Lox (lysyl oxidase) - Rat Genome Database

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Gene: Lox (lysyl oxidase) Rattus norvegicus
Analyze
Symbol: Lox
Name: lysyl oxidase
RGD ID: 3015
Description: Exhibits copper ion binding activity and protein-lysine 6-oxidase activity. Involved in several processes, including extracellular matrix organization; platelet-derived growth factor receptor-beta signaling pathway; and protein oxidation. Localizes to extracellular matrix and nucleus. Used to study abdominal aortic aneurysm; arteriosclerosis; coronary artery disease; coronary restenosis; and hypertension. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome; Menkes disease; hypertension; and thoracic aortic aneurysm. Orthologous to human LOX (lysyl oxidase); PARTICIPATES IN hypertension pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: H-rev142; Lysyl oxidase (an H-rev gene with its expression down-regulated in HRAS-transformed rat 208F fibroblasts); protein-lysine 6-oxidase; Rrg1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21845,964,311 - 46,041,477 (-)NCBI
Rnor_6.0 Ensembl1847,500,330 - 47,577,819 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01847,500,320 - 47,577,819 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01846,713,533 - 46,791,367 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41847,896,674 - 47,970,829 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11847,931,499 - 47,944,296 (-)NCBI
Celera1844,155,712 - 44,229,997 (-)NCBICelera
Cytogenetic Map18q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2-butoxyethanol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-methylcholanthrene  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
alendronic acid  (EXP)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
ampicillin  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzbromarone  (EXP)
benzo[a]pyrene  (ISO)
beta-aminopropionitrile  (EXP,ISO)
beta-naphthoflavone  (EXP)
bexarotene  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromobenzene  (EXP)
brucine  (ISO)
cadmium atom  (EXP)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
carvedilol  (EXP)
chlorohydrocarbon  (EXP)
chloroprene  (EXP,ISO)
ciglitazone  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (EXP,ISO)
clomipramine  (EXP)
clothianidin  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
DDT  (EXP)
decabromodiphenyl ether  (EXP)
Deguelin  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
ethanol  (ISO)
fenvalerate  (EXP)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
glycidol  (EXP)
hemin  (ISO)
hydrogen peroxide  (ISO)
hydrogen sulfide  (ISO)
imipramine  (EXP)
iron atom  (ISO)
iron(0)  (ISO)
isoprenaline  (ISO)
ketoconazole  (EXP)
L-ethionine  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
linoleic acid  (ISO)
losartan  (EXP)
manganese(II) chloride  (EXP)
menadione  (ISO)
metformin  (EXP)
methapyrilene  (EXP)
methylmercury chloride  (EXP)
mifepristone  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosomorpholine  (EXP)
naphthalene  (ISO)
nefazodone  (EXP)
nickel atom  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nitrofen  (EXP)
okadaic acid  (ISO)
oleic acid  (ISO)
omeprazole  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
pentane-2,3-dione  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (EXP)
potassium chromate  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
quercetin  (ISO)
quinolin-8-ol  (ISO)
raloxifene  (EXP)
rotenone  (EXP)
SB 431542  (ISO)
semicarbazide  (EXP)
sevoflurane  (EXP)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sulforaphane  (ISO)
sulindac  (ISO)
sunitinib  (ISO)
tauroursodeoxycholic acid  (EXP)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
tetrathiomolybdate(2-)  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene  (EXP)
topotecan  (EXP)
Trapidil  (EXP)
tributylstannane  (EXP)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bhaskar HN, etal., Indian J Exp Biol. 2005 Mar;43(3):294-6.
2. Chen LJ, etal., Toxicol Sci. 2005 Feb;83(2):372-9. Epub 2004 Oct 27.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. GOA data from the GO Consortium
5. Harlow CR, etal., Endocrinology 2003 Jan;144(1):154-62.
6. Herrera VM, etal., Mol Med. 2002 Jul;8(7):367-75.
7. Huffman MD, etal., Surgery. 2000 Sep;128(3):429-38.
8. Kemppainen R, etal., Arch Biochem Biophys. 1996 Apr 1;328(1):101-6.
9. Lau YK, etal., Ann Biomed Eng. 2006 Aug;34(8):1239-46. Epub 2006 Jun 28.
10. Lucero HA, etal., J Biol Chem. 2008 Aug 29;283(35):24103-17. doi: 10.1074/jbc.M709897200. Epub 2008 Jun 27.
11. Maki JM, etal., Circulation. 2002 Nov 5;106(19):2503-9.
12. MGD data from the GO Consortium
13. NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. Nellaiappan K, etal., J Cell Biochem. 2000 Sep 14;79(4):576-82.
15. Nuthakki VK, etal., J Vasc Surg. 2004 Jul;40(1):123-9.
16. Ooshima A and Midorikawa O, Jpn Circ J. 1977 Dec;41(12):1337-40.
17. RGD automated data pipeline
18. RGD automated import pipeline for gene-chemical interactions
19. Smith-Mungo L and Kagan HM, J Cell Biochem 2002;85(4):775-84.
20. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
21. Thomassin L, etal., J Biol Chem. 2005 Dec 30;280(52):42848-55. Epub 2005 Oct 26.
22. Trackman PC, etal., Biochemistry 1990 May 22;29(20):4863-70.
23. Trackman PC, etal., Biochemistry 1991 Aug 20;30(33):8282.
24. Tsuda T, etal., Cardiovasc Res. 2003 Oct 1;59(4):926-33.
25. Vivoli G, etal., Biol Trace Elem Res. 1995 Aug-Sep;49(2-3):97-106.
26. Zhao Y, etal., Toxicol Sci. 2006 Apr;90(2):478-89. Epub 2006 Jan 23.
Additional References at PubMed
PMID:14140   PMID:20889   PMID:7873615   PMID:7901452   PMID:9382709   PMID:12577300   PMID:12686140   PMID:14741400   PMID:15489334   PMID:16126250   PMID:16192629   PMID:17584760  
PMID:17673218   PMID:18060869   PMID:18803461   PMID:18835815   PMID:19359664   PMID:19458888   PMID:19683237   PMID:20048148   PMID:20192271   PMID:20484295   PMID:20606470   PMID:20888776  
PMID:21215756   PMID:21498085   PMID:21665949   PMID:21893029   PMID:22205540   PMID:23006535   PMID:23413430   PMID:24006456   PMID:24120383   PMID:24440697   PMID:24650661   PMID:24971753  
PMID:25111273   PMID:25715398   PMID:25807483   PMID:26670953   PMID:26700732   PMID:26755713   PMID:26780438   PMID:26804196   PMID:27169768   PMID:27432961   PMID:28285904   PMID:28538980  
PMID:28550176   PMID:28668305   PMID:28711328   PMID:28800626   PMID:29146187   PMID:29278308   PMID:29502979   PMID:31152061   PMID:32979358  


Genomics

Comparative Map Data
Lox
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21845,964,311 - 46,041,477 (-)NCBI
Rnor_6.0 Ensembl1847,500,330 - 47,577,819 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01847,500,320 - 47,577,819 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01846,713,533 - 46,791,367 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41847,896,674 - 47,970,829 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11847,931,499 - 47,944,296 (-)NCBI
Celera1844,155,712 - 44,229,997 (-)NCBICelera
Cytogenetic Map18q11NCBI
LOX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5122,063,195 - 122,078,413 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl5122,063,195 - 122,078,360 (-)EnsemblGRCh38hg38GRCh38
GRCh385122,063,195 - 122,078,259 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375121,398,890 - 121,413,954 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365121,429,918 - 121,441,853 (-)NCBINCBI36hg18NCBI36
Build 345121,429,917 - 121,441,853NCBI
Celera5117,353,346 - 117,368,512 (-)NCBI
Cytogenetic Map5q23.1NCBI
HuRef5116,590,466 - 116,605,632 (-)NCBIHuRef
CHM1_15120,831,494 - 120,846,800 (-)NCBICHM1_1
Lox
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391852,649,132 - 52,662,939 (-)NCBIGRCm39mm39
GRCm39 Ensembl1852,649,139 - 52,662,939 (-)Ensembl
GRCm381852,516,060 - 52,529,867 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1852,516,067 - 52,529,867 (-)EnsemblGRCm38mm10GRCm38
MGSCv371852,676,892 - 52,689,362 (-)NCBIGRCm37mm9NCBIm37
MGSCv361852,641,436 - 52,655,072 (-)NCBImm8
Celera1853,829,941 - 53,842,352 (-)NCBICelera
Cytogenetic Map18D1NCBI
cM Map1828.22NCBI
Lox
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955521185,792 - 193,926 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955521178,290 - 193,926 (-)NCBIChiLan1.0ChiLan1.0
LOX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15123,233,359 - 123,248,658 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5123,234,662 - 123,248,717 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05117,450,833 - 117,464,957 (-)NCBIMhudiblu_PPA_v0panPan3
LOX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11112,023,645 - 12,040,015 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1112,027,250 - 12,039,819 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1110,807,698 - 10,821,728 (-)NCBI
ROS_Cfam_1.01112,730,282 - 12,744,862 (-)NCBI
UMICH_Zoey_3.11111,471,714 - 11,486,299 (-)NCBI
UNSW_CanFamBas_1.01111,289,217 - 11,303,248 (-)NCBI
UU_Cfam_GSD_1.01111,920,314 - 11,934,905 (-)NCBI
Lox
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213134,444,800 - 134,452,726 (-)NCBI
SpeTri2.0NW_0049365752,526,067 - 2,533,996 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2125,593,116 - 125,607,594 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12125,595,115 - 125,607,026 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22130,888,135 - 130,900,048 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOX
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12325,158,458 - 25,172,763 (-)NCBI
ChlSab1.1 Ensembl2325,157,269 - 25,172,757 (-)Ensembl
Lox
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477420,116,625 - 20,137,767 (+)NCBI

Position Markers
D18Got43  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01847,524,323 - 47,524,511NCBIRnor6.0
Rnor_5.01846,737,398 - 46,737,586UniSTSRnor5.0
RGSC_v3.41847,917,682 - 47,917,868RGDRGSC3.4
RGSC_v3.41847,917,680 - 47,917,868UniSTSRGSC3.4
RGSC_v3.11847,955,305 - 47,955,491RGD
Celera1844,176,590 - 44,176,778UniSTS
Cytogenetic Map18q11UniSTS
D18Got44  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01847,575,494 - 47,575,696NCBIRnor6.0
Rnor_5.01846,789,042 - 46,789,244UniSTSRnor5.0
RGSC_v3.41847,968,503 - 47,968,706RGDRGSC3.4
RGSC_v3.41847,968,504 - 47,968,706UniSTSRGSC3.4
RGSC_v3.11848,006,126 - 48,006,329RGD
Celera1844,227,672 - 44,227,874UniSTS
Cytogenetic Map18q11UniSTS
D18Chm55  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01847,575,502 - 47,575,706NCBIRnor6.0
Rnor_5.01846,789,050 - 46,789,254UniSTSRnor5.0
RGSC_v3.41847,968,512 - 47,968,716UniSTSRGSC3.4
Celera1844,227,680 - 44,227,884UniSTS
Cytogenetic Map18q11UniSTS
RH134457  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01847,500,582 - 47,500,761NCBIRnor6.0
Rnor_5.01846,713,795 - 46,713,974UniSTSRnor5.0
RGSC_v3.41847,893,908 - 47,894,087UniSTSRGSC3.4
Celera1844,152,946 - 44,153,125UniSTS
Cytogenetic Map18q11UniSTS
RH139210  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01847,501,572 - 47,501,723NCBIRnor6.0
Rnor_5.01846,714,785 - 46,714,936UniSTSRnor5.0
RGSC_v3.41847,894,898 - 47,895,049UniSTSRGSC3.4
Celera1844,153,936 - 44,154,087UniSTS
Cytogenetic Map18q11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18440751362570466Rat
2313082Bss85Bone structure and strength QTL 850.80.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)181467885259678852Rat
1331753Bp231Blood pressure QTL 2313.643arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181553942753861431Rat
1358358Sradr6Stress Responsive Adrenal Weight QTL 62.49adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)181553942761499684Rat
6903359Bp355Blood pressure QTL 3553.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)181553967161985648Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181569587268524999Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181569587287080053Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181569587287080053Rat
1358193Emca2Estrogen-induced mammary cancer QTL 21.6mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)181903103068436105Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)182028575887080053Rat
7387267Uae42Urinary albumin excretion QTL 420.61urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)142163949166639491Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260373687074531Rat
6903353Bp353Blood pressure QTL 3532.8arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260476461985648Rat
1641923Colcr8Colorectal carcinoma resistance QTL 83.10.0014intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)182318422753861431Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182596102681761656Rat
2301413Bp318Blood pressure QTL 3180.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182774302448499517Rat
12904673Cm127Cardiac mass QTL 1270.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)182774302448499517Rat
12904675Am19Aortic mass QTL 190.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)182774302448499517Rat
12904677Kidm72Kidney mass QTL 720.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)182774302448499517Rat
12904668Bw188Body weight QTL 1880.03body mass (VT:0001259)body weight (CMO:0000012)182774302448499517Rat
12904669Cm125Cardiac mass QTL 1250.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)182774302448499517Rat
12904670Cm126Cardiac mass QTL 1260.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)182774302448499517Rat
2300157Bmd66Bone mineral density QTL 6613.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)183053361475533614Rat
2300177Bmd65Bone mineral density QTL 6519.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)183053361475533614Rat
2293704Bss35Bone structure and strength QTL 354.590.0002femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)183053361475533614Rat
9590318Scort22Serum corticosterone level QTL 227.640.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)183136134176361341Rat
1331754Bp230Blood pressure QTL 2304.61609arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183136134176361341Rat
9589816Gluco68Glucose level QTL 687.250.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)183136134176361341Rat
8694378Bw157Body weight QTL 1573.590.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)183136134176361341Rat
738005Anxrr11Anxiety related response QTL 113.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)183160842476608424Rat
61383Bp47Blood pressure QTL 4717.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)183172837362570429Rat
1331776Bp225Blood pressure QTL 2252.829arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)183267035261985812Rat
1331774Bp226Blood pressure QTL 2264.41065arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035261985812Rat
1331742Bp228Blood pressure QTL 2283.88752arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035261985812Rat
1331798Bp224Blood pressure QTL 2243.53873arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035261985812Rat
1331727Bp237Blood pressure QTL 2373.053arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267035263897621Rat
61429Cia17Collagen induced arthritis QTL 174.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)183267035273016546Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183267035287080053Rat
6903347Bp350Blood pressure QTL 3504.4arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183267047361985648Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183270402280696226Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183822191983221919Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184037576985375769Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184500219488201929Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184631947688201929Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:412
Count of miRNA genes:232
Interacting mature miRNAs:270
Transcripts:ENSRNOT00000019844, ENSRNOT00000074226
Prediction methods:Microtar, Miranda, 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 26 9 1 11 1 4 4 11 20 29 11 4
Low 3 17 46 38 8 38 4 7 62 15 12 4
Below cutoff 2 2 2 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019844   ⟹   ENSRNOP00000019844
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1847,503,350 - 47,577,819 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000074226   ⟹   ENSRNOP00000065314
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1847,500,330 - 47,513,065 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000083881   ⟹   ENSRNOP00000068687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1847,504,284 - 47,513,030 (-)Ensembl
RefSeq Acc Id: NM_017061   ⟹   NP_058757
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21845,967,341 - 46,041,477 (-)NCBI
Rnor_6.01847,503,348 - 47,577,819 (-)NCBI
Rnor_5.01846,713,533 - 46,791,367 (-)NCBI
RGSC_v3.41847,896,674 - 47,970,829 (-)RGD
Celera1844,155,712 - 44,229,997 (-)RGD
Sequence:
RefSeq Acc Id: XM_006254713   ⟹   XP_006254775
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21845,964,311 - 45,977,430 (-)NCBI
Rnor_6.01847,500,320 - 47,513,428 (-)NCBI
Rnor_5.01846,713,533 - 46,791,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006254714   ⟹   XP_006254776
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01847,500,320 - 47,513,599 (-)NCBI
Rnor_5.01846,713,533 - 46,791,367 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006254715   ⟹   XP_006254777
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21845,968,942 - 45,977,431 (-)NCBI
Rnor_6.01847,504,949 - 47,513,429 (-)NCBI
Rnor_5.01846,713,533 - 46,791,367 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058757   ⟸   NM_017061
- Peptide Label: precursor
- UniProtKB: P16636 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006254776   ⟸   XM_006254714
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006254775   ⟸   XM_006254713
- Peptide Label: isoform X1
- UniProtKB: P16636 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006254777   ⟸   XM_006254715
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000019844   ⟸   ENSRNOT00000019844
RefSeq Acc Id: ENSRNOP00000068687   ⟸   ENSRNOT00000083881
RefSeq Acc Id: ENSRNOP00000065314   ⟸   ENSRNOT00000074226

Transcriptome

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

Promoters
RGD ID:13700788
Promoter ID:EPDNEW_R11303
Type:initiation region
Name:Lox_1
Description:lysyl oxidase
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_6.01847,513,095 - 47,513,155EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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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)
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
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
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/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
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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)
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/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:3015 AgrOrtholog
Ensembl Genes ENSRNOG00000014426 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000019844 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000065314 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068687 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000019844 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000074226 UniProtKB/Swiss-Prot
  ENSRNOT00000083881 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7113042 IMAGE-MGC_LOAD
InterPro Lysyl_oxidase UniProtKB/Swiss-Prot
  Lysyl_oxidase_CS UniProtKB/Swiss-Prot
KEGG Report rno:24914 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93522 IMAGE-MGC_LOAD
NCBI Gene 24914 ENTREZGENE
Pfam Lysyl_oxidase UniProtKB/Swiss-Prot
PhenoGen Lox PhenoGen
PRINTS LYSYLOXIDASE UniProtKB/Swiss-Prot
PROSITE LYSYL_OXIDASE UniProtKB/Swiss-Prot
UniProt LYOX_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Lox  lysyl oxidase      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process important for regulating the formation and maintenance of extracellular matrix in the ovary 729248