Hes1 (hes family bHLH transcription factor 1) - Rat Genome Database

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Gene: Hes1 (hes family bHLH transcription factor 1) Rattus norvegicus
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Symbol: Hes1
Name: hes family bHLH transcription factor 1
RGD ID: 62081
Description: Enables several functions, including JUN kinase binding activity; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and identical protein binding activity. Involved in several processes, including cellular response to cytokine stimulus; generation of neurons; and regulation of gene expression. Located in chromatin and nuclear matrix. Used to study chronic myeloid leukemia and epilepsy. Biomarker of acute kidney failure. Orthologous to human HES1 (hes family bHLH transcription factor 1); PARTICIPATES IN Notch signaling pathway; maturity-onset diabetes of the young pathway; Notch signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 2-tert-butylhydroquinone.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: hairy and enhancer of split 1; hairy and enhancer of split 1 (Drosophila); hairy and enhancer of split 1, (Drosophila) ; hairy-like protein; RHL; transcription factor HES-1
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
mRatBN7.21170,705,763 - 70,708,176 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1170,705,764 - 70,708,192 (-)Ensembl
Rnor_6.01174,312,837 - 74,315,249 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1174,312,806 - 74,315,248 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01177,360,109 - 77,362,521 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41172,603,482 - 72,605,673 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11172,661,439 - 72,663,801 (-)NCBI
Celera1169,677,011 - 69,679,422 (-)NCBICelera
Cytogenetic Map11q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-tert-butylhydroquinone  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroperoxycyclophosphamide  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetaldehyde  (ISO)
aconitine  (EXP,ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (EXP)
ammonium chloride  (EXP)
antimycin A  (ISO)
antirheumatic drug  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azoxystrobin  (EXP)
baicalein  (ISO)
baicalin  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
captan  (ISO)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
chloropicrin  (ISO)
chlorpyrifos  (EXP,ISO)
choline  (ISO)
cis-caffeic acid  (EXP)
cisplatin  (ISO)
clofibrate  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
DAPT  (EXP,ISO)
Deguelin  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl disulfide  (EXP)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diethylstilbestrol  (EXP)
dioxygen  (EXP,ISO)
disulfiram  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
Enterolactone  (ISO)
enzalutamide  (ISO)
ethyl methanesulfonate  (ISO)
fenofibrate  (ISO)
fenpyroximate  (ISO)
flavonoids  (EXP)
fluoranthene  (ISO)
fluoxetine  (EXP)
flusilazole  (ISO)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
glyphosate  (EXP,ISO)
hexaconazole  (ISO)
hydrogen peroxide  (ISO)
imidacloprid  (EXP)
indometacin  (ISO)
irinotecan  (ISO)
isoprenaline  (ISO)
juglone  (ISO)
L-ascorbic acid  (EXP)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
leflunomide  (ISO)
mebendazole  (ISO)
menadione  (ISO)
methamphetamine  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (EXP,ISO)
mifepristone  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
nickel sulfate  (ISO)
niclosamide  (EXP,ISO)
nitrofen  (EXP)
ochratoxin A  (EXP)
orphenadrine  (EXP)
oxaliplatin  (EXP,ISO)
oxidopamine  (EXP,ISO)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
Paeonol  (EXP)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (EXP)
phenol  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
pluronic P-123  (EXP)
Poloxamer  (EXP)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propiconazole  (ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
retinyl acetate  (ISO)
rotenone  (EXP)
Salidroside  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
tebufenpyrad  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thiabendazole  (EXP)
thimerosal  (ISO)
thioacetamide  (EXP)
thyroxine  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
trans-caffeic acid  (EXP)
triadimefon  (ISO)
Tributyltin oxide  (EXP)
trichostatin A  (ISO)
Triptolide  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tunicamycin  (ISO)
tyrphostin AG 1478  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vitamin E  (EXP,ISO)
XL147  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adenohypophysis development  (IEA,ISO)
anterior/posterior pattern specification  (IBA)
aorta morphogenesis  (ISO)
artery morphogenesis  (ISO)
ascending aorta morphogenesis  (IEA,ISO)
cardiac neural crest cell development involved in outflow tract morphogenesis  (IEA,ISO)
cell adhesion  (IEA,ISO)
cell fate commitment  (ISO)
cell maturation  (IEA,ISO)
cell migration  (IEA,ISO)
cell morphogenesis involved in neuron differentiation  (IEA,ISO)
cellular response to fatty acid  (IEP)
cellular response to interleukin-1  (IEP)
cellular response to nerve growth factor stimulus  (IMP)
cellular response to tumor necrosis factor  (IEP)
cochlea development  (IEA,ISO)
comma-shaped body morphogenesis  (IEA,ISO)
common bile duct development  (IEA,ISO)
embryonic heart tube morphogenesis  (IEA,ISO)
establishment of epithelial cell polarity  (IEA,ISO)
forebrain radial glial cell differentiation  (IDA)
glomerulus vasculature development  (IEA,ISO)
hair cell differentiation  (IMP)
hindbrain morphogenesis  (IEA,ISO)
in utero embryonic development  (ISO)
inner ear receptor cell stereocilium organization  (IEA,ISO)
labyrinthine layer blood vessel development  (IEA,ISO)
lateral inhibition  (IEA,ISO)
liver development  (IEA,ISO)
lung development  (IEA,ISO)
metanephric nephron tubule morphogenesis  (IEA,ISO)
midbrain development  (IEA,ISO)
midbrain-hindbrain boundary morphogenesis  (IEA,ISO)
negative regulation of calcium ion import  (IMP)
negative regulation of cell differentiation  (ISO)
negative regulation of cell fate determination  (IEA,ISO)
negative regulation of DNA-binding transcription factor activity  (IEA,ISO)
negative regulation of forebrain neuron differentiation  (IDA)
negative regulation of gene expression  (IMP)
negative regulation of glial cell proliferation  (IEA,ISO,ISS)
negative regulation of inner ear auditory receptor cell differentiation  (IEA,ISO)
negative regulation of inner ear receptor cell differentiation  (ISO)
negative regulation of neurogenesis  (IMP)
negative regulation of neuron differentiation  (IBA,ISO)
negative regulation of neuron projection development  (IMP)
negative regulation of oligodendrocyte differentiation  (IEA,IMP,ISO,ISS)
negative regulation of pancreatic A cell differentiation  (IEA,ISO)
negative regulation of pro-B cell differentiation  (IEA,ISO,ISS)
negative regulation of stem cell differentiation  (IEA,ISO)
negative regulation of stomach neuroendocrine cell differentiation  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IDA,IEA,IMP,ISO)
negative regulation of transcription, DNA-templated  (IDA,ISO)
neural tube development  (ISO)
neuron differentiation  (IEP)
neuronal stem cell population maintenance  (IDA,IEA,ISO)
Notch signaling pathway  (IBA,IEA,ISO)
oculomotor nerve development  (IEA,ISO)
outflow tract morphogenesis  (ISO)
pancreas development  (IEA,ISO)
pattern specification process  (ISO)
pharyngeal arch artery morphogenesis  (IEA,ISO)
pituitary gland development  (ISO)
positive regulation of astrocyte differentiation  (IEA,ISO,ISS)
positive regulation of BMP signaling pathway  (IEA,ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of DNA binding  (IEA,ISO,ISS)
positive regulation of gene expression  (IMP)
positive regulation of glial cell differentiation  (IMP)
positive regulation of mitotic cell cycle, embryonic  (IEA,ISO)
positive regulation of Notch signaling pathway  (IEA,ISO)
positive regulation of receptor signaling pathway via JAK-STAT  (IEA,ISO,ISS)
positive regulation of T cell proliferation  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of transcription, DNA-templated  (ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (IEA,ISO,ISS)
protein-containing complex assembly  (IEA,ISO,ISS)
regulation of epithelial cell proliferation  (IEA,ISO)
regulation of fat cell differentiation  (IEA,ISO)
regulation of neurogenesis  (IBA,ISO)
regulation of protein-containing complex assembly  (IDA)
regulation of receptor signaling pathway via JAK-STAT  (ISO,ISS)
regulation of secondary heart field cardioblast proliferation  (IEA,ISO)
regulation of timing of cell differentiation  (ISO)
regulation of timing of neuron differentiation  (IEA,ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO)
renal interstitial fibroblast development  (IEA,ISO)
response to alkaloid  (IEP)
response to organic cyclic compound  (IEP)
response to thyroid hormone  (IEP)
S-shaped body morphogenesis  (IEA,ISO)
smoothened signaling pathway  (IEA,ISO)
somatic stem cell population maintenance  (IEA,ISO)
telencephalon development  (IEA,ISO)
thymus development  (IEA,ISO)
trochlear nerve development  (IEA,ISO)
ureteric bud morphogenesis  (IEA,ISO)
vascular associated smooth muscle cell development  (IEA,ISO)
ventricular septum development  (ISO)
ventricular septum morphogenesis  (IEA,ISO)

Cellular Component
chromatin  (IDA)
cytoplasm  (IEA,ISO)
nuclear matrix  (IDA)
nucleoplasm  (IEA,ISO,TAS)
nucleus  (IBA,ISO,ISS)
protein-containing complex  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bansal R, etal., Brain Res Dev Brain Res. 2005 Apr 21;156(1):13-22.
2. Feder JN, etal., Mol Cell Biol 1993 Jan;13(1):105-13.
3. Fischer A and Gessler M, Nucleic Acids Res. 2007;35(14):4583-96. Epub 2007 Jun 22.
4. Fisher AL, etal., Mol Cell Biol. 1996 Jun;16(6):2670-7.
5. Furukawa T, etal., Neuron 2000 May;26(2):383-94.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Grbavec D and Stifani S, Biochem Biophys Res Commun. 1996 Jun 25;223(3):701-5.
8. Huang RF, etal., Zhongguo Zhong Xi Yi Jie He Za Zhi. 2013 Aug;33(8):1116-21.
9. Iso T, etal., Mol Cell Biol. 2001 Sep;21(17):6080-9.
10. Jessen U, etal., J Neurosci Res 2003 Jan 1;71(1):1-6.
11. Ju BG, etal., Cell. 2004 Dec 17;119(6):815-29.
12. Katakura M, etal., Neuroscience. 2009 May 19;160(3):651-60. doi: 10.1016/j.neuroscience.2009.02.057. Epub 2009 Mar 9.
13. Lin CH and Lee EH, J Neurosci. 2012 Feb 1;32(5):1826-46. doi: 10.1523/JNEUROSCI.3380-11.2012.
14. Long Q, etal., Brain Res. 2013 Sep 26;1532:1-13. doi: 10.1016/j.brainres.2013.07.020. Epub 2013 Aug 6.
15. McLarren KW, etal., J Biol Chem. 2000 Jan 7;275(1):530-8.
16. McLarren KW, etal., J Biol Chem. 2001 Jan 12;276(2):1578-84.
17. MGD data from the GO Consortium
18. Nakahara F, etal., Blood. 2010 Apr 8;115(14):2872-81. doi: 10.1182/blood-2009-05-222836. Epub 2009 Oct 27.
19. NCBI rat LocusLink and RefSeq merged data July 26, 2002
20. Ohtsuka T, etal., Cell Tissue Res. 1998 Jul;293(1):23-9.
21. Ohtsuka T, etal., J Biol Chem. 2001 Aug 10;276(32):30467-74. Epub 2001 Jun 8.
22. Pipeline to import KEGG annotations from KEGG into RGD
23. RGD automated data pipeline
24. RGD automated import pipeline for gene-chemical interactions
25. Sasai Y, etal., Genes Dev 1992 Dec;6(12B):2620-34.
26. Simic D, etal., Gene Expr. 2013;16(1):39-47.
27. Strom A, etal., Genes Dev. 1997 Dec 1;11(23):3168-81.
28. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
29. Wang H, etal., J Biol Chem. 2013 Jun 7;288(23):16761-74. doi: 10.1074/jbc.M112.446633. Epub 2013 Apr 15.
30. Wang SY, etal., Neuroscience. 2015 Aug 20;301:276-88. doi: 10.1016/j.neuroscience.2015.06.002. Epub 2015 Jun 8.
31. Wu Y, etal., Dev Dyn. 2003 Apr;226(4):675-89.
32. Yang ZY, etal., Mol Med Rep. 2013 May;7(5):1533-8. doi: 10.3892/mmr.2013.1398. Epub 2013 Mar 27.
33. Yao J, etal., Mol Cell Biol. 2001 Mar;21(6):1962-72.
34. Zhang Y, etal., J Cell Biochem. 2009 Oct 15;108(3):651-9. doi: 10.1002/jcb.22299.
35. Zheng JL, etal., Development. 2000 Nov;127(21):4551-60.
Additional References at PubMed
PMID:8543157   PMID:10205173   PMID:10615124   PMID:10804175   PMID:10851137   PMID:10952889   PMID:11260262   PMID:11425898   PMID:11500373   PMID:12032823   PMID:12208538   PMID:12477932  
PMID:12488457   PMID:12535671   PMID:14764602   PMID:15060169   PMID:15156153   PMID:15465493   PMID:15489334   PMID:15496443   PMID:15578515   PMID:15645444   PMID:15821257   PMID:15870295  
PMID:16038893   PMID:16160079   PMID:16201968   PMID:16314515   PMID:16335396   PMID:16489008   PMID:17015435   PMID:17079689   PMID:17426285   PMID:17681138   PMID:18173746   PMID:18302773  
PMID:18579678   PMID:18996108   PMID:19050759   PMID:19124651   PMID:19609448   PMID:19619492   PMID:19682396   PMID:19840854   PMID:20122914   PMID:20628571   PMID:21259317   PMID:21300049  
PMID:21332343   PMID:22334042   PMID:22521826   PMID:22960268   PMID:22989188   PMID:23284756   PMID:23595520   PMID:24098462   PMID:24270810   PMID:24300895   PMID:24927445   PMID:25431316  
PMID:25535395   PMID:25624721   PMID:28689657   PMID:29750292   PMID:30107165   PMID:31454988   PMID:31476403  


Genomics

Comparative Map Data
Hes1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21170,705,763 - 70,708,176 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1170,705,764 - 70,708,192 (-)Ensembl
Rnor_6.01174,312,837 - 74,315,249 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1174,312,806 - 74,315,248 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01177,360,109 - 77,362,521 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41172,603,482 - 72,605,673 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11172,661,439 - 72,663,801 (-)NCBI
Celera1169,677,011 - 69,679,422 (-)NCBICelera
Cytogenetic Map11q22NCBI
HES1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3194,136,148 - 194,138,732 (+)EnsemblGRCh38hg38GRCh38
GRCh383194,136,148 - 194,138,732 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373193,853,937 - 193,856,521 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363195,336,628 - 195,339,090 (+)NCBINCBI36hg18NCBI36
Celera3192,270,388 - 192,272,854 (+)NCBI
Cytogenetic Map3q29NCBI
HuRef3191,241,261 - 191,243,734 (+)NCBIHuRef
CHM1_13193,816,827 - 193,819,297 (+)NCBICHM1_1
Hes1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391629,884,175 - 29,886,614 (+)NCBIGRCm39mm39
GRCm39 Ensembl1629,883,202 - 29,886,614 (+)Ensembl
GRCm381630,065,357 - 30,067,796 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1630,064,384 - 30,067,796 (+)EnsemblGRCm38mm10GRCm38
MGSCv371630,065,443 - 30,067,882 (+)NCBIGRCm37mm9NCBIm37
MGSCv361629,985,104 - 29,987,543 (+)NCBImm8
Celera1630,572,496 - 30,574,749 (+)NCBICelera
Cytogenetic Map16B2NCBI
cM Map1621.09NCBI
Hes1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542014,564,283 - 14,568,447 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542014,565,921 - 14,568,447 (-)NCBIChiLan1.0ChiLan1.0
HES1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13201,749,044 - 201,751,591 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3201,749,044 - 201,754,257 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03191,432,513 - 191,435,387 (+)NCBIMhudiblu_PPA_v0panPan3
HES1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha2352,257,121 - 52,259,752 (+)NCBI
ROS_Cfam_1.02353,157,666 - 53,160,303 (+)NCBI
UMICH_Zoey_3.12352,667,374 - 52,670,002 (+)NCBI
UNSW_CanFamBas_1.02352,721,885 - 52,724,518 (+)NCBI
UU_Cfam_GSD_1.02353,007,809 - 53,010,447 (+)NCBI
Hes1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602123,607,220 - 123,609,806 (+)NCBI
SpeTri2.0NW_004936711640,002 - 642,580 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HES1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13131,135,724 - 131,138,236 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113131,135,970 - 131,137,865 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213140,633,207 - 140,635,734 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HES1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11588,220,093 - 88,222,563 (+)NCBI
ChlSab1.1 Ensembl1588,220,083 - 88,223,243 (+)Ensembl
Vero_WHO_p1.0NW_02366604161,888,842 - 61,891,572 (+)NCBI
Hes1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473063,563,848 - 63,566,303 (-)NCBI

Position Markers
Hes1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21170,705,834 - 70,706,235 (+)MAPPERmRatBN7.2
Rnor_6.01174,312,909 - 74,313,309NCBIRnor6.0
Rnor_5.01177,360,181 - 77,360,581UniSTSRnor5.0
RGSC_v3.41172,603,554 - 72,603,954UniSTSRGSC3.4
Celera1169,677,081 - 69,677,481UniSTS
Cytogenetic Map11q22UniSTS
UniSTS:259614  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21170,706,517 - 70,707,894 (+)MAPPERmRatBN7.2
Rnor_6.01174,313,592 - 74,314,967NCBIRnor6.0
Rnor_5.01177,360,864 - 77,362,239UniSTSRnor5.0
RGSC_v3.41172,604,237 - 72,605,391UniSTSRGSC3.4
Celera1169,677,764 - 69,679,140UniSTS
Cytogenetic Map11q22UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
1549848Bvd6Brain ventricular dilatation QTL 63.10.0001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116611332182169223Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat
1354656Bvd3Brain ventricular dilatation QTL 33.640.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)116944607082846715Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:275
Count of miRNA genes:187
Interacting mature miRNAs:209
Transcripts:ENSRNOT00000002346
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 42 47 34 19 34 2 2 49 35 35 11 2
Low 1 10 7 7 6 9 25 6 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002346   ⟹   ENSRNOP00000002346
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1170,705,764 - 70,708,192 (-)Ensembl
Rnor_6.0 Ensembl1174,312,806 - 74,315,248 (-)Ensembl
RefSeq Acc Id: NM_024360   ⟹   NP_077336
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21170,705,763 - 70,708,176 (-)NCBI
Rnor_6.01174,312,837 - 74,315,249 (-)NCBI
Rnor_5.01177,360,109 - 77,362,521 (-)NCBI
RGSC_v3.41172,603,482 - 72,605,673 (-)RGD
Celera1169,677,011 - 69,679,422 (-)RGD
Sequence:
RefSeq Acc Id: XM_039088256   ⟹   XP_038944184
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21170,705,763 - 70,707,297 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_077336   ⟸   NM_024360
- UniProtKB: Q04666 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002346   ⟸   ENSRNOT00000002346
RefSeq Acc Id: XP_038944184   ⟸   XM_039088256
- Peptide Label: isoform X1
Protein Domains
bHLH   Orange

Transcriptome

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

Promoters
RGD ID:13698229
Promoter ID:EPDNEW_R8754
Type:single initiation site
Name:Hes1_1
Description:hes family bHLH transcription factor 1
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_6.01174,315,288 - 74,315,348EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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)
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
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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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)
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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
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62081 AgrOrtholog
Ensembl Genes ENSRNOG00000001720 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002346 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002346 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5598665 IMAGE-MGC_LOAD
InterPro bHLH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Orange_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29577 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72257 IMAGE-MGC_LOAD
NCBI Gene 29577 ENTREZGENE
Pfam Hairy_orange UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Hes1 PhenoGen
PROSITE BHLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ORANGE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HLH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ORANGE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC218844
UniProt D4ADT9_RAT UniProtKB/TrEMBL
  F7J211_RAT UniProtKB/TrEMBL
  HES1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-11 Hes1  hes family bHLH transcription factor 1  Hes1  hairy and enhancer of split 1 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Hes1  hairy and enhancer of split 1 (Drosophila)       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference