Got1 (glutamic-oxaloacetic transaminase 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Got1 (glutamic-oxaloacetic transaminase 1) Rattus norvegicus
Analyze
Symbol: Got1
Name: glutamic-oxaloacetic transaminase 1
RGD ID: 2721
Description: Enables L-aspartate:2-oxoglutarate aminotransferase activity; L-cysteine:2-oxoglutarate aminotransferase activity; and carboxylic acid binding activity. Involved in several processes, including cellular response to mechanical stimulus; dicarboxylic acid metabolic process; and ion homeostasis. Located in axon terminus; cytosol; and lysosome. Used to study transient cerebral ischemia. Biomarker of cardiomyopathy. Human ortholog(s) of this gene implicated in amyloidosis; amyotrophic lateral sclerosis; pancreatic ductal adenocarcinoma; and transient cerebral ischemia. Orthologous to human GOT1 (glutamic-oxaloacetic transaminase 1); PARTICIPATES IN gluconeogenesis pathway; AGAT deficiency pathway; alkaptonuria pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrobenzenesulfonic acid.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: AAT1; ASAT; aspartate aminotransferase 1; aspartate aminotransferase, cytoplasmic; Aspat; cAspAT; cCAT; cysteine aminotransferase, cytoplasmic; cysteine transaminase, cytoplasmic; cytosolic aspartate aminotransferase; Gaspat; glutamate oxaloacetate transaminase 1; glutamate oxaloacetate transaminase 1, soluble; Glutamic-oxaloacetic transaminase 1 soluble (aspartate aminotransferase cytosolic) see also D1Mgh12; glutamic-oxaloacetic transaminase 1, soluble; glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase 1); Glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase, cytosolic) see also D1Mgh12; transaminase A
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
mRatBN7.21242,357,293 - 242,381,535 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1263,246,248 - 263,269,762 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01263,246,248 - 263,269,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01270,691,424 - 270,714,958 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41247,324,285 - 247,347,553 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1238,178,819 - 238,202,121 (-)NCBICelera
RH 3.4 Map1 RGD
Cytogenetic Map1q54NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(2,4,5-trichlorophenoxy)acetic acid  (ISO)
(Z)-3-butylidenephthalide  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrabromodibenzodioxine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (EXP)
2,4-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP)
adefovir pivoxil  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
aldrin  (ISO)
ammonium chloride  (EXP)
aristolochic acid  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (EXP)
baicalin  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
bromobenzene  (EXP)
cadmium dichloride  (EXP,ISO)
capsaicin  (EXP)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chloroethene  (ISO)
chlorpyrifos  (ISO)
cidofovir anhydrous  (ISO)
ciguatoxin CTX1B  (ISO)
cis-caffeic acid  (EXP)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (ISO)
clotrimazole  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP)
cyclosporin A  (EXP,ISO)
cypermethrin  (EXP,ISO)
D-glucose  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diclofenac  (ISO)
dicrotophos  (ISO)
diethyl phthalate  (EXP)
dioxygen  (ISO)
disodium selenite  (ISO)
diuron  (EXP)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
enzalutamide  (ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP,ISO)
fenofibrate  (EXP)
fenvalerate  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
gamma-hexachlorocyclohexane  (EXP)
genistein  (EXP)
glucose  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP)
hydroquinone  (ISO)
ibuprofen  (ISO)
indometacin  (ISO)
iodide salt  (EXP)
iron atom  (EXP)
iron(0)  (EXP)
iron(3+) sulfate  (EXP)
lead diacetate  (ISO)
lipopolysaccharide  (EXP)
loperamide  (EXP)
mancozeb  (EXP)
metformin  (EXP)
methapyrilene  (EXP)
monosodium L-glutamate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
nefazodone  (EXP)
oxaloacetic acid  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
PCB138  (ISO)
perfluorooctanoic acid  (ISO)
phenformin  (EXP)
phenobarbital  (EXP,ISO)
pioglitazone  (EXP)
pirinixic acid  (EXP,ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
progesterone  (EXP,ISO)
propiconazole  (ISO)
quercetin  (ISO)
ranitidine  (EXP)
resveratrol  (EXP)
rotenone  (EXP)
S-allylcysteine  (ISO)
S-nitroso-N-acetyl-D-penicillamine  (EXP)
sevoflurane  (EXP)
sodium arsenite  (EXP)
sodium fluoride  (ISO)
sodium nitrate  (ISO)
streptozocin  (EXP)
sulfur dioxide  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (EXP)
testosterone  (EXP,ISO)
tetrachloromethane  (EXP,ISO)
thalidomide  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trans-caffeic acid  (EXP)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP)
Triptolide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon terminus  (IDA)
cytoplasm  (IDA,ISO)
cytosol  (IBA,IDA,ISO,TAS)
lysosome  (IDA)
nucleoplasm  (IEA,ISO)

References

References - curated
1. Abd El-Latif AA, etal., Injury. 2016 Dec;47(12):2709-2717. doi: 10.1016/j.injury.2016.10.003. Epub 2016 Oct 6.
2. Akagi R Acta Med Okayama. 1982 Jun;36(3):187-97.
3. Arenas Diaz G and Martinez-Rodriguez R, Brain Res. 1990 May 14;516(1):77-83.
4. Athmouni K, etal., Int J Biol Macromol. 2018 Mar;108:853-862. doi: 10.1016/j.ijbiomac.2017.10.175. Epub 2017 Oct 31.
5. Begum MM, etal., Indian J Clin Biochem. 2014 Oct;29(4):452-61. doi: 10.1007/s12291-013-0393-1. Epub 2013 Oct 24.
6. Berry MN, etal., FEBS Lett. 1988 Apr 11;231(1):19-24.
7. Bouhafs L, etal., Ren Fail. 2015;37(8):1370-8. doi: 10.3109/0886022X.2015.1073543. Epub 2015 Aug 14.
8. Chen S, etal., Lab Invest. 2015 Feb;95(2):142-56. doi: 10.1038/labinvest.2014.147. Epub 2015 Jan 12.
9. Dondorf F, etal., World J Gastroenterol. 2017 Jun 21;23(23):4191-4199. doi: 10.3748/wjg.v23.i23.4191.
10. Drouet JB, etal., Neuroscience. 2015 Jan 29;285:155-65. doi: 10.1016/j.neuroscience.2014.10.058. Epub 2014 Nov 6.
11. El Hidan MA, etal., Toxicon. 2016 Mar 1;111:22-30. doi: 10.1016/j.toxicon.2015.12.010. Epub 2015 Dec 22.
12. El-Gendy MMAA, etal., Appl Biochem Biotechnol. 2017 Nov;183(3):833-852. doi: 10.1007/s12010-017-2467-7. Epub 2017 Apr 7.
13. Endo S, etal., Biochim Biophys Acta. 1999 Jul 8;1450(3):385-96.
14. Fahmy SR, BMC Complement Altern Med. 2015 Feb 5;15:14. doi: 10.1186/s12906-015-0533-7.
15. Fahmy SR, etal., Chem Biol Interact. 2016 Jan 25;244:113-20. doi: 10.1016/j.cbi.2015.11.009. Epub 2015 Nov 22.
16. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
17. GOA data from the GO Consortium
18. Han Y, etal., Neurosci Lett. 2014 Mar 20;563:149-54. doi: 10.1016/j.neulet.2013.12.042. Epub 2013 Dec 25.
19. Hinkelbein J, etal., Mol Cell Biochem. 2010 Jun;339(1-2):9-21. doi: 10.1007/s11010-009-0365-1. Epub 2010 Jan 5.
20. Horio Y, etal., Biochem Biophys Res Commun. 1988 May 31;153(1):410-6.
21. Horio Y, etal., J Biochem (Tokyo) 1988 May;103(5):797-804.
22. Kaneko T and Mizuno N, Neuroscience. 1994 Aug;61(4):839-49.
23. KEGG
24. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
25. Lahbib K and Touil S, Biomed Pharmacother. 2016 Oct;83:186-193. doi: 10.1016/j.biopha.2016.06.022. Epub 2016 Jun 28.
26. Laloy J, etal., Toxicol Rep. 2014 May 12;1:172-187. doi: 10.1016/j.toxrep.2014.03.004. eCollection 2014.
27. Li J, etal., PLoS One. 2017 Aug 10;12(8):e0182679. doi: 10.1371/journal.pone.0182679. eCollection 2017.
28. Liang Y, etal., Lab Invest. 2011 Jan;91(1):12-23. doi: 10.1038/labinvest.2010.156. Epub 2010 Aug 23.
29. Liu J, etal., Sci Rep. 2016 Feb 16;6:21112. doi: 10.1038/srep21112.
30. Martens JC, etal., Mol Cell Biochem. 2015 Feb;400(1-2):253-63. doi: 10.1007/s11010-014-2282-1. Epub 2014 Nov 23.
31. McKenna MC, etal., Biochem Pharmacol. 2006 Feb 14;71(4):399-407. Epub 2005 Dec 20.
32. NCBI rat LocusLink and RefSeq merged data July 26, 2002
33. Nikiforov AA J Pharmacol Exp Ther. 1995 Sep;274(3):1204-8.
34. Pave-Preux M, etal., J Biol Chem 1988 Nov 25;263(33):17459-66.
35. Pipeline to import KEGG annotations from KEGG into RGD
36. Pipeline to import SMPDB annotations from SMPDB into RGD
37. PĂ©rez-Mato M, etal., Cell Death Dis. 2014 Jan 9;5:e992. doi: 10.1038/cddis.2013.507.
38. Rakhmanova TI and Popova TN, Biochemistry (Mosc). 2006 Feb;71(2):211-7.
39. RGD automated data pipeline
40. RGD automated import pipeline for gene-chemical interactions
41. Rink C, etal., Antioxid Redox Signal. 2011 May 15;14(10):1777-85. doi: 10.1089/ars.2011.3930. Epub 2011 Mar 28.
42. Rink C, etal., J Cereb Blood Flow Metab. 2010 Jul;30(7):1275-87. doi: 10.1038/jcbfm.2010.7. Epub 2010 Feb 10.
43. Ruban A, etal., Neurodegener Dis. 2015;15(4):233-42. doi: 10.1159/000382034. Epub 2015 Jun 23.
44. Samout N, etal., Biomed Pharmacother. 2016 Oct;83:1233-1238. doi: 10.1016/j.biopha.2016.08.038. Epub 2016 Aug 23.
45. Sato A, etal., J Nutr Sci Vitaminol (Tokyo). 1991 Aug;37(4):419-24.
46. Son J, etal., Nature. 2013 Apr 4;496(7443):101-5. doi: 10.1038/nature12040. Epub 2013 Mar 27.
47. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
48. Sun Y, etal., Lab Invest. 2010 Jan;90(1):68-82. Epub 2009 Oct 12.
49. Tordjman J, etal., J Biol Chem. 2007 Aug 10;282(32):23591-602. Epub 2007 Jun 1.
50. Vyshtakalyuk AB, etal., Int J Risk Saf Med. 2015;27 Suppl 1:S78-9. doi: 10.3233/JRS-150698.
51. Wang C, etal., Neuroreport. 2018 Jan 17;29(2):99-105. doi: 10.1097/WNR.0000000000000914.
52. Ying W Antioxid Redox Signal. 2008 Feb;10(2):179-206.
53. Zhang D, etal., Neuropharmacology. 2017 Jul 15;121:231-246. doi: 10.1016/j.neuropharm.2017.03.036. Epub 2017 Apr 5.
54. Zlotnik A, etal., Exp Neurol. 2007 Jan;203(1):213-20. doi: 10.1016/j.expneurol.2006.08.021. Epub 2006 Oct 2.
Additional References at PubMed
PMID:1914521   PMID:2182221   PMID:2241899   PMID:2307672   PMID:2731362   PMID:3242498   PMID:4193185   PMID:6391741   PMID:7060339   PMID:7444718   PMID:8396422   PMID:15489334  
PMID:19056867   PMID:19199708   PMID:20458337   PMID:21630459   PMID:22871113   PMID:23376485   PMID:23533145   PMID:24611772   PMID:25446530  


Genomics

Candidate Gene Status
Got1 is a candidate Gene for QTL Rf1
Comparative Map Data
Got1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21242,357,293 - 242,381,535 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl1263,246,248 - 263,269,762 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01263,246,248 - 263,269,762 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01270,691,424 - 270,714,958 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41247,324,285 - 247,347,553 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1238,178,819 - 238,202,121 (-)NCBICelera
RH 3.4 Map1 RGD
Cytogenetic Map1q54NCBI
GOT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1099,396,870 - 99,430,624 (-)EnsemblGRCh38hg38GRCh38
GRCh381099,396,870 - 99,430,624 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3710101,156,627 - 101,190,381 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610101,146,618 - 101,180,336 (-)NCBINCBI36hg18NCBI36
Build 3410101,146,617 - 101,180,336NCBI
Celera1094,893,454 - 94,927,360 (-)NCBI
Cytogenetic Map10q24.2NCBI
HuRef1094,783,264 - 94,817,025 (-)NCBIHuRef
CHM1_110101,438,925 - 101,472,830 (-)NCBICHM1_1
Got1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391943,488,191 - 43,514,743 (-)NCBIGRCm39mm39
GRCm39 Ensembl1943,488,191 - 43,513,044 (-)Ensembl
GRCm381943,499,752 - 43,524,605 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1943,499,752 - 43,524,605 (-)EnsemblGRCm38mm10GRCm38
MGSCv371943,574,242 - 43,599,095 (-)NCBIGRCm37mm9NCBIm37
MGSCv361943,553,066 - 43,577,820 (-)NCBImm8
Celera1944,291,421 - 44,309,811 (-)NCBICelera
Cytogenetic Map19C3NCBI
cM Map1936.67NCBI
Got1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555075,346,838 - 5,370,072 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555075,346,937 - 5,370,072 (-)NCBIChiLan1.0ChiLan1.0
GOT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11099,506,205 - 99,540,178 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1099,506,205 - 99,540,178 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01096,012,345 - 96,046,266 (-)NCBIMhudiblu_PPA_v0panPan3
GOT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12812,352,658 - 12,377,960 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2812,352,659 - 12,414,579 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2812,536,462 - 12,561,764 (-)NCBI
ROS_Cfam_1.02812,820,566 - 12,845,869 (-)NCBI
UMICH_Zoey_3.12812,367,262 - 12,392,563 (-)NCBI
UNSW_CanFamBas_1.02812,398,502 - 12,423,851 (-)NCBI
UU_Cfam_GSD_1.02812,539,850 - 12,565,179 (-)NCBI
Got1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721334,578,280 - 34,601,317 (+)NCBI
SpeTri2.0NW_004936636617,376 - 640,424 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GOT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14110,608,430 - 110,635,874 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114110,608,422 - 110,635,825 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214120,054,006 - 120,080,894 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GOT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1992,463,017 - 92,489,227 (-)NCBI
ChlSab1.1 Ensembl992,462,782 - 92,488,310 (-)Ensembl
Vero_WHO_p1.0NW_02366604853,459,704 - 53,486,298 (-)NCBI
Got1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473711,114,818 - 11,153,209 (-)NCBI

Position Markers
D1Mgh12  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01270,716,905 - 270,717,037NCBIRnor5.0
RGSC_v3.41247,322,146 - 247,322,277RGDRGSC3.4
RGSC_v3.11247,436,621 - 247,436,752RGD
Celera1238,204,080 - 238,204,181UniSTS
RH 3.4 Map11616.91UniSTS
RH 3.4 Map11616.91RGD
RH 2.0 Map11221.1RGD
SHRSP x BN Map1133.51RGD
Cytogenetic Map1q54UniSTS
GOT1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21242,361,857 - 242,362,003 (+)MAPPERmRatBN7.2
Rnor_6.01263,250,813 - 263,250,958NCBIRnor6.0
Rnor_5.01270,695,989 - 270,696,134UniSTSRnor5.0
RGSC_v3.41247,342,845 - 247,342,990UniSTSRGSC3.4
Celera1238,183,384 - 238,183,529UniSTS
Cytogenetic Map1q54UniSTS
RH128564  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21242,357,367 - 242,357,560 (+)MAPPERmRatBN7.2
Rnor_6.01263,246,323 - 263,246,515NCBIRnor6.0
Rnor_5.01270,691,499 - 270,691,691UniSTSRnor5.0
RGSC_v3.41247,347,288 - 247,347,480UniSTSRGSC3.4
Celera1238,178,894 - 238,179,086UniSTS
RH 3.4 Map11619.38UniSTS
Cytogenetic Map1q54UniSTS
RH132794  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21242,357,883 - 242,358,074 (+)MAPPERmRatBN7.2
Rnor_6.01263,246,839 - 263,247,029NCBIRnor6.0
Rnor_5.01270,692,015 - 270,692,205UniSTSRnor5.0
RGSC_v3.41247,346,774 - 247,346,964UniSTSRGSC3.4
Celera1238,179,410 - 238,179,600UniSTS
Cytogenetic Map1q54UniSTS
RH94745  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21242,357,493 - 242,357,651 (+)MAPPERmRatBN7.2
Rnor_6.01263,246,449 - 263,246,606NCBIRnor6.0
Rnor_5.01270,691,625 - 270,691,782UniSTSRnor5.0
RGSC_v3.41247,347,197 - 247,347,354UniSTSRGSC3.4
Celera1238,179,020 - 238,179,177UniSTS
RH 3.4 Map11619.22UniSTS
Cytogenetic Map1q54UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2292216Bw80Body weight QTL 803.230.0019body mass (VT:0001259)body weight (CMO:0000012)1213533809243914901Rat
70211Niddm24Non-insulin dependent diabetes mellitus QTL 243.79blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1214647894259647894Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1197697768242697768Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724533Rf51Renal function QTL 515.30.0002kidney plasma flow trait (VT:0005524)renal plasma flow (CMO:0001914)1218753816256448513Rat
724538Kidm1Kidney mass QTL 13.2kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1213707201252085212Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
734768Niddm59Non-insulin dependent diabetes mellitus QTL 59body mass (VT:0001259)body weight (CMO:0000012)1213843987258843987Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1197814409242814409Rat
631669Iddm9Insulin dependent diabetes mellitus QTL 92.80.039blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1233190394258625266Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1236125214260522016Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
1581544Rf52Renal function QTL 520.05total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)1232156370259647894Rat
731175Uae20Urinary albumin excretion QTL 203.50.0018urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1221264111259647894Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1176426412257976495Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1233948574260522016Rat
1598821Rf55Renal function QTL 556.3renal blood flow trait (VT:2000006)ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)1218748008257976495Rat
2300175Bmd40Bone mineral density QTL 4015.40.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)1201554356246554356Rat
2293655Bss36Bone structure and strength QTL 3610.660.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1201554356246554356Rat
2293674Bss39Bone structure and strength QTL 397.10.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)1201554356246554356Rat
2293694Bss38Bone structure and strength QTL 387.050.0001femur strength trait (VT:0010010)femur stiffness (CMO:0001674)1201554356246554356Rat
2293700Bmd27Bone mineral density QTL 276.60.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1224054293243747962Rat
2293701Bmd34Bone mineral density QTL 348.30.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)1224054293243747962Rat
631836Stl31Serum triglyceride level QTL 314.640.00000487blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1237147813260522016Rat
631837Niddm35Non-insulin dependent diabetes mellitus QTL 350.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1238699859259647894Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
634313Niddm43Non-insulin dependent diabetes mellitus QTL 43blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1199050459259647894Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1197814409242814409Rat
1357399Bw45Body weight QTL 453.05body mass (VT:0001259)body mass index (BMI) (CMO:0000105)1206329708251329708Rat
1357404Bw42Body weight QTL 424.490.0001body mass (VT:0001259)body weight (CMO:0000012)1206329708251329708Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1203995416244113296Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1197670404242670404Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1195804352257091168Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1195804352257091168Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1206081677251081677Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1300108Rf8Renal function QTL 83.75renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1228581588259647894Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1177227632256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1177227632256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1549910Bw54Body weight QTL 540.05body mass (VT:0001259)body weight (CMO:0000012)1214647894259647894Rat
2316896Gluco57Glucose level QTL 577.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1228985440245907899Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1192825253243914732Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1191019702246062233Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1197814409242814409Rat
61400Niddm1Non-insulin dependent diabetes mellitus QTL 111blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1218753689245907899Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1183970203243914901Rat
7394701Uae46Urinary albumin excretion QTL 463.60.0056urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1201554356246554356Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1183970203243914901Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
10059587Bw173Body weight QTL 1733.230.025body mass (VT:0001259)body weight (CMO:0000012)1202069611247069611Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:370
Count of miRNA genes:214
Interacting mature miRNAs:244
Transcripts:ENSRNOT00000022309
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 55 41 17 41 8 11 74 35 41 11 8
Low 2 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005495095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC093939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB578328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473986 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK600227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D00252 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM055803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FN802619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219727 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HB922163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HB922489 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC979572 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  HC979898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J05263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000054 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000022309   ⟹   ENSRNOP00000022309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1263,246,248 - 263,269,762 (-)Ensembl
RefSeq Acc Id: NM_012571   ⟹   NP_036703
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21242,357,293 - 242,380,623 (-)NCBI
Rnor_6.01263,246,248 - 263,269,762 (-)NCBI
Rnor_5.01270,691,424 - 270,714,958 (-)NCBI
RGSC_v3.41247,324,285 - 247,347,553 (+)RGD
Celera1238,178,819 - 238,202,121 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005495095
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21242,357,293 - 242,381,535 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036703   ⟸   NM_012571
- UniProtKB: P13221 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000022309   ⟸   ENSRNOT00000022309

Transcriptome

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

Promoters
RGD ID:13690925
Promoter ID:EPDNEW_R1449
Type:initiation region
Name:Got1_1
Description:glutamic-oxaloacetic transaminase 1
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_6.01263,269,747 - 263,269,807EPDNEW

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)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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 (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
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
WAG/RijCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (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
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)
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
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 (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
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:2721 AgrOrtholog
Ensembl Genes ENSRNOG00000016356 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000022309 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000022309 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.640.10 UniProtKB/Swiss-Prot
  3.90.1150.10 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5599273 IMAGE-MGC_LOAD
InterPro Aminotransferase_I/II UniProtKB/Swiss-Prot
  Asp_trans UniProtKB/Swiss-Prot
  NHTrfase_class1_PyrdxlP-BS UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase_dom1 UniProtKB/Swiss-Prot
  PyrdxlP-dep_Trfase_major UniProtKB/Swiss-Prot
KEGG Report rno:24401 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72537 IMAGE-MGC_LOAD
NCBI Gene 24401 ENTREZGENE
PANTHER PTHR11879 UniProtKB/Swiss-Prot
Pfam Aminotran_1_2 UniProtKB/Swiss-Prot
PhenoGen Got1 PhenoGen
PRINTS TRANSAMINASE UniProtKB/Swiss-Prot
PROSITE AA_TRANSFER_CLASS_1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53383 UniProtKB/Swiss-Prot
UniProt AATC_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q64570 UniProtKB/Swiss-Prot
  Q6P721 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-13 Got1  glutamic-oxaloacetic transaminase 1  Got1  glutamic-oxaloacetic transaminase 1, soluble  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-06-05 Got1  glutamic-oxaloacetic transaminase 1, soluble  Got1  glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase 1)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Got1  glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase 1)  Got1  glutamate oxaloacetate transaminase 1, soluble  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Got1  glutamate oxaloacetate transaminase 1, soluble  Got1  glutamate oxaloacetate transaminase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Got1  glutamate oxaloacetate transaminase 1    Glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase, cytosolic) see also D1Mgh12  Name updated 625702 APPROVED
2002-06-10 Got1  Glutamic-oxaloacetic transaminase 1, soluble (aspartate aminotransferase, cytosolic) see also D1Mgh12      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_regulation enzyme activity in liver and kidney increase in response to glucocorticoids 632937