMID:27105113   PMID:27190312   PMID:27256286  
PMID:28230854   PMID:29775581   PMID:30193097   PMID:32285378  


Genomics

Comparative Map Data
Ep300
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27113,108,476 - 113,178,529 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7113,106,247 - 113,136,088 (+)Ensembl
Rnor_6.07122,818,194 - 122,889,055 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7122,818,975 - 122,861,296 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07122,792,742 - 122,863,551 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47119,938,507 - 120,008,886 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17119,972,736 - 120,000,026 (+)NCBI
Celera7109,426,729 - 109,497,522 (+)NCBICelera
Cytogenetic Map7q34NCBI
EP300
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2241,092,592 - 41,180,077 (+)EnsemblGRCh38hg38GRCh38
GRCh382241,092,592 - 41,180,077 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372241,488,596 - 41,576,081 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362239,818,553 - 39,906,024 (+)NCBINCBI36hg18NCBI36
Build 342239,813,106 - 39,900,578NCBI
Celera2225,294,977 - 25,382,428 (+)NCBI
Cytogenetic Map22q13.2NCBI
HuRef2224,453,007 - 24,540,433 (+)NCBIHuRef
CHM1_12241,448,337 - 41,535,740 (+)NCBICHM1_1
Ep300
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391581,470,329 - 81,536,278 (+)NCBIGRCm39mm39
GRCm39 Ensembl1581,469,552 - 81,536,278 (+)Ensembl
GRCm381581,586,209 - 81,652,077 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1581,585,351 - 81,652,077 (+)EnsemblGRCm38mm10GRCm38
MGSCv371581,416,644 - 81,482,507 (+)NCBIGRCm37mm9NCBIm37
MGSCv361581,413,469 - 81,479,332 (+)NCBImm8
Celera1583,704,343 - 83,770,860 (+)NCBICelera
Cytogenetic Map15E1NCBI
Ep300
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541326,648,339 - 26,727,933 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541326,647,553 - 26,727,875 (+)NCBIChiLan1.0ChiLan1.0
EP300
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12240,079,214 - 40,168,936 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2240,079,503 - 40,168,604 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02221,986,467 - 22,076,921 (+)NCBIMhudiblu_PPA_v0panPan3
ZC3H7B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11023,882,379 - 23,944,850 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1023,884,981 - 23,920,131 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1023,814,502 - 23,876,996 (-)NCBI
ROS_Cfam_1.01024,626,532 - 24,689,038 (-)NCBI
UMICH_Zoey_3.11024,343,251 - 24,405,735 (-)NCBI
UNSW_CanFamBas_1.01024,664,137 - 24,726,628 (-)NCBI
UU_Cfam_GSD_1.01024,838,614 - 24,901,106 (-)NCBI
Ep300
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049457,686,568 - 7,767,718 (-)NCBI
SpeTri2.0NW_004936492696,982 - 778,132 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EP300
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl57,311,171 - 7,393,760 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.157,311,165 - 7,394,515 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.254,574,025 - 4,656,181 (-)NCBISscrofa10.2Sscrofa10.2susScr3
EP300
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11923,634,132 - 23,726,095 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1923,634,571 - 23,724,979 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666045101,701,940 - 101,792,946 (-)NCBIVero_WHO_p1.0

Position Markers
RH143832  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,107,607 - 113,107,737 (+)MAPPERmRatBN7.2
Rnor_6.07122,818,100 - 122,818,229NCBIRnor6.0
Rnor_5.07122,792,639 - 122,792,768UniSTSRnor5.0
RGSC_v3.47119,937,433 - 119,937,562UniSTSRGSC3.4
Celera7109,426,635 - 109,426,764UniSTS
Cytogenetic Map7q34UniSTS
RH136048  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,177,993 - 113,178,190 (+)MAPPERmRatBN7.2
mRatBN7.2X37,350,149 - 37,350,347 (+)MAPPERmRatBN7.2
Rnor_6.0X40,190,816 - 40,191,013NCBIRnor6.0
Rnor_6.07122,888,520 - 122,888,716NCBIRnor6.0
Rnor_5.07122,863,016 - 122,863,212UniSTSRnor5.0
Rnor_5.0X40,501,078 - 40,501,275UniSTSRnor5.0
RGSC_v3.4X58,645,117 - 58,645,314UniSTSRGSC3.4
RGSC_v3.47120,008,351 - 120,008,547UniSTSRGSC3.4
Celera7109,496,987 - 109,497,183UniSTS
CeleraX37,978,882 - 37,979,079UniSTS
Cytogenetic Map7q34UniSTS
EP300_8165  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,177,410 - 113,178,207 (+)MAPPERmRatBN7.2
Rnor_6.07122,887,937 - 122,888,733NCBIRnor6.0
Rnor_5.07122,862,433 - 122,863,229UniSTSRnor5.0
RGSC_v3.47120,007,768 - 120,008,564UniSTSRGSC3.4
Celera7109,496,404 - 109,497,200UniSTS
Cytogenetic Map7q34UniSTS
Ep300  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27113,124,618 - 113,124,736 (+)MAPPERmRatBN7.2
Rnor_6.07122,835,114 - 122,835,231NCBIRnor6.0
Rnor_5.07122,809,653 - 122,809,770UniSTSRnor5.0
RGSC_v3.47119,954,447 - 119,954,564UniSTSRGSC3.4
Celera7109,443,641 - 109,443,758UniSTS
Cytogenetic Map7q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:80
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000000206
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 30 36 20 19 20 5 5 74 33 38 11 5
Low 1 13 21 21 21 3 6 2 3 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000206   ⟹   ENSRNOP00000000206
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,124,023 - 113,136,088 (+)Ensembl
Rnor_6.0 Ensembl7122,818,975 - 122,861,296 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101270   ⟹   ENSRNOP00000090584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7113,106,247 - 113,135,971 (+)Ensembl
RefSeq Acc Id: XM_039080287   ⟹   XP_038936215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27113,108,476 - 113,178,529 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038936215 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH86528 (Get FASTA)   NCBI Sequence Viewer  
  BAB62425 (Get FASTA)   NCBI Sequence Viewer  
  EDM15717 (Get FASTA)   NCBI Sequence Viewer  
  EDM15718 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: ENSRNOP00000000206   ⟸   ENSRNOT00000000206
RefSeq Acc Id: XP_038936215   ⟸   XM_039080287
RefSeq Acc Id: ENSRNOP00000090584   ⟸   ENSRNOT00000101270
Protein Domains
KIX   TAZ-type

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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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-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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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
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620036 AgrOrtholog
Ensembl Genes ENSRNOG00000000190 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000000206 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000000206 UniProtKB/TrEMBL
Gene3D-CATH 1.10.246.20 UniProtKB/TrEMBL
  1.20.1020.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7303964 IMAGE-MGC_LOAD
InterPro KIX_dom UniProtKB/TrEMBL
  KIX_dom_sf UniProtKB/TrEMBL
  TAZ_dom_sf UniProtKB/TrEMBL
  Znf_TAZ UniProtKB/TrEMBL
MGC_CLONE MGC:106005 IMAGE-MGC_LOAD
NCBI Gene 170915 ENTREZGENE
Pfam KIX UniProtKB/TrEMBL
  zf-TAZ UniProtKB/TrEMBL
PharmGKB EP300 RGD
PhenoGen Ep300 PhenoGen
PROSITE KIX UniProtKB/TrEMBL
  ZF_TAZ UniProtKB/TrEMBL
SMART ZnF_TAZ UniProtKB/TrEMBL
Superfamily-SCOP SSF47040 UniProtKB/TrEMBL
  SSF57933 UniProtKB/TrEMBL
UniProt A0A0G2QC09_RAT UniProtKB/TrEMBL
  Q5RJS0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Ep300  E1A binding protein p300      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Ep300  E1A binding protein p300      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains cDNA has nuclear receptor interaction domain 632678
gene_expression mRNA expressed in small intertine and various other tissues 632678
gene_function interacts with PPAR alpha and delta during fatty acid metabolism 632678