Alox5 (arachidonate 5-lipoxygenase) - Rat Genome Database

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Gene: Alox5 (arachidonate 5-lipoxygenase) Rattus norvegicus
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Symbol: Alox5
Name: arachidonate 5-lipoxygenase
RGD ID: 2096
Description: Predicted to enable arachidonate 5-lipoxygenase activity and iron ion binding activity. Involved in several processes, including positive regulation of cytochrome-c oxidase activity; positive regulation of vasoconstriction; and response to hyperoxia. Located in several cellular components, including dendrite; nuclear envelope; and sarcolemma. Used to study several diseases, including brain ischemia; hypertension (multiple); pleurisy; portal hypertension; and pulmonary edema. Biomarker of pulmonary hypertension. Human ortholog(s) of this gene implicated in artery disease (multiple); asthma (multiple); pancreatic cancer; and pulmonary tuberculosis. Orthologous to human ALOX5 (arachidonate 5-lipoxygenase); PARTICIPATES IN leukotriene metabolic pathway; lipoxygenase mediated pathway of arachidonic acid metabolism; acetylsalicylic acid pharmacodynamics pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 5 - Lipoxygenase; 5-lipoxygenase; 5-LO; LOX5A; polyunsaturated fatty acid 5-lipoxygenase
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24149,531,329 - 149,578,696 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4149,531,515 - 149,578,743 (-)Ensembl
Rnor_6.04148,398,004 - 148,446,308 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4148,398,892 - 148,446,303 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04214,345,956 - 214,393,337 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44152,610,283 - 152,657,891 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14152,855,123 - 152,902,732 (-)NCBI
Celera4138,415,564 - 138,454,485 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(4Z,7Z,10Z,13Z,15E,19Z)-17-hydroxydocosahexaenoic acid  (ISO)
(5Z,8Z,11Z,13E)-15-HETE  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-O-palmitoyl-2-O-(5-oxovaleryl)-sn-glycero-3-phosphocholine  (ISO)
1-octadec-9-enoylglycero-3-phosphate  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-acetyl-1-alkyl-sn-glycero-3-phosphocholine  (ISO)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (EXP,ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
4-hydroxycyclophosphamide  (EXP)
4-hydroxynon-2-enal  (ISO)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
afimoxifene  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
aluminium atom  (EXP)
aluminium(0)  (EXP)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antirheumatic drug  (ISO)
arachidonic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
baicalin  (EXP)
benoxaprofen  (EXP,ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
beta-D-glucosamine 6-sulfate  (ISO)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP)
butan-1-ol  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
Calcimycin  (EXP,ISO)
calcitriol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
capsaicin  (EXP)
carbon nanotube  (ISO)
celecoxib  (ISO)
cetirizine  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cis-caffeic acid  (EXP,ISO)
cisplatin  (ISO)
coumarin  (EXP)
curcumin  (EXP)
D-glucitol  (ISO)
D-glucose  (EXP,ISO)
dexamethasone  (EXP)
dextran sulfate  (ISO)
dimethyl sulfoxide  (ISO)
dioxygen  (EXP,ISO)
dithiol  (EXP)
docebenone  (EXP,ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ebselen  (ISO)
edaravone  (EXP)
elemental selenium  (EXP)
endosulfan  (EXP,ISO)
entinostat  (ISO)
ethoxyquin  (EXP)
flavonoids  (EXP)
folic acid  (ISO)
fructose  (ISO)
furan  (EXP)
glucose  (EXP,ISO)
histamine  (ISO)
hydrogen peroxide  (EXP,ISO)
hydroxamic acid  (EXP)
hydroxyurea  (ISO)
indometacin  (EXP)
kaempferol  (ISO)
L-methionine  (ISO)
leukotriene A4  (ISO)
leukotriene B4  (EXP,ISO)
leukotriene C4  (EXP,ISO)
leukotriene D4  (ISO)
leukotriene E4  (ISO)
lipopolysaccharide  (ISO)
lipoxin A4  (EXP)
lonapalene  (ISO)
Loratadine  (ISO)
losartan  (EXP)
luteolin  (ISO)
masoprocol  (EXP,ISO)
meclofenamic acid  (ISO)
melittin  (ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
miquelianin  (ISO)
montelukast  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-nitrosodiethylamine  (ISO)
nickel atom  (ISO)
niclosamide  (ISO)
nicotine  (ISO)
nitric oxide  (EXP)
O-methyleugenol  (ISO)
ochratoxin A  (ISO)
oxaliplatin  (EXP)
paracetamol  (ISO)
paraquat  (EXP,ISO)
pentanal  (ISO)
peroxynitrous acid  (EXP)
PhIP  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
poly(propylene imine) macromolecule  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propanal  (ISO)
propranolol  (ISO)
quercetin  (ISO)
quercetin 3-sulfate  (ISO)
reactive oxygen species  (EXP)
rebaudioside A  (ISO)
resveratrol  (ISO)
SB 203580  (EXP,ISO)
SB 431542  (ISO)
selenium atom  (EXP)
silicon dioxide  (EXP,ISO)
sodium arsenite  (ISO)
sodium chloride  (EXP)
sodium dichromate  (ISO)
steviol  (ISO)
stevioside  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tenidap  (ISO)
tepoxalin  (EXP,ISO)
tert-butanol  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
thapsigargin  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
trans-caffeic acid  (EXP,ISO)
triamcinolone acetonide  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (EXP)
tyrphostin AG 1478  (ISO)
valproic acid  (ISO)
vitamin E  (EXP,ISO)
zileuton  (EXP,ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acute inflammatory response  (IMP)
arachidonic acid metabolic process  (IBA)
dendritic cell migration  (IEA,ISO,ISS)
glucose homeostasis  (IEA,ISO,ISS)
hepoxilin biosynthetic process  (IBA)
humoral immune response  (IEA,ISO,ISS)
inflammatory response  (ISO)
leukocyte chemotaxis involved in inflammatory response  (IEA,ISO,ISS)
leukocyte migration involved in inflammatory response  (ISO,ISS)
leukotriene A4 biosynthetic process  (IEA,ISO,ISS)
leukotriene biosynthetic process  (ISO,ISS,TAS)
leukotriene metabolic process  (ISO)
leukotriene production involved in inflammatory response  (IEA,ISO)
linoleic acid metabolic process  (IBA)
lipid oxidation  (IBA)
lipoxin biosynthetic process  (IEA,ISO,ISS)
lipoxygenase pathway  (IBA)
negative regulation of angiogenesis  (ISO,ISS)
negative regulation of endothelial cell proliferation  (IEA,ISO,ISS)
negative regulation of inflammatory response  (IEA,ISO,ISS)
negative regulation of response to endoplasmic reticulum stress  (IEA,ISO,ISS)
negative regulation of sprouting angiogenesis  (IEA,ISO,ISS)
negative regulation of vascular wound healing  (IEA,ISO,ISS)
negative regulation of wound healing  (ISO,ISS)
positive regulation of bone mineralization  (IEA,ISO,ISS)
positive regulation of cytochrome-c oxidase activity  (IMP)
positive regulation of leukocyte adhesion to arterial endothelial cell  (IEA,ISO,ISS)
positive regulation of vasoconstriction  (IMP)
regulation of cellular response to oxidative stress  (IEA,ISO,ISS)
regulation of cytokine production involved in inflammatory response  (IEA,ISO,ISS)
regulation of fat cell differentiation  (IEA,ISO,ISS)
regulation of inflammatory response  (ISO,ISS)
regulation of inflammatory response to wounding  (IEA,ISO,ISS)
regulation of insulin secretion  (IEA,ISO,ISS)
regulation of reactive oxygen species biosynthetic process  (IEA,ISO,ISS)
response to hyperoxia  (IEP)
response to nutrient  (IEP)
sensory perception of pain  (IMP)

Cellular Component
cytoplasm  (IDA,IEA,ISO)
cytosol  (IEA,ISO,ISS)
dendrite  (IDA)
nuclear envelope  (IBA,IDA,ISO,TAS)
nuclear envelope lumen  (IEA,ISO,ISS)
nuclear matrix  (IEA,ISO)
nuclear membrane  (IEA,ISO,ISS)
nucleoplasm  (IEA,ISO)
nucleus  (IDA,ISO)
perinuclear region of cytoplasm  (IEA,ISO,ISS)
sarcolemma  (IDA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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20. GOA data from the GO Consortium
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23. Henderson WR Jr, etal., J Exp Med. 1996 Oct 1;184(4):1483-94.
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26. Herb F, etal., Hum Mol Genet. 2008 Apr 1;17(7):1052-60. Epub 2008 Jan 3.
27. Hosford GE, etal., Exp Lung Res. 2002 Dec;28(8):671-84.
28. Jame AJ, etal., Clin Exp Allergy. 2007 Jun;37(6):880-92.
29. Jones JE, etal., Am J Physiol Heart Circ Physiol. 2004 May;286(5):H1775-84. Epub 2004 Jan 15.
30. Kalayci O, etal., Allergy. 2006 Jan;61(1):97-103.
31. KEGG
32. Koshino T, etal., Biochem Biophys Res Commun. 1998 Jun 18;247(2):510-3.
33. Lee DW, etal., J Korean Med Sci. 2009 Jan;24 Suppl:S170-5. Epub 2009 Jan 29.
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40. MGD data from the GO Consortium
41. Mobius C, etal., Anticancer Res. 2008 Mar-Apr;28(2A):873-8.
42. NCBI rat LocusLink and RefSeq merged data July 26, 2002
43. OMIM Disease Annotation Pipeline
44. Peskar BM, etal., Pharmacology. 2009;84(5):294-9. Epub 2009 Oct 8.
45. Pipeline to import KEGG annotations from KEGG into RGD
46. Pipeline to import SMPDB annotations from SMPDB into RGD
47. Plewako H, etal., Allergy. 2006 Jun;61(6):725-30.
48. Ram A, etal., Int Arch Allergy Immunol. 2009;149(1):38-46. Epub 2008 Nov 26.
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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
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56. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
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Additional References at PubMed
PMID:7809134   PMID:7969451   PMID:8245774   PMID:8518276   PMID:8615788   PMID:8631361   PMID:9088981   PMID:9091580   PMID:11867678   PMID:12140292   PMID:12385890   PMID:12664571  
PMID:12914802   PMID:15371096   PMID:15479450   PMID:15630695   PMID:15789618   PMID:16516855   PMID:17114001   PMID:17392829   PMID:18295198   PMID:18421434   PMID:18714024   PMID:18978352  
PMID:19022417   PMID:19130224   PMID:19226207   PMID:19233132   PMID:20977452   PMID:21206090   PMID:21224059   PMID:21233389   PMID:21307302   PMID:21488210   PMID:22213124   PMID:22486866  
PMID:22516296   PMID:22664934   PMID:23053343   PMID:23246375   PMID:23720274   PMID:24226420   PMID:24282679   PMID:24747451   PMID:24893149   PMID:24906289   PMID:26210919   PMID:26492974  
PMID:27368151   PMID:27599517   PMID:28694473   PMID:28965882   PMID:29021582   PMID:29421656   PMID:29936999   PMID:30735559   PMID:31642348   PMID:31664810  


Genomics

Candidate Gene Status
Alox5 is a candidate Gene for QTL Bp116
Comparative Map Data
Alox5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24149,531,329 - 149,578,696 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4149,531,515 - 149,578,743 (-)Ensembl
Rnor_6.04148,398,004 - 148,446,308 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4148,398,892 - 148,446,303 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04214,345,956 - 214,393,337 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44152,610,283 - 152,657,891 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14152,855,123 - 152,902,732 (-)NCBI
Celera4138,415,564 - 138,454,485 (-)NCBICelera
Cytogenetic Map4q42NCBI
ALOX5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1045,374,176 - 45,446,119 (+)EnsemblGRCh38hg38GRCh38
GRCh381045,374,209 - 45,446,121 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371045,869,664 - 45,941,565 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361045,189,635 - 45,261,571 (+)NCBINCBI36hg18NCBI36
Build 341045,189,691 - 45,261,567NCBI
Celera1041,889,257 - 41,939,521 (+)NCBI
Cytogenetic Map10q11.21NCBI
HuRef1042,394,884 - 42,467,216 (+)NCBIHuRef
CHM1_11045,908,843 - 45,980,778 (+)NCBICHM1_1
Alox5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396116,387,030 - 116,438,139 (-)NCBIGRCm39mm39
GRCm39 Ensembl6116,387,038 - 116,438,139 (-)Ensembl
GRCm386116,410,071 - 116,461,178 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6116,410,077 - 116,461,178 (-)EnsemblGRCm38mm10GRCm38
MGSCv376116,360,089 - 116,411,196 (-)NCBIGRCm37mm9NCBIm37
MGSCv366116,375,696 - 116,426,797 (-)NCBImm8
Celera6118,247,670 - 118,299,116 (-)NCBICelera
Cytogenetic Map6E3NCBI
cM Map653.79NCBI
Alox5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555462,494,819 - 2,550,909 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555462,495,226 - 2,550,909 (+)NCBIChiLan1.0ChiLan1.0
ALOX5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11045,639,946 - 45,710,016 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1045,639,946 - 45,710,016 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01042,461,398 - 42,531,576 (+)NCBIMhudiblu_PPA_v0panPan3
ALOX5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1282,170,920 - 2,218,765 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl282,170,920 - 2,219,609 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha282,405,370 - 2,462,571 (-)NCBI
ROS_Cfam_1.0282,349,844 - 2,407,164 (-)NCBI
UMICH_Zoey_3.1282,147,070 - 2,204,281 (-)NCBI
UNSW_CanFamBas_1.0282,183,953 - 2,241,179 (-)NCBI
UU_Cfam_GSD_1.0282,315,780 - 2,373,040 (-)NCBI
Alox5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721381,798,191 - 81,858,352 (-)NCBI
SpeTri2.0NW_0049365547,807,914 - 7,848,691 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALOX5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1490,858,975 - 90,907,094 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11490,859,209 - 90,907,084 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21498,902,267 - 98,950,236 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ALOX5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1941,085,257 - 41,145,760 (+)NCBI
ChlSab1.1 Ensembl941,085,361 - 41,145,331 (+)Ensembl
Vero_WHO_p1.0NW_023666048764,154 - 824,908 (+)NCBI
Alox5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624966168,244 - 220,430 (+)NCBI

Position Markers
RH94554  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24149,531,561 - 149,531,650 (+)MAPPERmRatBN7.2
Rnor_6.04148,398,939 - 148,399,027NCBIRnor6.0
Rnor_5.04214,346,197 - 214,346,285UniSTSRnor5.0
RGSC_v3.44152,610,330 - 152,610,418UniSTSRGSC3.4
Celera4138,415,611 - 138,415,699UniSTS
Cytogenetic Map4q42UniSTS
RH133456  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24149,531,758 - 149,531,974 (+)MAPPERmRatBN7.2
Rnor_6.04148,399,136 - 148,399,351NCBIRnor6.0
Rnor_5.04214,346,394 - 214,346,609UniSTSRnor5.0
RGSC_v3.44152,610,527 - 152,610,742UniSTSRGSC3.4
Celera4138,415,808 - 138,416,023UniSTS
RH 3.4 Map4968.82UniSTS
Cytogenetic Map4q42UniSTS
BM387192  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24149,541,066 - 149,541,255 (+)MAPPERmRatBN7.2
Rnor_6.04148,408,444 - 148,408,632NCBIRnor6.0
Rnor_5.04214,355,702 - 214,355,890UniSTSRnor5.0
RGSC_v3.44152,619,835 - 152,620,023UniSTSRGSC3.4
Celera4138,425,085 - 138,425,273UniSTS
RH 3.4 Map4968.2UniSTS
Cytogenetic Map4q42UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105789505150789505Rat
61446Coreg2Compensatory renal growth QTL 23.5kidney mass (VT:0002707)compensatory renal growth score (CMO:0001894)4148423102157580971Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)485253748150276390Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:70
Count of miRNA genes:59
Interacting mature miRNAs:67
Transcripts:ENSRNOT00000017633
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 1 10
Low 3 25 41 25 19 25 8 11 41 25 32 1 8
Below cutoff 18 16 16 16 33 10 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017633   ⟹   ENSRNOP00000017633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4149,531,515 - 149,578,743 (-)Ensembl
Rnor_6.0 Ensembl4148,399,120 - 148,446,303 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000082907   ⟹   ENSRNOP00000068941
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4149,531,940 - 149,578,743 (-)Ensembl
Rnor_6.0 Ensembl4148,398,892 - 148,437,961 (-)Ensembl
RefSeq Acc Id: NM_012822   ⟹   NP_036954
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24149,531,515 - 149,578,696 (-)NCBI
Rnor_6.04148,398,892 - 148,446,273 (-)NCBI
Rnor_5.04214,345,956 - 214,393,337 (-)NCBI
RGSC_v3.44152,610,283 - 152,657,891 (-)RGD
Celera4138,415,564 - 138,454,485 (-)RGD
Sequence:
RefSeq Acc Id: XM_039107106   ⟹   XP_038963034
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24149,531,329 - 149,578,549 (-)NCBI
Protein Sequences
Protein RefSeqs NP_036954 (Get FASTA)   NCBI Sequence Viewer  
  XP_038963034 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41538 (Get FASTA)   NCBI Sequence Viewer  
  EDM02123 (Get FASTA)   NCBI Sequence Viewer  
  P12527 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_036954   ⟸   NM_012822
- Sequence:
RefSeq Acc Id: ENSRNOP00000068941   ⟸   ENSRNOT00000082907
RefSeq Acc Id: ENSRNOP00000017633   ⟸   ENSRNOT00000017633
RefSeq Acc Id: XP_038963034   ⟸   XM_039107106
- Peptide Label: isoform X1
Protein Domains
Lipoxygenase   PLAT

Transcriptome

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

Promoters
RGD ID:13693335
Promoter ID:EPDNEW_R3859
Type:single initiation site
Name:Alox5_1
Description:arachidonate 5-lipoxygenase
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_6.04148,446,288 - 148,446,348EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
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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
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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)
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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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
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
M520/NRrrcMcwi (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
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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
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)
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 (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)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2096 AgrOrtholog
Ensembl Genes ENSRNOG00000012972 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000017633 UniProtKB/TrEMBL
  ENSRNOP00000068941 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017633 UniProtKB/TrEMBL
  ENSRNOT00000082907 ENTREZGENE, UniProtKB/TrEMBL
InterPro LipOase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LipOase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LipOase_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LipOase_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LipOase_Fe_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LipOase_mml UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT/LH2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT/LH2_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT_LOX_verte UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25290 UniProtKB/Swiss-Prot
NCBI Gene 25290 ENTREZGENE
PANTHER PTHR11771 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Lipoxygenase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB ALOX5 RGD
PhenoGen Alox5 PhenoGen
PRINTS LIPOXYGENASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MAMLPOXGNASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE LIPOXYGENASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIPOXYGENASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LIPOXYGENASE_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART LH2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48484 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF49723 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC202441
UniProt A0A0G2JU29_RAT UniProtKB/TrEMBL
  F1LMM5_RAT UniProtKB/TrEMBL
  LOX5_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2001-06-29 Alox5  arachidonate 5-lipoxygenase      Name updated to reflect Human and Mouse nomenclature 67952 APPROVED
2001-06-29 Alox5  5 - Lipoxygenase      Name withdrawn 67952 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in all tissues tested 632194
gene_expression expressed at high levels in lung 632194
gene_function catalyzes the conversion of arachidonate to leukotriene A4 632194
gene_process plays a role in leukotriene metabolism 632194
gene_protein 77.6 kDa protein 632194
gene_transcript 2.6 kb transcript is detected 632194