Cyba (cytochrome b-245 alpha chain) - Rat Genome Database

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Gene: Cyba (cytochrome b-245 alpha chain) Rattus norvegicus
Analyze
Symbol: Cyba
Name: cytochrome b-245 alpha chain
RGD ID: 620573
Description: Contributes to superoxide-generating NAD(P)H oxidase activity. Involved in several processes, including cellular response to gamma radiation; cellular response to organonitrogen compound; and positive regulation of cell population proliferation. Localizes to several cellular components, including NADPH oxidase complex; focal adhesion; and stress fiber. Colocalizes with perinuclear endoplasmic reticulum. Used to study hypertension and pulmonary hypertension. Biomarker of diabetic retinopathy; end stage renal disease; hypertension; and myocardial infarction. Human ortholog(s) of this gene implicated in artery disease (multiple); asthma; chronic obstructive pulmonary disease; and phagocyte bactericidal dysfunction (multiple). Orthologous to human CYBA (cytochrome b-245 alpha chain); PARTICIPATES IN thyroid hormone biosynthetic pathway; Leishmaniasis pathway; phagocytosis pathway; INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: alpha-subunit p22; cytochrome b(558) alpha chain; cytochrome b-245 light chain; cytochrome b-245, alpha polypeptide; cytochrome b558 alpha-subunit; cytochrome b558 subunit alpha; neutrophil cytochrome b 22 kDa polypeptide; p22 phagocyte B-cytochrome; p22-phox; p22phox; Phox; superoxide-generating NADPH oxidase light chain subunit
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Cybaem1Mcwi   Cybam1Sdi  
Genetic Models: MES/Slc SS-Cybaem1Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21950,487,598 - 50,495,669 (-)NCBI
Rnor_6.0 Ensembl1955,249,616 - 55,257,876 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01955,249,634 - 55,257,824 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01965,959,818 - 65,967,224 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,713,150 - 52,721,609 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11952,718,030 - 52,726,490 (-)NCBI
Celera1949,727,142 - 49,735,154 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP,ISO)
1,2-dimethylhydrazine  (EXP,ISO)
1-naphthyl isothiocyanate  (EXP)
11-deoxycorticosterone  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-hydroxypropanoic acid  (ISO)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
AICA ribonucleotide  (EXP)
aldehydo-D-glucosamine  (ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
aminoguanidine  (EXP)
amlodipine  (EXP)
ammonium chloride  (EXP)
anagliptin  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP)
antirheumatic drug  (ISO)
apocynin  (EXP,ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (EXP)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (ISO)
bezafibrate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
butan-1-ol  (ISO)
Butylparaben  (ISO)
C60 fullerene  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (EXP)
candesartan  (EXP,ISO)
canrenoic acid  (EXP)
carbon nanotube  (ISO)
chloropicrin  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (EXP)
cobalt dichloride  (ISO)
cocaine  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-glucose  (EXP,ISO)
daunorubicin  (EXP)
DDE  (ISO)
decabromodiphenyl ether  (EXP)
dehydroepiandrosterone  (EXP)
Deoxycorticosterone acetate  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (EXP)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibenziodolium  (ISO)
diclofenac  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP)
enalapril  (ISO)
endosulfan  (EXP)
eplerenone  (EXP)
ethanol  (EXP,ISO)
farrerol  (EXP)
fenamidone  (ISO)
flavonoids  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
ginsenoside Re  (ISO)
glucose  (EXP,ISO)
GW 6471  (EXP)
hexadecanoic acid  (EXP)
hydrochlorothiazide  (EXP)
hydrogen peroxide  (EXP,ISO)
iron dextran  (EXP)
isobutanol  (ISO)
isoprenaline  (EXP)
ketamine  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
Lasiocarpine  (ISO)
lipopolysaccharide  (ISO)
loganin  (ISO)
lutein  (ISO)
manidipine  (ISO)
menadione  (ISO)
mercury dichloride  (EXP)
metformin  (EXP,ISO)
methanol  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Nitrosopyrrolidine  (ISO)
naringin  (ISO)
nebivolol  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
nicotinamide  (EXP)
nicotinic acid  (EXP)
O-methyleugenol  (ISO)
ochratoxin A  (EXP,ISO)
olmesartan  (EXP)
oxalic acid  (ISO)
oxycodone  (EXP)
paracetamol  (ISO)
paricalcitol  (ISO)
phencyclidine  (ISO)
phenethyl caffeate  (EXP)
phenol  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pravastatin  (EXP)
probenecid  (ISO)
progesterone  (ISO)
quercetin  (EXP,ISO)
rac-lactic acid  (ISO)
ramipril  (ISO)
reactive oxygen species  (EXP)
resveratrol  (EXP,ISO)
rosuvastatin calcium  (EXP)
rotenone  (EXP,ISO)
SB 203580  (ISO)
silicon dioxide  (EXP)
simvastatin  (ISO)
sirolimus  (EXP)
sirtinol  (EXP)
sodium arsenite  (EXP,ISO)
sodium chloride  (EXP,ISO)
sodium fluoride  (ISO)
Soman  (EXP)
streptozocin  (EXP)
sunitinib  (ISO)
superoxide  (EXP,ISO)
tacrolimus hydrate  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tebuconazole  (ISO)
telmisartan  (EXP,ISO)
testosterone  (EXP)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trandolapril  (EXP)
triphenyl phosphate  (EXP)
triphenylstannane  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to amino acid stimulus  (IEP)
cellular response to angiotensin  (IEP)
cellular response to gamma radiation  (IEP)
cellular response to glucose stimulus  (IEP)
cellular response to L-glutamine  (IEP)
cellular response to mechanical stimulus  (IEP)
cellular response to organic cyclic compound  (IEP)
cellular response to organic substance  (IDA)
cellular response to tumor necrosis factor  (IEP)
cytochrome complex assembly  (ISO)
electron transport chain  (IEA)
hydrogen peroxide biosynthetic process  (IMP)
inflammatory response  (ISO)
innate immune response  (ISO,ISS)
negative regulation of glomerular filtration by angiotensin  (IMP)
positive regulation of blood pressure  (IMP)
positive regulation of cell growth  (IMP)
positive regulation of defense response to bacterium  (ISO)
positive regulation of endothelial cell proliferation  (IMP)
positive regulation of interleukin-6 production  (ISO)
positive regulation of mucus secretion  (ISO)
positive regulation of NAD(P)H oxidase activity  (IMP)
positive regulation of oxygen metabolic process  (ISO)
positive regulation of phagocytosis  (ISO)
positive regulation of reactive oxygen species biosynthetic process  (ISO)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of superoxide anion generation  (IMP)
positive regulation of toll-like receptor 2 signaling pathway  (ISO)
positive regulation of tumor necrosis factor production  (ISO)
reactive oxygen species metabolic process  (ISO)
regulation of release of sequestered calcium ion into cytosol  (ISO)
respiratory burst  (ISO)
response to activity  (IEP)
response to aldosterone  (IEP)
response to drug  (IEP)
response to hypoxia  (IEP)
response to interleukin-1  (IEP)
response to nutrient levels  (IEP)
smooth muscle hypertrophy  (IMP)
superoxide anion generation  (IBA,IMP,ISO)
superoxide metabolic process  (IDA,IMP,ISO)

Cellular Component

Molecular Function

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

Mammalian Phenotype
References

References - curated
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2. Bayraktutan U Free Radic Biol Med. 2005 Nov 15;39(10):1342-52. Epub 2005 Aug 29.
3. Bayraktutan U J Mol Cell Cardiol. 2004 Feb;36(2):277-86.
4. Bayraktutan U, etal., Arterioscler Thromb Vasc Biol 2000 Aug;20(8):1903-11.
5. Becker KG, etal., Nat Genet. 2004 May;36(5):431-2.
6. Byrnes KR, etal., Glia. 2006 Mar;53(4):420-33.
7. Chang LC, etal., Eur J Pharmacol. 2009 Aug 1;615(1-3):207-17. Epub 2009 May 13.
8. Cho KH, etal., Am J Physiol Renal Physiol. 2009 May 6.
9. Collins-Underwood JR, etal., Free Radic Biol Med. 2008 Sep 15;45(6):929-38. Epub 2008 Jun 30.
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15. Fukui T, etal., Biochem Biophys Res Commun. 2001 Mar;281(5):1200-6.
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17. Gao L, etal., Lab Invest. 2008 Nov;88(11):1157-66. Epub 2008 Sep 1.
18. Gardemann A, etal., Atherosclerosis. 1999 Aug;145(2):315-23.
19. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
20. Glass MJ, etal., Neuroscience. 2006 Dec 1;143(2):547-64. Epub 2006 Oct 4.
21. GOA data from the GO Consortium
22. Haruna Y, etal., Arthritis Rheum. 2007 Jun;56(6):1827-35.
23. Haubold K, etal., Cell Motil Cytoskeleton. 2003 Feb;54(2):105-21.
24. He YL, etal., Zhongguo Dang Dai Er Ke Za Zhi. 2009 Feb;11(2):88-92.
25. Hitomi H, etal., J Hypertens. 2006 Jun;24(6):1089-95.
26. Huang BS, etal., Exp Physiol. 2011 Oct;96(10):1028-38. doi: 10.1113/expphysiol.2011.059840. Epub 2011 Aug 8.
27. Izakovicova Holla L, etal., Int Arch Allergy Immunol. 2009;148(1):73-80. Epub 2008 Aug 21.
28. Jeong HY, etal., Diabetes Res Clin Pract. 2004 Apr;64(1):1-10.
29. Jimenez-Altayo F, etal., J Pharmacol Exp Ther. 2006 Jan;316(1):42-52. Epub 2005 Sep 23.
30. Kusaka I, etal., Am J Physiol Heart Circ Physiol. 2004 Jun;286(6):H2442-51.
31. Lee PL, etal., J Negat Results Biomed. 2006 Apr 11;5:5.
32. Liu HG, etal., Chin Med J (Engl). 2009 Jun 20;122(12):1369-74.
33. Liu HG, etal., Zhonghua Jie He He Hu Xi Za Zhi. 2010 Feb;33(2):118-22.
34. Lyle AN, etal., Circ Res. 2009 Jul 31;105(3):249-59. doi: 10.1161/CIRCRESAHA.109.193722. Epub 2009 Jul 2.
35. Matsunaga-Irie S, etal., Diabetes Care. 2004 Feb;27(2):303-7.
36. MGD data from the GO Consortium
37. Modlinger P, etal., Hypertension. 2006 Feb;47(2):238-44. Epub 2006 Jan 3.
38. Moreno MU, etal., FEBS Lett. 2003 May 8;542(1-3):27-31.
39. Mori M, etal., J Leukoc Biol. 2009 Sep;86(3):473-8. doi: 10.1189/jlb.1108715. Epub 2009 Apr 30.
40. NCBI rat LocusLink and RefSeq merged data July 26, 2002
41. Nisbet RE, etal., Am J Respir Cell Mol Biol. 2009 May;40(5):601-9. Epub 2008 Oct 23.
42. Nouri P, etal., Am J Physiol Heart Circ Physiol. 2007 Apr;292(4):H1685-9. Epub 2007 Jan 12.
43. Olukman M, etal., J Diabetes Complications. 2010 Mar 10.
44. OMIM Disease Annotation Pipeline
45. Picchi A, etal., Circ Res. 2006 Jul 7;99(1):69-77. Epub 2006 Jun 1.
46. Pipeline to import KEGG annotations from KEGG into RGD
47. Pipeline to import SMPDB annotations from SMPDB into RGD
48. Pithon-Curi TC, etal., Clin Sci (Lond). 2002 Oct;103(4):403-8.
49. Polonikov AV, etal., Ter Arkh. 2009;81(3):31-5.
50. RGD automated data pipeline
51. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
52. RGD automated import pipeline for gene-chemical interactions
53. Sasser JM, etal., Am J Physiol Regul Integr Comp Physiol. 2010 Mar;298(3):R740-6. Epub 2009 Dec 16.
54. Shah DI and Singh M, Fundam Clin Pharmacol. 2006 Dec;20(6):595-604.
55. Shimokata K, etal., Atherosclerosis. 2004 Jan;172(1):167-73.
56. Teimourian S, etal., Br J Haematol. 2008 Jun;141(6):848-51. Epub 2008 Apr 18.
57. Tomozawa H, etal., Exp Anim. 2010;59(4):469-78.
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64. Yamada M, etal., Br J Haematol. 2000 Mar;108(3):511-7.
65. Yang ZZ and Zou AP, Kidney Int. 2003 Mar;63(3):1012-20.
66. Yoshida Y, etal., Diabetes Metab Res Rev. 2009 Oct;25(7):678-86.
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Additional References at PubMed
PMID:1763037   PMID:3305576   PMID:7938008   PMID:12042318   PMID:14651853   PMID:15123630   PMID:15850784   PMID:15851618   PMID:16115038   PMID:17085464   PMID:17698723   PMID:19246278  
PMID:19805644   PMID:19946888   PMID:21419083   PMID:21429415   PMID:21691064   PMID:22423966   PMID:22873349   PMID:23446743   PMID:23585488   PMID:23624755   PMID:24185898   PMID:24580748  
PMID:24739962   PMID:26389812   PMID:27824157   PMID:28351984   PMID:28669019   PMID:31030942  


Genomics

Candidate Gene Status
Cyba is a candidate Gene for QTL Eau8
Comparative Map Data
Cyba
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21950,487,598 - 50,495,669 (-)NCBI
Rnor_6.0 Ensembl1955,249,616 - 55,257,876 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01955,249,634 - 55,257,824 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01965,959,818 - 65,967,224 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,713,150 - 52,721,609 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11952,718,030 - 52,726,490 (-)NCBI
Celera1949,727,142 - 49,735,154 (-)NCBICelera
Cytogenetic Map19q12NCBI
CYBA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1688,643,289 - 88,651,054 (-)EnsemblGRCh38hg38GRCh38
GRCh381688,643,289 - 88,651,079 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371688,709,697 - 88,717,461 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361687,237,198 - 87,244,958 (-)NCBINCBI36hg18NCBI36
Build 341687,237,198 - 87,244,950NCBI
Celera1673,779,369 - 73,787,129 (-)NCBI
Cytogenetic Map16q24.2NCBI
HuRef1674,403,728 - 74,411,523 (-)NCBIHuRef
CHM1_11690,120,999 - 90,128,842 (-)NCBICHM1_1
Cyba
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398123,151,510 - 123,159,679 (-)NCBIGRCm39mm39
GRCm39 Ensembl8123,151,515 - 123,159,669 (-)Ensembl
GRCm388122,424,771 - 122,432,940 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8122,424,776 - 122,432,930 (-)EnsemblGRCm38mm10GRCm38
MGSCv378124,948,671 - 124,956,840 (-)NCBIGRCm37mm9NCBIm37
MGSCv368125,310,866 - 125,319,017 (-)NCBImm8
Celera8126,653,882 - 126,662,049 (-)NCBICelera
Cytogenetic Map8E1NCBI
LOC102004641
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555412,569,727 - 2,574,118 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555412,570,843 - 2,573,822 (-)NCBIChiLan1.0ChiLan1.0
LOC100986914
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11689,016,349 - 89,024,719 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1689,016,349 - 89,024,719 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01669,356,396 - 69,364,225 (-)NCBIMhudiblu_PPA_v0panPan3
CYBA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1564,692,865 - 64,701,056 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl564,692,123 - 64,704,893 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha564,703,545 - 64,711,735 (+)NCBI
ROS_Cfam_1.0564,912,202 - 64,920,393 (+)NCBI
UMICH_Zoey_3.1564,938,335 - 64,946,503 (+)NCBI
UNSW_CanFamBas_1.0564,770,091 - 64,778,279 (+)NCBI
UU_Cfam_GSD_1.0565,176,122 - 65,184,313 (+)NCBI
LOC101967032
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934925,283,408 - 25,291,407 (+)NCBI
SpeTri2.0NW_0049366411,036,967 - 1,044,954 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYBA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl61,015,154 - 1,021,418 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.161,015,212 - 1,021,422 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103233451
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1574,023,134 - 74,030,793 (-)NCBI
ChlSab1.1 Ensembl574,023,082 - 74,030,750 (-)Ensembl
LOC101717043
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624746911,852 - 919,361 (+)NCBI

Position Markers
RH138637  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21950,487,946 - 50,488,149 (+)MAPPER
Rnor_6.01955,249,983 - 55,250,185NCBIRnor6.0
Rnor_5.01965,960,167 - 65,960,369UniSTSRnor5.0
RGSC_v3.41952,713,499 - 52,713,701UniSTSRGSC3.4
Celera1949,727,491 - 49,727,693UniSTS
RH 3.4 Map19696.9UniSTS
Cytogenetic Map19q12UniSTS
RH131095  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01965,967,927 - 65,968,109NCBIRnor5.0
Rnor_5.01149,620,644 - 149,620,826NCBIRnor5.0
RGSC_v3.41952,722,313 - 52,722,494UniSTSRGSC3.4
RGSC_v3.4X155,617,504 - 155,617,685UniSTSRGSC3.4
Celera1949,735,858 - 49,736,039UniSTS
Celera1133,317,703 - 133,317,884UniSTS
Cytogenetic Map19q12UniSTS
Cytogenetic MapXq37UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191899398262275575Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191917749562275575Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)192140778762275575Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192481825762275575Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)193299439262275575Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193791679960220451Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193791679960220451Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194883071260220581Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)195473521758072143Rat


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

Predicted Target Of
Summary Value
Count of predictions:123
Count of miRNA genes:106
Interacting mature miRNAs:118
Transcripts:ENSRNOT00000017564
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 41 52 40 19 40 2 4 42 35 35 11 2
Low 2 5 1 1 6 7 32 6 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017564   ⟹   ENSRNOP00000017564
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1955,249,616 - 55,257,876 (-)Ensembl
RefSeq Acc Id: NM_024160   ⟹   NP_077074
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21950,487,598 - 50,495,669 (-)NCBI
Rnor_6.01955,249,634 - 55,257,824 (-)NCBI
Rnor_5.01965,959,818 - 65,967,224 (-)NCBI
RGSC_v3.41952,713,150 - 52,721,609 (-)RGD
Celera1949,727,142 - 49,735,154 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_077074 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA85865 (Get FASTA)   NCBI Sequence Viewer  
  AAK00811 (Get FASTA)   NCBI Sequence Viewer  
  CAC09434 (Get FASTA)   NCBI Sequence Viewer  
  EDL92746 (Get FASTA)   NCBI Sequence Viewer  
  Q62737 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_077074   ⟸   NM_024160
- UniProtKB: Q62737 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000017564   ⟸   ENSRNOT00000017564

Transcriptome

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

Promoters
RGD ID:13701205
Promoter ID:EPDNEW_R11728
Type:initiation region
Name:Cyba_1
Description:cytochrome b-245 alpha 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_6.01955,257,830 - 55,257,890EPDNEW

Strain Variation

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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620573 AgrOrtholog
Ensembl Genes ENSRNOG00000013014 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000017564 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000017564 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Cyt_b558_asu UniProtKB/Swiss-Prot
KEGG Report rno:79129 UniProtKB/Swiss-Prot
NCBI Gene 79129 ENTREZGENE
PANTHER PTHR15168 UniProtKB/Swiss-Prot
Pfam Cytochrom_B558a UniProtKB/Swiss-Prot
PhenoGen Cyba PhenoGen
PIRSF Cytochr_b558a UniProtKB/Swiss-Prot
UniProt CY24A_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q9ER27 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Cyba  cytochrome b-245, alpha polypeptide    cytochrome b558 alpha-subunit  Name updated 1299863 APPROVED
2002-08-07 Cyba  cytochrome b558 alpha-subunit      Symbol and Name status set to provisional 70820 PROVISIONAL