Srebf1 (sterol regulatory element binding transcription factor 1) - Rat Genome Database

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Gene: Srebf1 (sterol regulatory element binding transcription factor 1) Rattus norvegicus
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Symbol: Srebf1
Name: sterol regulatory element binding transcription factor 1
RGD ID: 69423
Description: Exhibits DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Involved in several processes, including response to peptide hormone; response to progesterone; and response to retinoic acid. Localizes to nucleus and protein-containing complex. Biomarker of alcoholic hepatitis; diabetic neuropathy; kidney disease; lipid storage disease (multiple); and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in disease of metabolism and type 2 diabetes mellitus. Orthologous to human SREBF1 (sterol regulatory element binding transcription factor 1); PARTICIPATES IN mTOR signaling pathway; sterol regulatory element-binding protein signaling pathway; insulin signaling pathway; INTERACTS WITH (+)-catechin; (-)-cotinine; (25R)-cholest-5-ene-3beta,26-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: ADD-1; ADD1; adipocyte determination- and differentiation-dependent factor 1; SREBP-1; SREBP-1c; Srebp1; sterol regulatory element binding factor 1; sterol regulatory element-binding protein 1; sterol regulatory element-binding transcription factor 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Srebf1_v1   Srebf1_v2  
Is Marker For: Strains:   SHR.BN-(D10Mgh3-Srebf1)/Ipcv  
QTLs:   Hpcl2  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21045,007,637 - 45,029,650 (-)NCBI
Rnor_6.0 Ensembl1046,570,996 - 46,593,009 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01046,570,996 - 46,593,021 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01046,326,015 - 46,348,035 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41046,461,684 - 46,483,646 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1044,264,866 - 44,286,830 (-)NCBICelera
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (EXP)
(-)-cotinine  (EXP)
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(2,4,5-trichlorophenoxy)acetic acid  (ISO)
(25R)-cholest-5-ene-3beta,26-diol  (EXP)
(R)-carnitine  (EXP)
(R)-lipoic acid  (EXP)
(S)-nicotine  (EXP,ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP,ISO)
1,10-phenanthroline  (ISO)
1,2,3,4,6-pentakis-O-galloyl-beta-D-glucose  (ISO)
1,3-dichloropropan-2-ol  (ISO)
1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile  (ISO)
1-benzylpiperazine  (EXP)
1-naphthyl isothiocyanate  (EXP)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-amino-2-deoxy-D-glucopyranose 6-phosphate  (ISO)
2-deoxy-D-glucose  (ISO)
2-naphthylamine  (ISO)
22-Hydroxycholesterol  (ISO)
25-hydroxycholesterol  (ISO)
26-hydroxycholesterol  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,3',5-triiodo-L-thyronine  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-phenylprop-2-enal  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-nonylphenol  (EXP)
4-phenylbutyric acid  (EXP)
4-tert-Octylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
6-(4-chlorophenyl)imidazo[2,1-b][1,3]thiazole-5-carbaldehyde O-(3,4-dichlorobenzyl)oxime  (ISO)
8'-apo-beta,psi-caroten-8'-al  (ISO)
8-Br-cAMP  (ISO)
9-cis,11-trans-octadecadienoic acid  (ISO)
9-cis-retinoic acid  (ISO)
acadesine  (ISO)
acetaldehyde  (EXP,ISO)
acetamide  (EXP)
acetylleucyl-leucyl-norleucinal  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
alcohol  (ISO)
aldehydo-D-glucosamine 6-phosphate  (ISO)
aldehydo-D-glucose  (EXP,ISO)
aldrin  (ISO)
all-trans-retinoic acid  (ISO)
alliin  (ISO)
allopurinol  (EXP,ISO)
alpha-D-galactose  (ISO)
alpha-linolenic acid  (EXP)
alpha-pinene  (ISO)
amiodarone  (EXP,ISO)
amitriptyline  (ISO)
amlexanox  (ISO)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
apigenin  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (EXP)
atrazine  (ISO)
Azaspiracid  (ISO)
AZD4547  (ISO)
azoxystrobin  (ISO)
baicalein  (ISO)
benzene  (EXP,ISO)
benzo[a]pyrene  (EXP,ISO)
benzylpenicillin  (ISO)
berberine  (ISO)
beta-carotene  (ISO)
beta-D-glucosamine 6-sulfate  (ISO)
beta-hexachlorocyclohexane  (ISO)
beta-naphthoflavone  (ISO)
betulin  (ISO)
bexarotene  (EXP,ISO)
bezafibrate  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (EXP)
boric acid  (ISO)
bromobenzene  (EXP)
buspirone  (EXP)
buta-1,3-diene  (ISO)
butyric acid  (ISO)
C60 fullerene  (EXP)
Cacalol  (ISO)
cadmium atom  (EXP)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calcitriol  (ISO)
carbendazim  (ISO)
CARBENOXOLONE  (EXP)
carbon nanotube  (ISO)
carvedilol  (EXP)
cerivastatin  (ISO)
chenodeoxycholic acid  (ISO)
chitosan  (EXP)
chloroethene  (ISO)
chlorohydrocarbon  (ISO)
cholate  (EXP)
cholesterol  (ISO)
choline  (EXP,ISO)
ciguatoxin CTX1B  (ISO)
cis-caffeic acid  (ISO)
cisplatin  (ISO)
citalopram  (ISO)
clofazimine  (EXP)
clofibrate  (EXP,ISO)
clomipramine  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
corticosterone  (EXP,ISO)
cortisol  (ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
cyhalothrin  (EXP)
D-gluconic acid  (EXP)
D-glucose  (EXP,ISO)
D-penicillamine  (ISO)
dabrafenib  (ISO)
dapagliflozin  (EXP)
DDE  (ISO)
deoxypodophyllotoxin  (ISO)
depsipeptide  (ISO)
desmosterol  (ISO)
dexamethasone  (ISO)
Diallyl sulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
dichloroacetic acid  (ISO)
diethyl maleate  (EXP)
diethylstilbestrol  (ISO)
dihydroartemisinin  (EXP,ISO)
dimethyl sulfoxide  (EXP)
dioxygen  (ISO)
disodium selenite  (EXP,ISO)
disulfiram  (ISO)
dorsomorphin  (EXP,ISO)
doxorubicin  (EXP,ISO)
efavirenz  (ISO)
elemental selenium  (EXP,ISO)
endosulfan  (EXP)
entinostat  (ISO)
erythromycin A  (ISO)
erythromycin estolate  (EXP)
ethanol  (EXP,ISO)
ethyl methanesulfonate  (ISO)
ezetimibe  (ISO)
fenofibrate  (EXP,ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fructose  (EXP,ISO)
fumonisin B1  (ISO)
furan  (EXP)
gadolinium trichloride  (EXP)
galactose  (ISO)
gamma-hexachlorocyclohexane  (EXP)
Ganoderic acid A  (ISO)
Gastrodin  (ISO)
gefitinib  (ISO)
genistein  (ISO)
geraniol  (EXP)
ginsenoside Re  (ISO)
glucagon  (ISO)
glucose  (EXP,ISO)
glutathione  (ISO)
glycerol 2-phosphate  (ISO)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
guggulsterone  (EXP,ISO)
GW 3965  (EXP,ISO)
GW 4064  (ISO)
GW 6471  (ISO)
GW 7647  (ISO)
herbacetin  (ISO)
hexadecanoic acid  (EXP,ISO)
Honokiol  (EXP)
hydrazines  (ISO)
hydrogen peroxide  (ISO)
imidacloprid  (ISO)
imipramine  (ISO)
indole-3-methanol  (EXP)
kahweol  (ISO)
ketamine  (EXP)
ketotifen  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (EXP,ISO)
L-serine  (ISO)
linoleic acid  (EXP)
lipoic acid  (EXP)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
losartan  (EXP)
lovastatin  (ISO)
luteolin  (ISO)
LY294002  (EXP,ISO)
magnesium atom  (EXP)
Magnolol  (EXP)
melatonin  (ISO)
metformin  (EXP,ISO)
methyl methanesulfonate  (ISO)
mevastatin  (EXP,ISO)
microcystin-LR  (ISO)
miquelianin  (EXP)
mirtazapine  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monocrotophos  (EXP)
monosodium L-glutamate  (EXP,ISO)
myricetin  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-methylformamide  (ISO)
N-methylnicotinate  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
N-Nitrosopyrrolidine  (ISO)
naloxone  (EXP)
naringin  (ISO)
nefazodone  (EXP)
nelfinavir  (ISO)
nevirapine  (EXP,ISO)
nicotinamide  (ISO)
nicotine  (EXP,ISO)
nimesulide  (EXP)
O-methyleugenol  (ISO)
obeticholic acid  (EXP,ISO)
olanzapine  (ISO)
olaparib  (ISO)
oleanolic acid  (ISO)
oleic acid  (EXP,ISO)
oleuropein  (EXP)
Olmesartan medoxomil  (EXP)
orlistat  (ISO)
oroxylin A  (ISO)
ozone  (EXP,ISO)
p-menthan-3-ol  (ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (EXP,ISO)
Paxilline  (ISO)
PD 168393  (EXP)
penconazole  (ISO)
perfluorododecanoic acid  (EXP)
perfluorononanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (EXP,ISO)
permethrin  (ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
picolinic acid  (ISO)
pirinixic acid  (EXP,ISO)
platycodin D  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
progesterone  (EXP,ISO)
propamocarb  (ISO)
propiconazole  (ISO)
puerarin  (ISO)
Pyridostigmine bromide  (ISO)
quercetin  (EXP,ISO)
raffinose  (ISO)
raloxifene  (ISO)
reactive oxygen species  (ISO)
resveratrol  (EXP,ISO)
risperidone  (ISO)
ritonavir  (ISO)
rotenone  (EXP,ISO)
S-allylcysteine  (ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (EXP)
salubrinal  (EXP)
SB 431542  (ISO)
scopoletin  (EXP)
selenium atom  (EXP,ISO)
selenomethionine  (ISO)
silibinin  (ISO)
simvastatin  (EXP,ISO)
sirolimus  (ISO)
sirtinol  (ISO)
sodium arsenite  (ISO)
sodium cholate  (ISO)
sodium dichromate  (EXP)
starch  (EXP)
stavudine  (EXP)
streptozocin  (EXP,ISO)
sucrose  (EXP,ISO)
sulforaphane  (EXP,ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tauroursodeoxycholic acid  (EXP)
tebuconazole  (ISO)
testosterone  (ISO)
testosterone cypionate  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP,ISO)
tetramethylpyrazine  (ISO)
thapsigargin  (EXP,ISO)
theophylline  (EXP)
thioacetamide  (EXP)
thymol  (ISO)
thymol sulfate(1-)  (ISO)
topiramate  (EXP)
trametinib  (ISO)
trans-caffeic acid  (ISO)
tributyl phosphate  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (EXP,ISO)
triclosan  (ISO)
triolein  (ISO)
triphenyl phosphate  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP,ISO)
trovafloxacin  (EXP)
tunicamycin  (EXP,ISO)
tyrphostin AG 1478  (EXP)
valdecoxib  (EXP)
valproic acid  (ISO)
vemurafenib  (ISO)
vincristine  (ISO)
wortmannin  (EXP)
xylose  (ISO)
Y-27632  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
cellular response to fatty acid  (IEP)
cellular response to insulin stimulus  (IEP)
cellular response to starvation  (IDA,ISO)
cholesterol metabolic process  (IMP)
circadian rhythm  (ISO)
fat cell differentiation  (ISO)
insulin receptor signaling pathway  (ISO)
intracellular receptor signaling pathway  (IEA)
lipid biosynthetic process  (ISO,ISS,TAS)
lipid localization  (IEP)
lung development  (IEP)
mRNA transcription by RNA polymerase II  (ISO)
negative regulation of insulin secretion  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
positive regulation of cholesterol biosynthetic process  (ISO,ISS)
positive regulation of histone deacetylation  (ISO)
positive regulation of innate immune response  (ISO)
positive regulation of lipid biosynthetic process  (ISO)
positive regulation of pri-miRNA transcription by RNA polymerase II  (ISO)
positive regulation of transcription by RNA polymerase II  (IDA,ISO)
positive regulation of transcription, DNA-templated  (IMP,ISO)
positive regulation of triglyceride biosynthetic process  (ISO,ISS)
regulation of autophagy of mitochondrion  (ISO)
regulation of fatty acid metabolic process  (ISO)
regulation of heart rate by chemical signal  (ISO)
regulation of insulin secretion  (ISO)
regulation of lipid storage  (IEP)
regulation of protein stability  (ISO)
regulation of protein targeting to mitochondrion  (ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO,ISS)
regulation of transcription, DNA-templated  (ISO)
response to cAMP  (IEP)
response to drug  (IEP)
response to ethanol  (IEP)
response to fatty acid  (IEP)
response to food  (IEP)
response to glucagon  (IEP)
response to glucose  (ISO)
response to insulin  (TAS)
response to lipid  (IEP)
response to organic cyclic compound  (IEP)
response to peptide hormone  (IEP)
response to progesterone  (IEP)
response to retinoic acid  (IEP)
SREBP signaling pathway  (ISO,ISS)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Amemiya-Kudo M, etal., J Biol Chem. 2005 Oct 14;280(41):34577-89. Epub 2005 Jul 29.
2. Boizard M, etal., J Biol Chem. 1998 Oct 30;273(44):29164-71.
3. Bonzon-Kulichenko E, etal., Endocrinology. 2009 Jan;150(1):169-78. Epub 2008 Sep 18.
4. Botolin D, etal., J Lipid Res. 2006 Jan;47(1):181-92. Epub 2005 Oct 12.
5. Carper MJ, etal., Am J Physiol Endocrinol Metab. 2008 Mar;294(3):E558-67. Epub 2008 Jan 2.
6. Cho EJ, etal., J Pharm Pharmacol. 2007 May;59(5):687-94.
7. Costet P, etal., J Biol Chem. 2006 Mar 10;281(10):6211-8. Epub 2006 Jan 6.
8. Desai M, etal., Reprod Sci. 2008 Oct;15(8):785-96.
9. Foretz M, etal., Mol Cell Biol. 1999 May;19(5):3760-8.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GOA data from the GO Consortium
12. Hu YB, etal., Drug Des Devel Ther. 2018 Jul 16;12:2213-2221. doi: 10.2147/DDDT.S170518. eCollection 2018.
13. Ishigaki N, etal., Biochem Biophys Res Commun. 2007 Dec 21;364(3):502-8. Epub 2007 Oct 16.
14. Jiang T, etal., J Am Soc Nephrol. 2005 Aug;16(8):2385-94. Epub 2005 Jun 8.
15. Jun H, etal., Histochem Cell Biol. 2009 Mar;131(3):327-45. Epub 2008 Dec 2.
16. Kim JM, etal., Exp Mol Med. 2006 Aug 31;38(4):385-92.
17. Lacasa D, etal., J Biol Chem. 2001 Apr 13;276(15):11512-6. Epub 2001 Jan 16.
18. Li Y, etal., Diabetes Metab Res Rev. 2008 Sep;24(6):498-506.
19. Liu JX, etal., Diabetes Res Clin Pract. 2008 Oct;82(1):42-7. Epub 2008 Aug 8.
20. MGD data from the GO Consortium
21. Nakamura S, etal., J Biol Chem. 2009 May 29;284(22):14809-18. doi: 10.1074/jbc.M901488200. Epub 2009 Mar 30.
22. NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Osborne TF and Espenshade PJ, Genes Dev. 2009 Nov 15;23(22):2578-91.
24. Ota T, etal., Gastroenterology. 2007 Jan;132(1):282-93. Epub 2006 Oct 12.
25. Ou J, etal., Proc Natl Acad Sci U S A 2001 May 22;98(11):6027-32.
26. Pallottini V, etal., J Cell Biochem. 2006 Aug 1;98(5):1044-53.
27. Park HJ, etal., Circ Res. 2009 May 7.
28. Pipeline to import KEGG annotations from KEGG into RGD
29. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
30. Pravenec M, etal., Hypertension. 2008 Jan;51(1):148-53. Epub 2007 Dec 10.
31. Pravenec M, etal., Mamm Genome 2001 Apr;12(4):295-8.
32. Proctor G, etal., Diabetes. 2006 Sep;55(9):2502-9.
33. Repa JJ, etal., Genes Dev. 2000 Nov 15;14(22):2819-30.
34. RGD automated data pipeline
35. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
36. RGD automated import pipeline for gene-chemical interactions
37. Sajan MP, etal., Diabetologia. 2009 Jun;52(6):1197-207. Epub 2009 Apr 9.
38. Sawada Y and Noda M, Mol Endocrinol. 1996 Oct;10(10):1238-48.
39. Sun L, etal., J Biol Chem 2002 May 24;277(21):18919-27.
40. Tamehiro N, etal., J Biol Chem. 2007 Jul 20;282(29):21090-9. Epub 2007 May 27.
41. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
42. Wang Z, etal., Diabetes. 2005 Aug;54(8):2328-35.
43. Wu J, etal., Am J Physiol. 1999 Dec;277(6 Pt 1):E1087-94.
44. Xu J, etal., J Nutr. 2002 Nov;132(11):3333-9.
45. Xu W, etal., Toxicol Appl Pharmacol. 2017 Jan 15;315:23-34. doi: 10.1016/j.taap.2016.12.001. Epub 2016 Dec 6.
46. Yellaturu CR, etal., J Biol Chem. 2009 Mar 20;284(12):7518-32. Epub 2009 Jan 21.
47. Yin HQ, et al., Toxicol Appl Pharmacol. 2009 Apr 1;236(1):124-30. doi: 10.1016/j.taap.2008.12.030. Epub 2009 Jan 24.
48. You M, etal., J Biol Chem 2002 Aug 9;277(32):29342-7.
49. Zhang F, etal., Am J Respir Cell Mol Biol 2004 Feb;30(2):174-83. Epub 2003 Aug 01.
Additional References at PubMed
PMID:7739539   PMID:8336713   PMID:9329978   PMID:11739104   PMID:11829742   PMID:12016216   PMID:12031952   PMID:12031958   PMID:12202038   PMID:12242332   PMID:12488438   PMID:12600983  
PMID:12764144   PMID:12771318   PMID:12865412   PMID:12941932   PMID:14505487   PMID:14654692   PMID:14668913   PMID:14674713   PMID:14744869   PMID:14988441   PMID:15001432   PMID:15037635  
PMID:15039461   PMID:15123649   PMID:15123720   PMID:15249218   PMID:15266058   PMID:15280151   PMID:15281019   PMID:15330762   PMID:15358760   PMID:15561928   PMID:15637161   PMID:15896314  
PMID:16002205   PMID:16046411   PMID:16091421   PMID:16092054   PMID:16100574   PMID:16380121   PMID:16554040   PMID:16772326   PMID:16787385   PMID:16834571   PMID:16890542   PMID:17074803  
PMID:17296605   PMID:17313375   PMID:17449871   PMID:17456898   PMID:17632011   PMID:17636037   PMID:18060044   PMID:18157544   PMID:18178930   PMID:18635549   PMID:18665039   PMID:18989661  
PMID:19125418   PMID:19244231   PMID:19299314   PMID:19366697   PMID:19375767   PMID:19564420   PMID:19616615   PMID:19672729   PMID:19682972   PMID:19716432   PMID:19786558   PMID:19966780  
PMID:20005944   PMID:20041157   PMID:20211032   PMID:20589757   PMID:20615871   PMID:21036148   PMID:21038676   PMID:21167679   PMID:21459323   PMID:21540177   PMID:21652712   PMID:21731709  
PMID:21757781   PMID:21906525   PMID:21986124   PMID:22031849   PMID:22093779   PMID:22292946   PMID:22331133   PMID:22415588   PMID:22511764   PMID:22645024   PMID:22898567   PMID:23028851  
PMID:23065593   PMID:23106379   PMID:23239524   PMID:23257266   PMID:23295202   PMID:23542164   PMID:23583293   PMID:23610160   PMID:23823476   PMID:23913732   PMID:24296663   PMID:24362725  
PMID:24425205   PMID:24625548   PMID:24912190   PMID:25046614   PMID:25348957   PMID:25398788   PMID:25616173   PMID:25796423   PMID:25847140   PMID:26218603   PMID:26327595   PMID:26437365  
PMID:26449613   PMID:26589965   PMID:27321819   PMID:27352290   PMID:27382175   PMID:27614840   PMID:27826032   PMID:28027934   PMID:28264426   PMID:28465347   PMID:28719803   PMID:29366380  
PMID:29627845   PMID:29735017   PMID:29952285   PMID:30998947   PMID:31677037   PMID:32332706  


Genomics

Candidate Gene Status
Srebf1 is a candidate Gene for QTL Hpcl1
Srebf1 is a candidate Gene for QTL Hpcl2
Comparative Map Data
Srebf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21045,007,637 - 45,029,650 (-)NCBI
Rnor_6.0 Ensembl1046,570,996 - 46,593,009 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01046,570,996 - 46,593,021 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01046,326,015 - 46,348,035 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41046,461,684 - 46,483,646 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1044,264,866 - 44,286,830 (-)NCBICelera
Cytogenetic Map10q22NCBI
SREBF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1717,810,399 - 17,837,002 (-)EnsemblGRCh38hg38GRCh38
GRCh381717,811,334 - 17,837,017 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371717,714,648 - 17,740,300 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361717,656,111 - 17,681,050 (-)NCBINCBI36hg18NCBI36
Build 341717,656,110 - 17,681,050NCBI
Celera1718,654,135 - 18,680,982 (-)NCBI
Cytogenetic Map17p11.2NCBI
HuRef1717,466,908 - 17,494,061 (-)NCBIHuRef
CHM1_11717,723,458 - 17,749,109 (-)NCBICHM1_1
Srebf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391160,089,910 - 60,113,407 (-)NCBIGRCm39mm39
GRCm39 Ensembl1160,089,915 - 60,113,407 (-)Ensembl
GRCm381160,199,084 - 60,224,186 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1160,199,089 - 60,222,581 (-)EnsemblGRCm38mm10GRCm38
MGSCv371160,012,591 - 60,034,106 (-)NCBIGRCm37mm9NCBIm37
MGSCv361160,015,284 - 60,036,799 (-)NCBImm8
Celera1166,655,030 - 66,676,425 (+)NCBICelera
Cytogenetic Map11B2NCBI
Srebf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955577171,425 - 186,046 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955577171,425 - 183,669 (+)NCBIChiLan1.0ChiLan1.0
SREBF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11738,405,794 - 38,432,045 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1738,405,794 - 38,432,045 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01733,458,196 - 33,484,643 (+)NCBIMhudiblu_PPA_v0panPan3
SREBF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1541,663,809 - 41,686,764 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl541,663,773 - 41,686,776 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha541,802,335 - 41,825,236 (+)NCBI
ROS_Cfam_1.0541,769,693 - 41,792,654 (+)NCBI
UMICH_Zoey_3.1541,737,352 - 41,760,245 (+)NCBI
UNSW_CanFamBas_1.0541,684,736 - 41,707,631 (+)NCBI
UU_Cfam_GSD_1.0541,876,687 - 41,899,587 (+)NCBI
Srebf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560261,447,521 - 61,458,579 (+)NCBI
SpeTri2.0NW_0049367411,408,669 - 1,419,717 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SREBF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1260,733,907 - 60,751,265 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11260,733,967 - 60,750,951 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SREBF1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11616,847,603 - 16,874,239 (-)NCBI
ChlSab1.1 Ensembl1616,845,491 - 16,859,554 (-)Ensembl
Vero_WHO_p1.0NW_0236660594,037,449 - 4,063,735 (+)NCBI
Srebf1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248493,602,103 - 3,623,922 (+)NCBI

Position Markers
PMC134715P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21045,014,834 - 45,014,914 (+)MAPPER
Rnor_6.01046,578,194 - 46,578,273NCBIRnor6.0
Rnor_5.01046,333,213 - 46,333,292UniSTSRnor5.0
RGSC_v3.41046,468,873 - 46,468,952UniSTSRGSC3.4
Celera1044,272,064 - 44,272,143UniSTS
Cytogenetic Map10q22UniSTS
RH132247  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21045,007,766 - 45,007,976 (+)MAPPER
Rnor_6.01046,571,126 - 46,571,335NCBIRnor6.0
Rnor_5.01046,326,145 - 46,326,354UniSTSRnor5.0
RGSC_v3.41046,461,805 - 46,462,014UniSTSRGSC3.4
Celera1044,264,996 - 44,265,205UniSTS
RH 3.4 Map10524.79UniSTS
Cytogenetic Map10q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101824639453637634Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102488408447487910Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)103002135454057745Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103566946546851407Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103658437353645194Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103658437366539843Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103658456066015527Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)104051404485514044Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)104051404485514044Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104318865981042642Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104370495588704955Rat
11528631Bss117Bone structure and strength QTL 1176.410.000000389femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)104651052546995276Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat


Related Rat Strains
The following Strains have been annotated to Srebf1

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:43
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000004753, ENSRNOT00000047053
Prediction methods: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 3 14 57 41 19 41 8 11 74 35 36 11 8
Low 29 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004753   ⟹   ENSRNOP00000004753
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1046,570,996 - 46,582,854 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000047053   ⟹   ENSRNOP00000050057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1046,570,996 - 46,593,009 (-)Ensembl
RefSeq Acc Id: NM_001276707   ⟹   NP_001263636
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21045,007,637 - 45,029,650 (-)NCBI
Rnor_6.01046,570,996 - 46,593,009 (-)NCBI
Rnor_5.01046,326,015 - 46,348,035 (-)NCBI
Celera1044,264,866 - 44,286,830 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001276708   ⟹   NP_001263637
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21045,007,637 - 45,019,495 (-)NCBI
Rnor_6.01046,570,996 - 46,582,854 (-)NCBI
Rnor_5.01046,326,015 - 46,348,035 (-)NCBI
Celera1044,264,866 - 44,276,706 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597541   ⟹   XP_017453030
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,571,533 - 46,593,021 (-)NCBI
Sequence:
RefSeq Acc Id: XR_001840090
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,571,533 - 46,593,021 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001263636   ⟸   NM_001276707
- Peptide Label: isoform 1 precursor
- UniProtKB: P56720 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001263637   ⟸   NM_001276708
- Peptide Label: isoform 2
- UniProtKB: P56720 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017453030   ⟸   XM_017597541
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000004753   ⟸   ENSRNOT00000004753
RefSeq Acc Id: ENSRNOP00000050057   ⟸   ENSRNOT00000047053
Protein Domains
bHLH

Transcriptome

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

Promoters
RGD ID:13697246
Promoter ID:EPDNEW_R7770
Type:multiple initiation site
Name:Srebf1_2
Description:sterol regulatory element binding transcription factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7771  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,582,882 - 46,582,942EPDNEW
RGD ID:13697247
Promoter ID:EPDNEW_R7771
Type:initiation region
Name:Srebf1_1
Description:sterol regulatory element binding transcription factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R7770  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01046,593,003 - 46,593,063EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69423 AgrOrtholog
Ensembl Genes ENSRNOG00000003463 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000004753 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000050057 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004753 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000047053 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 4.10.280.10 UniProtKB/Swiss-Prot
InterPro bHLH_dom UniProtKB/Swiss-Prot
  HLH_DNA-bd_sf UniProtKB/Swiss-Prot
KEGG Report rno:78968 UniProtKB/Swiss-Prot
NCBI Gene 78968 ENTREZGENE
Pfam HLH UniProtKB/Swiss-Prot
PhenoGen Srebf1 PhenoGen
PROSITE BHLH UniProtKB/Swiss-Prot
SMART HLH UniProtKB/Swiss-Prot
Superfamily-SCOP SSF47459 UniProtKB/Swiss-Prot
TIGR TC217415
UniProt P56720 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q99PI6 UniProtKB/Swiss-Prot
  Q99PI7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-11 Srebf1  sterol regulatory element binding transcription factor 1  Srebf1  sterol regulatory element binding factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Srebf1  sterol regulatory element binding factor 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization precursor form localizes to the endoplasmic reticulum and nuclear envelope and mature form localizes to the nucleus 625517
gene_disease may play a role in streptozotocin-induced diabetes based on observed increase in renal expression 625517
gene_process enhances transcription of genes encoding enzymes of unsaturated fatty acid biosynthesis 68688
gene_process enhances transcription of genes encoding enzymes of unsaturated fatty acid biosynthesis 68702
gene_process enhances transcription of genes encoding enzymes of unsaturated fatty acid biosynthesis 625517
gene_process regulates genes involved in fatty acid and triglyceride metabolism 68688
gene_process regulates genes involved in fatty acid and triglyceride metabolism 68702
gene_process regulates genes involved in fatty acid and triglyceride metabolism 625517
gene_process mediates increased lipid synthesis, triglyceride accumulation, mesangial expansion, glomerulosclerosis, and proteinuria through increasing the expression of transforming growth factor and vascular endothelial growth factor 625517
gene_product member of the basic helix-loop-helix-leucine zipper family 625517
gene_product active protein contains 500 amino acids 625517
gene_transcript two splice variants have been identified 625517