Abcc4 (ATP binding cassette subfamily C member 4) - Rat Genome Database

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Gene: Abcc4 (ATP binding cassette subfamily C member 4) Rattus norvegicus
Analyze
Symbol: Abcc4
Name: ATP binding cassette subfamily C member 4
RGD ID: 620266
Description: Predicted to enable several functions, including ABC-type transporter activity; glutathione transmembrane transporter activity; and prostaglandin transmembrane transporter activity. Involved in several processes, including bile acid signaling pathway; positive regulation of smooth muscle cell proliferation; and response to drug. Located in basolateral plasma membrane and external side of apical plasma membrane. Biomarker of cholestasis and extrahepatic cholestasis. Orthologous to human ABCC4 (ATP binding cassette subfamily C member 4); PARTICIPATES IN bile acid signaling pathway; azathioprine pharmacodynamics pathway; lamivudine pharmacokinetics pathway; INTERACTS WITH (-)-epigallocatechin 3-gallate; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: ABC-tranporter; ATP-binding cassette protein C4; ATP-binding cassette subfamily C member 4; ATP-binding cassette, sub-family C (CFTR/MRP), member 4; ATP-binding cassette, subfamily C (CFTR/MRP), member 4; LOC306166; Mrp4; multidrug resistance-associated protein 4; RGD1565953; similar to multidrug resistance-associated protein 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21595,541,186 - 95,774,898 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1595,542,315 - 95,774,283 (-)Ensembl
Rnor_6.015103,695,415 - 103,927,980 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15103,696,557 - 103,927,592 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015107,127,408 - 107,356,997 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415103,384,848 - 103,611,238 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.115103,416,404 - 103,417,006 (-)NCBI
Celera1594,392,176 - 94,624,412 (-)NCBICelera
Cytogenetic Map15q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (EXP)
(S)-colchicine  (ISO)
(S)-naringenin  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 17-glucosiduronic acid  (ISO)
17beta-estradiol 3-benzoate  (EXP)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2',7'-bis-(2-carboxyethyl)carboxyfluorescein  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3',5'-cyclic AMP  (ISO)
3',5'-cyclic GMP  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-methylcholanthrene  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-nitrophenyl beta-D-glucuronide  (ISO)
4-phenylbutylamine  (ISO)
6-bromoindirubin-3'-oxime  (ISO)
6-propyl-2-thiouracil  (EXP)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
7-Hydroxymethotrexate  (ISO)
[2,8-bis(trifluoromethyl)quinolin-4-yl]-(2-piperidyl)methanol  (ISO)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
adefovir  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin M1  (ISO)
alfacalcidol  (ISO)
all-trans-retinoic acid  (EXP,ISO)
allyl alcohol  (ISO)
alpha-Naphthyl-beta-D-glucuronide  (ISO)
alpha-pinene  (ISO)
amikacin  (EXP)
amiodarone  (EXP)
ammonium chloride  (EXP)
ampicillin  (ISO)
andrographolide  (ISO)
angelicin  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
azathioprine  (EXP)
baclofen  (ISO)
benzo[a]pyrene  (ISO)
Benzo[a]pyrene-7,8-diol  (ISO)
benzo[e]pyrene  (ISO)
benzylpenicillin  (ISO)
beta-naphthoflavone  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
bosentan  (EXP)
bromobenzene  (EXP)
bumetanide  (ISO)
butylated hydroxyanisole  (ISO)
cadmium sulfate  (ISO)
calcein am  (ISO)
calciol  (ISO)
calcitriol  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cefmetazole  (ISO)
ceftazidime pentahydrate  (ISO)
celecoxib  (ISO)
cephalosporin C  (ISO)
chenodeoxycholic acid  (ISO)
choline  (EXP,ISO)
chrysophanol  (EXP)
ciprofloxacin  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
cobalt dichloride  (EXP,ISO)
Cuprizon  (EXP)
cyanocob(III)alamin  (ISO)
cyclosporin A  (EXP,ISO)
cyproconazole  (ISO)
daidzein  (ISO)
Deguelin  (ISO)
deoxycholic acid  (ISO)
dexamethasone  (EXP)
dextran sulfate  (ISO)
diallyl disulfide  (ISO)
Diallyl sulfide  (EXP,ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
diclofenac  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
dipyridamole  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
doxycycline  (EXP)
EC 3.4.15.1 (peptidyl-dipeptidase A) inhibitor  (ISO)
emodin  (EXP,ISO)
enalapril  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
enzalutamide  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethoxyquin  (ISO)
ethyl methanesulfonate  (ISO)
fenofibrate  (EXP)
fipronil  (EXP)
flutamide  (EXP)
folic acid  (ISO)
formononetin  (EXP)
fulvestrant  (EXP)
furan  (EXP)
furosemide  (ISO)
gadolinium trichloride  (ISO)
gemfibrozil  (ISO)
Gentiopicrin  (EXP)
ginsenoside Rg1  (ISO)
glutathione  (ISO)
glycine betaine  (ISO)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
hesperetin  (ISO)
hydrochlorothiazide  (ISO)
indole-3-acetic acid  (ISO)
indole-3-methanol  (EXP)
indoxyl sulfate  (ISO)
irinotecan  (ISO)
iron(III) nitrilotriacetate  (ISO)
isoflavones  (EXP)
isoimperatorin  (ISO)
isoniazide  (EXP)
isoprenaline  (ISO)
ivermectin  (ISO)
kynurenic acid  (ISO)
L-methionine  (EXP,ISO)
lithocholic acid  (ISO)
luteolin  (ISO)
mefloquine  (ISO)
meloxicam  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (EXP,ISO)
metformin  (ISO)
methapyrilene  (EXP,ISO)
methotrexate  (ISO)
methoxsalen  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (EXP,ISO)
methylseleninic acid  (ISO)
MK 571  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-benzoylglycine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nateglinide  (ISO)
nefazodone  (ISO)
oltipraz  (ISO)
ortho-Aminoazotoluene  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (EXP)
paracetamol  (EXP,ISO)
paraquat  (EXP)
pentachlorophenol  (ISO)
perfluorodecanoic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP,ISO)
phenobarbital  (ISO)
phenylacetic acid  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
picoxystrobin  (ISO)
pipemidic acid  (ISO)
piperacillin  (ISO)
piperonyl butoxide  (ISO)
pirinixic acid  (ISO)
pravastatin  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
probenecid  (ISO)
progesterone  (ISO)
propane-1,2-diol  (ISO)
propiconazole  (ISO)
prostaglandin E1  (ISO)
prostaglandin E2  (ISO)
prostaglandins E  (ISO)
psoralen  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
reactive oxygen species  (ISO)
Rebamipide  (ISO)
resveratrol  (ISO)
ritodrine  (ISO)
rotenone  (ISO)
S-(2,4-dinitrophenyl)glutathione  (ISO)
SB 431542  (ISO)
Se-methyl-L-selenocysteine  (EXP)
Se-methylselenocysteine  (EXP)
senecionine  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium chloride  (ISO)
sodium dichromate  (ISO)
stilbene oxide  (EXP)
streptozocin  (ISO)
sulbactam  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (EXP)
temozolomide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP,ISO)
thioacetamide  (EXP)
ticlopidine  (EXP)
tioguanine  (ISO)
titanium dioxide  (ISO)
Tolvaptan  (ISO)
topotecan  (EXP)
triadimefon  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
Triptolide  (ISO)
troglitazone  (EXP,ISO)
ursodeoxycholic acid  (EXP,ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vincristine  (ISO)
zearalenone  (EXP)
zidovudine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:12883481   PMID:15297306   PMID:15504935   PMID:19671067   PMID:19946888   PMID:21167233   PMID:21237168   PMID:23306951   PMID:24130369   PMID:25173977   PMID:25986174   PMID:26244301  
PMID:26458556   PMID:28298215   PMID:30995593   PMID:33132311  


Genomics

Comparative Map Data
Abcc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21595,541,186 - 95,774,898 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1595,542,315 - 95,774,283 (-)Ensembl
Rnor_6.015103,695,415 - 103,927,980 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl15103,696,557 - 103,927,592 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.015107,127,408 - 107,356,997 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.415103,384,848 - 103,611,238 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.115103,416,404 - 103,417,006 (-)NCBI
Celera1594,392,176 - 94,624,412 (-)NCBICelera
Cytogenetic Map15q24NCBI
ABCC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1395,019,835 - 95,301,475 (-)EnsemblGRCh38hg38GRCh38
GRCh381395,019,835 - 95,301,451 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371395,672,089 - 95,953,705 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361394,470,084 - 94,751,688 (-)NCBINCBI36hg18NCBI36
Build 341394,470,089 - 94,751,684NCBI
Celera1376,520,037 - 76,801,492 (-)NCBI
Cytogenetic Map13q32.1NCBI
HuRef1376,269,792 - 76,551,747 (-)NCBIHuRef
CHM1_11395,641,739 - 95,923,875 (-)NCBICHM1_1
Abcc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914118,720,104 - 118,945,475 (-)NCBIGRCm39mm39
GRCm39 Ensembl14118,720,104 - 118,943,631 (-)Ensembl
GRCm3814118,482,692 - 118,707,856 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14118,482,692 - 118,706,219 (-)EnsemblGRCm38mm10GRCm38
MGSCv3714118,881,914 - 119,105,441 (-)NCBIGRCm37mm9NCBIm37
MGSCv3614117,366,402 - 117,589,897 (-)NCBImm8
Celera14117,040,185 - 117,267,837 (-)NCBICelera
Cytogenetic Map14E4NCBI
Abcc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540414,700,808 - 14,928,617 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540414,700,808 - 14,927,944 (+)NCBIChiLan1.0ChiLan1.0
ABCC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11395,349,915 - 95,596,193 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1395,349,915 - 95,582,058 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01376,193,929 - 76,476,119 (-)NCBIMhudiblu_PPA_v0panPan3
ABCC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12245,767,033 - 46,013,577 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2245,765,835 - 46,013,505 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2245,552,541 - 45,797,861 (-)NCBI
ROS_Cfam_1.02246,197,405 - 46,443,625 (-)NCBI
UMICH_Zoey_3.12245,859,950 - 46,105,864 (-)NCBI
UNSW_CanFamBas_1.02245,893,451 - 46,139,289 (-)NCBI
UU_Cfam_GSD_1.02245,899,895 - 46,145,744 (-)NCBI
Abcc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945181,327,558 - 181,555,006 (-)NCBI
SpeTri2.0NW_00493647214,396,986 - 14,624,597 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100738425
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11164,861,069 - 64,996,684 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21171,819,382 - 71,859,328 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ABCC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1373,821,887 - 74,106,617 (-)NCBI
ChlSab1.1 Ensembl373,821,134 - 74,106,579 (-)Ensembl
Vero_WHO_p1.0NW_02366604630,211,012 - 30,527,853 (-)NCBI
Abcc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248791,811,686 - 2,060,221 (-)NCBI

Position Markers
RH143776  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,709,760 - 95,709,909 (+)MAPPERmRatBN7.2
Rnor_6.015103,863,409 - 103,863,557NCBIRnor6.0
Rnor_5.015107,293,048 - 107,293,196UniSTSRnor5.0
RGSC_v3.415103,546,131 - 103,546,279UniSTSRGSC3.4
Celera1594,559,460 - 94,559,608UniSTS
RH 3.4 Map15651.3UniSTS
Cytogenetic Map15q24UniSTS
BI286235  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,775,474 - 95,775,679 (+)MAPPERmRatBN7.2
Rnor_6.015103,928,620 - 103,928,824NCBIRnor6.0
Rnor_5.015107,358,025 - 107,358,229UniSTSRnor5.0
RGSC_v3.415103,612,519 - 103,612,723UniSTSRGSC3.4
Celera1594,625,559 - 94,625,763UniSTS
RH 3.4 Map15650.3UniSTS
Cytogenetic Map15q24UniSTS
AU047861  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,740,080 - 95,740,374 (+)MAPPERmRatBN7.2
Rnor_6.015103,893,726 - 103,894,017NCBIRnor6.0
Rnor_5.015107,323,365 - 107,323,656UniSTSRnor5.0
RGSC_v3.415103,576,447 - 103,576,738UniSTSRGSC3.4
Celera1594,589,955 - 94,590,246UniSTS
Cytogenetic Map15q24UniSTS
RH141533  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21595,542,403 - 95,542,613 (+)MAPPERmRatBN7.2
Rnor_6.015103,696,633 - 103,696,842NCBIRnor6.0
Rnor_5.015107,127,515 - 107,127,724UniSTSRnor5.0
RGSC_v3.415103,384,955 - 103,385,164UniSTSRGSC3.4
Celera1594,392,283 - 94,392,492UniSTS
RH 3.4 Map15648.7UniSTS
Cytogenetic Map15q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)155380615298806152Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1558156477101769107Rat
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1567588667101769107Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1568327165100062518Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)157369051899794247Rat
2317055Aia10Adjuvant induced arthritis QTL 103.41joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1575788062101769107Rat
1549844Bss7Bone structure and strength QTL 76.4femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1575788062101769107Rat
70155Gcs1Gastric cancer susceptibility QTL13.8stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)1576306099101769107Rat
1300118Bp190Blood pressure QTL 1902.94arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)158226252098288169Rat
1300120Kidm7Kidney mass QTL 73.55kidney mass (VT:0002707)left kidney wet weight to body weight ratio (CMO:0001954)158226252098288169Rat
1581519Cm59Cardiac mass QTL 592.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)158885347095840528Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:484
Count of miRNA genes:153
Interacting mature miRNAs:165
Transcripts:ENSRNOT00000013366, ENSRNOT00000031036
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 4 14 4 5 4 1 29 20 11
Low 3 39 43 37 14 37 8 10 74 6 21 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013366   ⟹   ENSRNOP00000013366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1595,542,315 - 95,774,272 (-)Ensembl
Rnor_6.0 Ensembl15103,696,557 - 103,927,592 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000031036   ⟹   ENSRNOP00000033826
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1595,542,315 - 95,774,272 (-)Ensembl
Rnor_6.0 Ensembl15103,696,557 - 103,927,592 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100006   ⟹   ENSRNOP00000076836
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1595,542,799 - 95,774,283 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000109236   ⟹   ENSRNOP00000076917
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1595,542,799 - 95,774,283 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117189   ⟹   ENSRNOP00000089564
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1595,542,315 - 95,721,172 (-)Ensembl
RefSeq Acc Id: NM_133411   ⟹   NP_596902
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21595,542,297 - 95,774,272 (-)NCBI
Rnor_6.015103,696,526 - 103,927,592 (-)NCBI
Rnor_5.015107,127,408 - 107,356,997 (-)NCBI
RGSC_v3.415103,384,848 - 103,611,238 (-)RGD
Celera1594,392,176 - 94,624,412 (-)RGD
Sequence:
RefSeq Acc Id: XM_039092966   ⟹   XP_038948894
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21595,541,186 - 95,774,898 (-)NCBI
RefSeq Acc Id: XM_039092967   ⟹   XP_038948895
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21595,541,186 - 95,774,898 (-)NCBI
RefSeq Acc Id: XR_005493686
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21595,648,987 - 95,774,898 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_596902   ⟸   NM_133411
- UniProtKB: Q6QMG6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000033826   ⟸   ENSRNOT00000031036
RefSeq Acc Id: ENSRNOP00000013366   ⟸   ENSRNOT00000013366
RefSeq Acc Id: XP_038948895   ⟸   XM_039092967
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948894   ⟸   XM_039092966
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000089564   ⟸   ENSRNOT00000117189
RefSeq Acc Id: ENSRNOP00000076836   ⟸   ENSRNOT00000100006
RefSeq Acc Id: ENSRNOP00000076917   ⟸   ENSRNOT00000109236
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)
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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
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)
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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 (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
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)
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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/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)
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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/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
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)
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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
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
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)
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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
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)
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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
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)
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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
HXB20/IpcvMcwi (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
HXB31/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
HXB4/IpcvMcwi (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
LE/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
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)
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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
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
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)
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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
LEXF1A/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
LEXF1C/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
LEXF2B/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
LEXF3/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
LEXF4/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
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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)
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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)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620266 AgrOrtholog
Ensembl Genes ENSRNOG00000010064 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013366 UniProtKB/TrEMBL
  ENSRNOP00000033826 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000013366 UniProtKB/TrEMBL
  ENSRNOT00000031036 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.20.1560.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC1_TM_dom UniProtKB/Swiss-Prot
  ABC1_TM_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transporter_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_transptrTM_dom_typ1 UniProtKB/TrEMBL
  ABCC4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:170924 UniProtKB/Swiss-Prot
NCBI Gene 170924 ENTREZGENE
PANTHER PTHR24223:SF357 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ABC_membrane UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_tran UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB ABCC4 RGD
PhenoGen Abcc4 PhenoGen
PROSITE ABC_TM1F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_TRANSPORTER_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ABC_TRANSPORTER_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART AAA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP ABC_TM_1 UniProtKB/TrEMBL
  SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF90123 UniProtKB/Swiss-Prot
UniProt F1LR52_RAT UniProtKB/TrEMBL
  F1M3J4 ENTREZGENE, UniProtKB/Swiss-Prot
  Q59DL1_RAT UniProtKB/TrEMBL
  Q6QMG5_RAT UniProtKB/TrEMBL
  Q6QMG6 ENTREZGENE
UniProt Secondary Q6QMG6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Abcc4  ATP binding cassette subfamily C member 4  Abcc4  ATP-binding cassette, subfamily C (CFTR/MRP), member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Abcc4  ATP-binding cassette, subfamily C (CFTR/MRP), member 4  RGD1565953  similar to multidrug resistance-associated protein 4  Data Merged 737654 PROVISIONAL
2010-11-16 Abcc4  ATP-binding cassette, subfamily C (CFTR/MRP), member 4  Abcc4  ATP-binding cassette, sub-family C (CFTR/MRP), member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565953  similar to multidrug resistance-associated protein 4   RGD1565953_predicted  similar to multidrug resistance-associated protein 4 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565953_predicted  similar to multidrug resistance-associated protein 4 (predicted)  LOC306166  similar to multidrug resistance-associated protein 4  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC306166  similar to multidrug resistance-associated protein 4      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 Abcc4  ATP-binding cassette, sub-family C (CFTR/MRP), member 4      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Abcc4  ATP-binding cassette, sub-family C (CFTR/MRP), member 4      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in kidney