Cybb (cytochrome b-245 beta chain) - Rat Genome Database

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Gene: Cybb (cytochrome b-245 beta chain) Rattus norvegicus
Analyze
Symbol: Cybb
Name: cytochrome b-245 beta chain
RGD ID: 620574
Description: Predicted to enable several functions, including flavin adenine dinucleotide binding activity; heme binding activity; and protein heterodimerization activity. Predicted to contribute to electron transfer activity. Involved in several processes, including cellular response to L-glutamine; hypoxia-inducible factor-1alpha signaling pathway; and positive regulation of tumor necrosis factor production. Located in several cellular components, including neuronal cell body; nuclear envelope; and rough endoplasmic reticulum. Part of NADPH oxidase complex. Colocalizes with perinuclear endoplasmic reticulum. Biomarker of artery disease (multiple); end stage renal disease; primary hyperaldosteronism; and renal fibrosis. Human ortholog(s) of this gene implicated in X-linked chronic granulomatous disease; chronic granulomatous disease; and immunodeficiency 34. Orthologous to human CYBB (cytochrome b-245 beta chain); PARTICIPATES IN thyroid hormone biosynthetic pathway; phagocytosis pathway; INTERACTS WITH (-)-epigallocatechin 3-gallate; (R)-carnitine; (R)-lipoic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cytochrome b-245, beta polypeptide; endothelial type gp91-phox; endothelial type gp91-phox gene; Gp91-phox; NADPH oxidase 2; Nox2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Cybbem1Mcwi   Cybbem3Mcwi  
Genetic Models: SS-Cybbem3Mcwi SS-Cybbem1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X13,360,583 - 13,392,517 (-)NCBImRatBN7.2
mRatBN7.2 EnsemblX13,359,430 - 13,392,586 (-)Ensembl
Rnor_6.0X14,578,330 - 14,610,049 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX14,578,264 - 14,612,547 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,359,405 - 15,391,317 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X25,514,572 - 25,547,181 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X25,568,040 - 25,600,650 (-)NCBI
CeleraX14,033,486 - 14,065,403 (+)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (EXP)
(R)-carnitine  (EXP)
(R)-lipoic acid  (EXP)
1,1-dichloroethene  (ISO)
1-bromopropane  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-butoxyethanol  (ISO)
2-tert-butylhydroquinone  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-Hydroxy-TEMPO  (EXP)
4-hydroxynon-2-enal  (ISO)
6-propyl-2-thiouracil  (EXP)
7-ketocholesterol  (ISO)
acetaldehyde  (ISO)
acetamide  (EXP)
acetylcholine  (ISO)
adenine  (EXP)
aflatoxin B1  (ISO)
AICA ribonucleotide  (EXP)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
alpha-linolenic acid  (EXP)
amitriptyline  (ISO)
amitrole  (EXP)
amlodipine  (EXP)
ammonium chloride  (EXP)
anagliptin  (ISO)
antirheumatic drug  (ISO)
apocynin  (EXP,ISO)
aripiprazole  (ISO)
aristolochic acid  (ISO)
arsane  (EXP,ISO)
arsenic atom  (EXP,ISO)
arsenous acid  (ISO)
astaxanthin  (EXP)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
Besigomsin  (ISO)
bezafibrate  (ISO)
bisphenol A  (EXP)
bisphenol F  (ISO)
buspirone  (EXP)
cadmium atom  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (EXP)
camostat  (EXP)
candesartan  (EXP)
capsaicin  (EXP,ISO)
captan  (ISO)
CGP-42112A  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
cholesterol  (EXP,ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (EXP,ISO)
cobalt atom  (EXP)
cocaine  (ISO)
cyfluthrin  (ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
D-glucose  (EXP,ISO)
daunorubicin  (EXP)
Deoxycorticosterone acetate  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (EXP)
diarsenic trioxide  (ISO)
dibenziodolium  (EXP,ISO)
dibutylstannane  (ISO)
dichlorvos  (EXP)
diclofenac  (ISO)
diminazene diaceturate  (ISO)
dioxygen  (EXP,ISO)
dorsomorphin  (EXP)
doxorubicin  (EXP,ISO)
eckol  (ISO)
edaravone  (EXP)
endosulfan  (ISO)
ethanol  (EXP,ISO)
fenvalerate  (EXP)
filipin III  (ISO)
fisetin  (EXP)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
fructose  (EXP)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
ginkgolide B  (EXP)
glucose  (EXP,ISO)
glyburide  (ISO)
GW 501516  (ISO)
hemin  (EXP)
hexadecanoic acid  (EXP,ISO)
homocysteine  (ISO)
hydrochlorothiazide  (EXP)
hydrogen peroxide  (EXP,ISO)
hydroxylamine  (EXP)
icosanoid  (EXP)
iron dextran  (EXP)
ketamine  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP,ISO)
lead(0)  (EXP)
lead(2+)  (EXP)
lipoic acid  (EXP)
lipopolysaccharide  (EXP,ISO)
malathion  (ISO)
malonaldehyde  (ISO)
maneb  (ISO)
manumycin A  (ISO)
medroxyprogesterone acetate  (EXP)
melatonin  (ISO)
methamphetamine  (EXP)
methyl beta-cyclodextrin  (ISO)
methylmercury chloride  (EXP)
microcystin-LR  (ISO)
monocrotaline  (EXP)
morphine  (ISO)
N(gamma)-nitro-L-arginine methyl ester  (EXP)
N-acetyl-L-cysteine  (EXP)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
NADP zwitterion  (ISO)
NADP(+)  (ISO)
nebivolol  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nimesulide  (EXP)
nitrofen  (EXP)
nitroglycerin  (EXP,ISO)
ochratoxin A  (EXP)
oxidopamine  (ISO)
ozone  (ISO)
palytoxin  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
patulin  (ISO)
PD123319  (ISO)
phenobarbital  (ISO)
phenol  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
prodigiosin  (ISO)
quercetin  (EXP)
ramipril  (ISO)
reactive oxygen species  (EXP,ISO)
resveratrol  (EXP,ISO)
rosuvastatin calcium  (EXP,ISO)
rotenone  (EXP,ISO)
Salidroside  (ISO)
Salvianolic acid A  (EXP)
salvianolic acid B  (EXP)
saquinavir  (ISO)
SB 203580  (ISO)
sildenafil citrate  (EXP)
silibinin  (EXP)
silicon dioxide  (EXP)
simvastatin  (ISO)
sirolimus  (EXP)
sirtinol  (ISO)
sodium arsenite  (EXP,ISO)
sodium chloride  (ISO)
sodium cholate  (EXP)
spironolactone  (EXP)
staurosporine  (ISO)
streptozocin  (EXP,ISO)
succimer  (ISO)
sulforaphane  (ISO)
sunitinib  (EXP)
superoxide  (ISO)
tamibarotene  (ISO)
tangeretin  (EXP)
taurine  (ISO)
telmisartan  (EXP,ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
tetrodotoxin  (ISO)
thiacloprid  (ISO)
thioacetamide  (EXP)
titanium atom  (ISO)
titanium dioxide  (ISO)
torcetrapib  (ISO)
trans-piceid  (EXP)
tremolite asbestos  (ISO)
tributylstannane  (EXP)
triclosan  (ISO)
triphenyl phosphate  (EXP)
tungsten  (ISO)
valsartan  (ISO)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Ambasta RK, etal., J Biol Chem. 2004 Oct 29;279(44):45935-41. Epub 2004 Aug 18.
2. Bayraktutan U, etal., Arterioscler Thromb Vasc Biol 2000 Aug;20(8):1903-11.
3. Chen L, etal., Free Radic Biol Med. 2011 Mar 1;50(5):624-32. doi: 10.1016/j.freeradbiomed.2010.12.032. Epub 2010 Dec 30.
4. DeMarco VG, etal., Am J Physiol Heart Circ Physiol. 2008 Jun;294(6):H2659-68. Epub 2008 Apr 18.
5. DiStasi MR, etal., Am J Physiol Heart Circ Physiol. 2014 May 15;306(10):H1435-43. doi: 10.1152/ajpheart.00828.2013. Epub 2014 Mar 14.
6. Djamali A, etal., Am J Transplant. 2012 Aug;12(8):1997-2007. doi: 10.1111/j.1600-6143.2012.04081.x. Epub 2012 May 8.
7. Fukui T, etal., Biochem Biophys Res Commun. 2001 Mar;281(5):1200-6.
8. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. Glass MJ, etal., Neuroscience. 2006 Dec 1;143(2):547-64. Epub 2006 Oct 4.
10. Hahn NE, etal., Cell Physiol Biochem. 2011;27(5):471-8. doi: 10.1159/000329968. Epub 2011 Jun 15.
11. Hink U, etal., Circ Res. 2001 Feb 2;88(2):E14-22.
12. Hong H, etal., Am J Physiol Heart Circ Physiol. 2006 Nov;291(5):H2210-5. Epub 2006 Jun 9.
13. Huang BS, etal., Exp Physiol. 2011 Oct;96(10):1028-38. doi: 10.1113/expphysiol.2011.059840. Epub 2011 Aug 8.
14. Kaneda M, etal., Blood. 1999 Mar 15;93(6):2098-104.
15. Kim D, etal., Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14851-6. doi: 10.1073/pnas.1009926107. Epub 2010 Aug 2.
16. Kusaka I, etal., Am J Physiol Heart Circ Physiol. 2004 Jun;286(6):H2442-51.
17. Lassegue B, etal., Circ Res 2001 May 11;88(9):888-94.
18. Li H, etal., Dig Dis Sci. 2016 Aug;61(8):2328-2337. doi: 10.1007/s10620-016-4144-z. Epub 2016 Apr 5.
19. Li JM, etal., Gene Ther. 2010 Oct;17(10):1279-87. doi: 10.1038/gt.2010.69. Epub 2010 May 20.
20. Li X, etal., Cardiovasc Res. 2009 Jul 1;83(1):72-9. doi: 10.1093/cvr/cvp100. Epub 2009 Mar 24.
21. Lim CS and Vaziri ND, Am J Nephrol. 2004 Nov-Dec;24(6):569-75. Epub 2004 Nov 17.
22. MGD data from the GO Consortium
23. Mollnau H, etal., Circ Res. 2002 Mar 8;90(4):E58-65.
24. NCBI rat LocusLink and RefSeq merged data July 26, 2002
25. Newburger PE, etal., J Clin Invest. 1994 Sep;94(3):1205-11.
26. Nisbet RE, etal., Am J Respir Cell Mol Biol. 2009 May;40(5):601-9. Epub 2008 Oct 23.
27. OMIM Disease Annotation Pipeline
28. Ostrowski RP, etal., Acta Neurochir Suppl. 2006;96:188-93.
29. Pipeline to import KEGG annotations from KEGG into RGD
30. Pipeline to import SMPDB annotations from SMPDB into RGD
31. Pithon-Curi TC, etal., Clin Sci (Lond). 2002 Oct;103(4):403-8.
32. Prufer S, etal., Immunobiology. 2014 Feb;219(2):87-96. doi: 10.1016/j.imbio.2013.08.010. Epub 2013 Aug 30.
33. Rabbani H, etal., Eur J Haematol. 1993 Oct;51(4):218-22.
34. Rajakariar R, etal., J Immunol. 2009 Mar 1;182(5):3262-9. doi: 10.4049/jimmunol.0801739.
35. RGD automated data pipeline
36. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
37. RGD automated import pipeline for gene-chemical interactions
38. Roberts CK, etal., Metabolism. 2006 Jul;55(7):928-34.
39. Sadat MA, etal., Hum Gene Ther. 2003 May 1;14(7):651-66.
40. Shanmugam P, etal., J Mol Cell Cardiol. 2011 Mar 2.
41. Shin HK, etal., J Cereb Blood Flow Metab. 2002 Jul;22(7):869-77.
42. Vaziri ND, etal., Kidney Int. 2003 Jan;63(1):186-94.
43. Vidal A, etal., Am J Physiol Heart Circ Physiol. 2006 Jan;290(1):H286-94.
44. Wang X, etal., Toxicology. 2015 Aug 6;334:104-10. doi: 10.1016/j.tox.2015.06.006. Epub 2015 Jun 12.
45. Weening RS, etal., Clin Exp Immunol. 2000 Dec;122(3):410-7.
46. Yuan G, etal., J Cell Physiol. 2011 Nov;226(11):2925-33. doi: 10.1002/jcp.22640.
Additional References at PubMed
PMID:3305576   PMID:9774399   PMID:12042318   PMID:12472781   PMID:12637340   PMID:12915388   PMID:14651853   PMID:15233623   PMID:15258578   PMID:15499027   PMID:15746442   PMID:15804439  
PMID:15850784   PMID:16344068   PMID:16505175   PMID:16685209   PMID:16831440   PMID:16897752   PMID:17283869   PMID:17324585   PMID:19204183   PMID:19436757   PMID:19926889   PMID:20079746  
PMID:20097736   PMID:20185631   PMID:21151982   PMID:21419746   PMID:21859816   PMID:21903813   PMID:21958220   PMID:22198504   PMID:22244881   PMID:22326221   PMID:22476986   PMID:22493499  
PMID:22565378   PMID:22832955   PMID:22888847   PMID:22933115   PMID:23052231   PMID:23303671   PMID:23524301   PMID:23585488   PMID:23732704   PMID:23922819   PMID:24131725   PMID:24365514  
PMID:24417961   PMID:24739962   PMID:24768926   PMID:24978055   PMID:25054130   PMID:25073061   PMID:25159478   PMID:25460548   PMID:25517730   PMID:25529920   PMID:25751622   PMID:25865156  
PMID:25873309   PMID:25982880   PMID:26058943   PMID:26617806   PMID:26650043   PMID:26698582   PMID:26869350   PMID:26910819   PMID:26950726   PMID:26950727   PMID:26963898   PMID:27499697  
PMID:27847553   PMID:27901023   PMID:27913300   PMID:28330417   PMID:28351984   PMID:28447737   PMID:28478460   PMID:28478802   PMID:28700905   PMID:28821269   PMID:29349831   PMID:29571735  
PMID:29723859   PMID:30317245   PMID:30677569   PMID:31155748   PMID:31216444   PMID:31245854   PMID:32233792   PMID:32351005   PMID:33202984   PMID:33273999   PMID:33806917  


Genomics

Comparative Map Data
Cybb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X13,360,583 - 13,392,517 (-)NCBImRatBN7.2
mRatBN7.2 EnsemblX13,359,430 - 13,392,586 (-)Ensembl
Rnor_6.0X14,578,330 - 14,610,049 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX14,578,264 - 14,612,547 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,359,405 - 15,391,317 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X25,514,572 - 25,547,181 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X25,568,040 - 25,600,650 (-)NCBI
CeleraX14,033,486 - 14,065,403 (+)NCBICelera
Cytogenetic MapXq12NCBI
CYBB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX37,780,059 - 37,813,461 (+)EnsemblGRCh38hg38GRCh38
GRCh38X37,780,059 - 37,813,461 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X37,639,312 - 37,672,714 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X37,524,264 - 37,557,658 (+)NCBINCBI36hg18NCBI36
Build 34X37,395,536 - 37,428,931NCBI
CeleraX41,776,951 - 41,810,391 (+)NCBI
Cytogenetic MapXp21.1-p11.4NCBI
HuRefX35,383,460 - 35,418,115 (+)NCBIHuRef
CHM1_1X37,670,409 - 37,703,853 (+)NCBICHM1_1
Cybb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X9,301,493 - 9,354,005 (-)NCBIGRCm39mm39
GRCm39 EnsemblX9,301,491 - 9,354,010 (-)Ensembl
GRCm38X9,435,252 - 9,487,766 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX9,435,252 - 9,487,771 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X9,012,378 - 9,046,450 (-)NCBIGRCm37mm9NCBIm37
MGSCv36X8,593,665 - 8,626,226 (-)NCBImm8
CeleraX7,154,874 - 7,188,991 (-)NCBICelera
Cytogenetic MapXA1.1NCBI
LOC102012042
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955587781,388 - 819,912 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955587781,533 - 818,149 (+)NCBIChiLan1.0ChiLan1.0
LOC100982531
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X37,939,744 - 37,976,116 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX37,939,704 - 37,973,183 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X30,230,394 - 30,267,379 (+)NCBIMhudiblu_PPA_v0panPan3
CYBB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X32,533,365 - 32,568,149 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX32,533,320 - 32,568,217 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX19,880,947 - 19,915,729 (+)NCBI
ROS_Cfam_1.0X32,578,634 - 32,613,434 (+)NCBI
UMICH_Zoey_3.1X32,660,059 - 32,694,839 (+)NCBI
UNSW_CanFamBas_1.0X32,623,867 - 32,658,828 (+)NCBI
UU_Cfam_GSD_1.0X32,671,823 - 32,706,767 (+)NCBI
LOC101966992
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X24,791,011 - 24,835,926 (+)NCBI
SpeTri2.0NW_0049365024,631,750 - 4,676,686 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GP91-PHOX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX33,642,015 - 33,680,580 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X33,654,656 - 33,678,346 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X37,355,082 - 37,392,480 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CYBB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366605638,240,025 - 38,273,771 (+)NCBIVero_WHO_p1.0
LOC101709509
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476217,759,625 - 17,793,434 (-)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat


Genetic Models
This gene Cybb is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:101
Count of miRNA genes:88
Interacting mature miRNAs:93
Transcripts:ENSRNOT00000038994
Prediction methods:Miranda
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 6 42 28 19 28 13 12 11
Low 31 15 13 13 8 11 72 22 27 8
Below cutoff 6 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000038994   ⟹   ENSRNOP00000031063
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX13,359,430 - 13,392,586 (-)Ensembl
Rnor_6.0 EnsemblX14,578,264 - 14,612,547 (+)Ensembl
RefSeq Acc Id: NM_023965   ⟹   NP_076455
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X13,360,583 - 13,392,517 (-)NCBI
Rnor_6.0X14,578,330 - 14,610,049 (+)NCBI
Rnor_5.0X15,359,405 - 15,391,317 (+)NCBI
RGSC_v3.4X25,514,572 - 25,547,181 (-)RGD
CeleraX14,033,486 - 14,065,403 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_076455 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAG31606 (Get FASTA)   NCBI Sequence Viewer  
  CAC09433 (Get FASTA)   NCBI Sequence Viewer  
  EDL82805 (Get FASTA)   NCBI Sequence Viewer  
  EDL82806 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_076455   ⟸   NM_023965
- UniProtKB: Q9ER28 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000031063   ⟸   ENSRNOT00000038994
Protein Domains
FAD-binding FR-type

Transcriptome

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

Promoters
RGD ID:13701723
Promoter ID:EPDNEW_R12247
Type:initiation region
Name:Cybb_1
Description:cytochrome b-245 beta chain
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_6.0X14,578,255 - 14,578,315EPDNEW

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)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620574 AgrOrtholog
Ensembl Genes ENSRNOG00000003622 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000031063 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038994 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.80 UniProtKB/TrEMBL
InterPro Cyt_b245_heavy_chain UniProtKB/TrEMBL
  FAD-bd_8 UniProtKB/TrEMBL
  Fd_Rdtase_FAD-bd UniProtKB/TrEMBL
  Fe_red_NAD-bd_6 UniProtKB/TrEMBL
  Flavoprotein_TM UniProtKB/TrEMBL
  FNR_nucleotide_bd UniProtKB/TrEMBL
  Riboflavin_synthase-like_b-brl UniProtKB/TrEMBL
KEGG Report rno:66021 UniProtKB/TrEMBL
NCBI Gene 66021 ENTREZGENE
Pfam FAD_binding_8 UniProtKB/TrEMBL
  Ferric_reduct UniProtKB/TrEMBL
  NAD_binding_6 UniProtKB/TrEMBL
PhenoGen Cybb PhenoGen
PRINTS GP91PHOX UniProtKB/TrEMBL
PROSITE FAD_FR UniProtKB/TrEMBL
Superfamily-SCOP Riboflavin_synthase_like_b-brl UniProtKB/TrEMBL
  SSF52343 UniProtKB/TrEMBL
UniProt Q9ER28 ENTREZGENE, UniProtKB/TrEMBL
  Q9ERL1_RAT UniProtKB/TrEMBL
UniProt Secondary F1LNC0 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-20 Cybb  cytochrome b-245 beta chain  Cybb  cytochrome b-245, beta polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Cybb  cytochrome b-245, beta polypeptide    endothelial type gp91-phox gene  Name updated 1299863 APPROVED
2002-08-07 Cybb  endothelial type gp91-phox gene      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the endoplasmic reticulum 632513