Arntl (aryl hydrocarbon receptor nuclear translocator-like) - Rat Genome Database

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Gene: Arntl (aryl hydrocarbon receptor nuclear translocator-like) Rattus norvegicus
Analyze
Symbol: Arntl
Name: aryl hydrocarbon receptor nuclear translocator-like
RGD ID: 62003
Description: Predicted to have several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and E-box binding activity. Involved in circadian rhythm and positive regulation of transcription, DNA-templated. Localizes to nucleus. Biomarker of cholestasis. Orthologous to human ARNTL (aryl hydrocarbon receptor nuclear translocator like); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: aryl hydrocarbon receptor nuclear translocator-like protein 1; Bmal1; brain and muscle ARNT-like 1; tic
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21167,331,756 - 167,430,235 (+)NCBI
Rnor_6.0 Ensembl1178,039,063 - 178,137,465 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01178,039,002 - 178,137,469 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01185,007,527 - 185,105,413 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41171,062,181 - 171,162,426 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11171,251,951 - 171,282,040 (+)NCBI
Celera1165,202,275 - 165,299,946 (+)NCBICelera
Cytogenetic Map1q33NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-epicatechin-3-O-gallate  (ISO)
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
amino acid  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-D-glucosamine  (ISO)
beta-naphthoflavone  (EXP,ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
C60 fullerene  (EXP)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
carmustine  (EXP)
carnosine  (ISO)
casticin  (ISO)
CGS-21680  (ISO)
chloroprene  (EXP)
choline  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cocaine  (ISO)
colforsin daropate hydrochloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cortisol  (ISO)
creatinine  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dibenz[a,h]anthracene  (ISO)
dichloromethane  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
Erionite  (ISO)
flavonoids  (EXP)
fluoxetine  (ISO)
folic acid  (ISO)
furan  (ISO)
furosemide  (ISO)
gallic acid  (ISO)
gallocatechin  (ISO)
geraniol  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
graphene oxide  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
Hypaconitine  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
isoprenaline  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lysophosphatidylcholine  (ISO)
manganese(II) chloride  (EXP)
melatonin  (EXP)
metformin  (EXP)
methotrexate  (EXP,ISO)
milrinone  (EXP)
mitomycin C  (ISO)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (EXP)
NAD zwitterion  (ISO)
NAD(+)  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
phosphatidylcholine  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
prednisolone  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
quercetin  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
Se-methyl-L-selenocysteine  (EXP)
Se-methylselenocysteine  (EXP)
sevoflurane  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
styrene  (ISO)
sunitinib  (ISO)
taurine  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
tioguanine  (EXP)
titanium dioxide  (EXP,ISO)
tremolite asbestos  (ISO)
tributylstannane  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
urea  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

Additional References at PubMed
PMID:9079689   PMID:9576906   PMID:9704006   PMID:11441146   PMID:12024206   PMID:12150932   PMID:12397359   PMID:12477932   PMID:12738229   PMID:12843397   PMID:12897057   PMID:14645221  
PMID:14672706   PMID:15147242   PMID:15193144   PMID:15560782   PMID:16606840   PMID:17264215   PMID:17728404   PMID:17823250   PMID:18208549   PMID:18316400   PMID:18644859   PMID:19141540  
PMID:19217292   PMID:19299583   PMID:19387896   PMID:19605937   PMID:19740747   PMID:20093779   PMID:20106950   PMID:20430893   PMID:20562852   PMID:20861012   PMID:21113167   PMID:21613214  
PMID:21628546   PMID:21680841   PMID:21768648   PMID:21952132   PMID:22101268   PMID:22208286   PMID:22611086   PMID:22653727   PMID:22697126   PMID:22894897   PMID:22900038   PMID:22940729  
PMID:22960268   PMID:23056261   PMID:23263459   PMID:23395176   PMID:23525013   PMID:23596172   PMID:23738784   PMID:23785138   PMID:23831463   PMID:24005054   PMID:24043798   PMID:24048828  
PMID:24051492   PMID:24089055   PMID:24239982   PMID:24268780   PMID:24378737   PMID:24385426   PMID:24481314   PMID:24549704   PMID:24619734   PMID:24736997   PMID:25068868   PMID:25669688  
PMID:25936801   PMID:26051626   PMID:26271538   PMID:26776516   PMID:26901093   PMID:27365111   PMID:27717746   PMID:27771283   PMID:28423013   PMID:28985504   PMID:29085284   PMID:29165002  
PMID:29266826   PMID:29849897   PMID:30096135   PMID:31958455   PMID:32334629  


Genomics

Comparative Map Data
Arntl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21167,331,756 - 167,430,235 (+)NCBI
Rnor_6.0 Ensembl1178,039,063 - 178,137,465 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01178,039,002 - 178,137,469 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01185,007,527 - 185,105,413 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41171,062,181 - 171,162,426 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11171,251,951 - 171,282,040 (+)NCBI
Celera1165,202,275 - 165,299,946 (+)NCBICelera
Cytogenetic Map1q33NCBI
ARNTL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1113,276,652 - 13,387,266 (+)EnsemblGRCh38hg38GRCh38
GRCh381113,276,552 - 13,387,268 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371113,298,199 - 13,408,813 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361113,255,901 - 13,365,389 (+)NCBINCBI36hg18NCBI36
Build 341113,255,925 - 13,365,386NCBI
Celera1113,425,472 - 13,534,997 (+)NCBI
Cytogenetic Map11p15.3NCBI
HuRef1112,979,421 - 13,089,003 (+)NCBIHuRef
CHM1_11113,298,251 - 13,407,784 (+)NCBICHM1_1
Arntl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397112,777,820 - 112,913,333 (+)NCBIGRCm39mm39
GRCm39 Ensembl7112,806,672 - 112,913,333 (+)Ensembl
GRCm387113,178,471 - 113,314,126 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7113,207,465 - 113,314,126 (+)EnsemblGRCm38mm10GRCm38
MGSCv377120,350,979 - 120,457,636 (+)NCBIGRCm37mm9NCBIm37
MGSCv367112,998,646 - 113,105,303 (+)NCBImm8
Celera7113,186,397 - 113,287,835 (+)NCBICelera
Cytogenetic Map7F1NCBI
cM Map759.17NCBI
Arntl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541428,684,226 - 28,748,360 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541428,652,663 - 28,748,360 (+)NCBIChiLan1.0ChiLan1.0
ARNTL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11113,163,028 - 13,240,376 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1113,163,028 - 13,240,376 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01113,436,580 - 13,547,135 (+)NCBIMhudiblu_PPA_v0panPan3
ARNTL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12136,254,235 - 36,323,915 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2136,290,070 - 36,323,622 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2135,726,263 - 35,827,668 (+)NCBI
ROS_Cfam_1.02137,105,577 - 37,207,038 (+)NCBI
UMICH_Zoey_3.12136,364,101 - 36,465,527 (+)NCBI
UNSW_CanFamBas_1.02136,540,532 - 36,641,924 (+)NCBI
UU_Cfam_GSD_1.02136,829,310 - 36,930,753 (+)NCBI
Arntl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494749,133,675 - 49,231,340 (-)NCBI
SpeTri2.0NW_0049365285,167,611 - 5,239,128 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARNTL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl245,895,289 - 46,025,165 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1245,895,637 - 46,025,174 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2249,303,279 - 49,335,397 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARNTL
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1151,430,670 - 51,540,344 (-)NCBI
ChlSab1.1 Ensembl151,431,180 - 51,462,674 (-)Ensembl
Vero_WHO_p1.0NW_023666038149,016,016 - 149,124,776 (-)NCBI
Arntl
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247665,295,120 - 5,391,645 (+)NCBI

Position Markers
BM387564  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,382,554 - 167,382,704 (+)MAPPER
Rnor_6.01178,089,797 - 178,089,946NCBIRnor6.0
Rnor_5.01185,057,937 - 185,058,086UniSTSRnor5.0
RGSC_v3.41171,114,736 - 171,114,885UniSTSRGSC3.4
Celera1165,253,308 - 165,253,457UniSTS
RH 3.4 Map11318.5UniSTS
Cytogenetic Map1q34UniSTS
UniSTS:224416  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,367,349 - 167,367,440 (+)MAPPER
Rnor_6.01178,074,593 - 178,074,683NCBIRnor6.0
Rnor_5.01185,042,851 - 185,042,941UniSTSRnor5.0
RGSC_v3.41171,097,580 - 171,097,670UniSTSRGSC3.4
Celera1165,238,080 - 165,238,170UniSTS
Cytogenetic Map1q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)199983293216325819Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1153655976198655976Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1124603592188289386Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1126240667217054291Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1133946489178946489Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1156446196214277437Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)194201400184846632Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1153655976198655976Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)199983293216213510Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)199983293198656062Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1133076978178076978Rat
737974Bp161Blood pressure QTL 1610.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1175447162197963658Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)199983293188289386Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1141296374186296374Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1141296374186296374Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1153656062198656062Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779148198585664Rat
631548Bp88Blood pressure QTL 8850.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1167394665191883991Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1130779148199254774Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1156446783188289244Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1133076978184188922Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1130779148199254774Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1122614824201146953Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1144395993189395993Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1130779148199254774Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
2312558Glom17Glomerulus QTL 173.90.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1177235071208786962Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1169971964214971964Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)194201400197187904Rat
1582204Livw1Liver weight QTL 13.60.0003liver mass (VT:0003402)liver weight as percentage of body weight (CMO:0000141)1166100317188289386Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1167027868212027868Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1154337847215828102Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1156446783189514504Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1166577232211577232Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1144395993189395993Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1144395993189395993Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1106002252202571904Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1133076978178076978Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1134089429179089429Rat
8693608Alc24Alcohol consumption QTL 242.30.74drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)1161072673178935582Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1148
Count of miRNA genes:326
Interacting mature miRNAs:431
Transcripts:ENSRNOT00000019645, ENSRNOT00000046313
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 12 35 23 18 23 4 4 64 17 20 8 4
Low 1 31 22 18 1 18 4 7 10 18 21 3 4
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_024362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006230030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589066 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109748 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109763 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109778 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB012600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC098214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF015953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF317669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC099833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000046313   ⟹   ENSRNOP00000042830
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1178,039,063 - 178,137,465 (+)Ensembl
RefSeq Acc Id: NM_024362   ⟹   NP_077338
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,820 - 167,430,235 (+)NCBI
Rnor_6.01178,039,063 - 178,137,469 (+)NCBI
Rnor_5.01185,007,527 - 185,105,413 (+)NCBI
RGSC_v3.41171,062,181 - 171,162,426 (+)RGD
Celera1165,202,275 - 165,299,946 (+)RGD
Sequence:
RefSeq Acc Id: XM_006230029   ⟹   XP_006230091
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,759 - 167,430,235 (+)NCBI
Rnor_6.01178,039,004 - 178,137,469 (+)NCBI
Rnor_5.01185,007,527 - 185,105,413 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006230030   ⟹   XP_006230092
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,757 - 167,430,235 (+)NCBI
Rnor_6.01178,039,003 - 178,137,469 (+)NCBI
Rnor_5.01185,007,527 - 185,105,413 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589065   ⟹   XP_017444554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,757 - 167,430,235 (+)NCBI
Rnor_6.01178,039,003 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589066   ⟹   XP_017444555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01178,093,342 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589067   ⟹   XP_017444556
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,757 - 167,430,235 (+)NCBI
Rnor_6.01178,039,003 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589068   ⟹   XP_017444557
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,756 - 167,430,235 (+)NCBI
Rnor_6.01178,039,002 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589069   ⟹   XP_017444558
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01178,107,163 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589070   ⟹   XP_017444559
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,399,868 - 167,430,235 (+)NCBI
Rnor_6.01178,107,150 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589071   ⟹   XP_017444560
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01178,107,163 - 178,137,469 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039109748   ⟹   XP_038965676
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,757 - 167,430,235 (+)NCBI
RefSeq Acc Id: XM_039109755   ⟹   XP_038965683
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,331,757 - 167,430,235 (+)NCBI
RefSeq Acc Id: XM_039109763   ⟹   XP_038965691
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,393,148 - 167,430,235 (+)NCBI
RefSeq Acc Id: XM_039109778   ⟹   XP_038965706
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,400,612 - 167,430,235 (+)NCBI
RefSeq Acc Id: XM_039109788   ⟹   XP_038965716
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,399,866 - 167,430,235 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_077338   ⟸   NM_024362
- UniProtKB: Q9EPW1 (UniProtKB/Swiss-Prot),   D3ZT62 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230091   ⟸   XM_006230029
- Peptide Label: isoform X3
- UniProtKB: Q9EPW1 (UniProtKB/Swiss-Prot),   D3ZT62 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006230092   ⟸   XM_006230030
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017444557   ⟸   XM_017589068
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017444556   ⟸   XM_017589067
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444554   ⟸   XM_017589065
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444555   ⟸   XM_017589066
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017444559   ⟸   XM_017589070
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017444558   ⟸   XM_017589069
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017444560   ⟸   XM_017589071
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSRNOP00000042830   ⟸   ENSRNOT00000046313
RefSeq Acc Id: XP_038965676   ⟸   XM_039109748
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965683   ⟸   XM_039109755
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965691   ⟸   XM_039109763
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965716   ⟸   XM_039109788
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038965706   ⟸   XM_039109778
- Peptide Label: isoform X5
Protein Domains
bHLH   PAC   PAS

Transcriptome

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

Promoters
RGD ID:13690323
Promoter ID:EPDNEW_R848
Type:initiation region
Name:Arntl_1
Description:aryl hydrocarbon receptor nuclear translocator-like
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01178,039,017 - 178,039,077EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62003 AgrOrtholog
Ensembl Genes ENSRNOG00000014448 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000042830 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000046313 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7936079 IMAGE-MGC_LOAD
InterPro bHLH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nuc_translocat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29657 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:124556 IMAGE-MGC_LOAD
NCBI Gene 29657 ENTREZGENE
Pfam HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Arntl PhenoGen
PRINTS NCTRNSLOCATR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BHLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PAS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF55785 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs sensory_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt BMAL1_RAT UniProtKB/Swiss-Prot
  D3ZT62 ENTREZGENE, UniProtKB/TrEMBL
  Q9EPW1 ENTREZGENE
UniProt Secondary O88337 UniProtKB/Swiss-Prot
  O88810 UniProtKB/Swiss-Prot
  Q499M8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Arntl  aryl hydrocarbon receptor nuclear translocator-like       Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression circadian rhythm of expression displayed in the suprachiasmatic nucleus (SCN), the site of the circadian clock, with the highest level at the subjective night 67927
gene_expression expressed in the olfactory bulb, hippocampus, and cerebellum 67927
gene_product member of the basic loop-helix-loop/PAS transcription factor family 61539
gene_product member of the basic loop-helix-loop/PAS transcription factor family 67927
gene_protein 626 amino acid 61539
gene_protein 626 amino acid 67927