Prkaa1 (protein kinase AMP-activated catalytic subunit alpha 1) - Rat Genome Database

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Gene: Prkaa1 (protein kinase AMP-activated catalytic subunit alpha 1) Rattus norvegicus
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Symbol: Prkaa1
Name: protein kinase AMP-activated catalytic subunit alpha 1
RGD ID: 3387
Description: Exhibits several functions, including AMP-activated protein kinase activity; ATP binding activity; and protein C-terminus binding activity. Involved in several processes, including cold acclimation; energy homeostasis; and fatty acid homeostasis. Localizes to several cellular components, including apical plasma membrane; neuronal cell body; and nucleotide-activated protein kinase complex. Used to study type 2 diabetes mellitus. Biomarker of cholestasis. Human ortholog(s) of this gene implicated in Huntington's disease; breast cancer; and colon cancer. Orthologous to human PRKAA1 (protein kinase AMP-activated catalytic subunit alpha 1); PARTICIPATES IN adenosine monophosphate-activated protein kinase (AMPK) signaling pathway; bile acid signaling pathway; vascular endothelial growth factor signaling pathway; INTERACTS WITH (+)-schisandrin B; 1,2,3,4,7,8-Hexachlorodibenzodioxin; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 5'-AMP-activated protein kinase alpha-1 catalytic subunit; 5'-AMP-activated protein kinase catalytic subunit alpha-1; 5-AMP-activated protein kinase alpha-1 catalytic subunit; ACACA kinase; acetyl-CoA carboxylase kinase; AMPK alpha-1 chain; AMPK subunit alpha-1; AMPKalpha1; HMGCR kinase; hydroxymethylglutaryl-CoA reductase kinase; protein kinase, AMP-activated, alpha 1 catalytic subunit; tau-protein kinase PRKAA1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: LOC363815  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2254,240,298 - 54,275,978 (+)NCBI
Rnor_6.0 Ensembl254,857,688 - 54,893,404 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0254,857,688 - 54,893,404 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0273,882,080 - 73,917,812 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4254,327,821 - 54,360,462 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1254,256,055 - 54,288,695 (+)NCBI
Celera249,888,577 - 49,923,847 (+)NCBICelera
Cytogenetic Map2q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(+)-Tetrandrine  (ISO)
1,2,3,4,7,8-Hexachlorodibenzodioxin  (EXP)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-nonylphenol  (EXP)
5-aminolevulinic acid  (EXP)
acadesine  (EXP,ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
afimoxifene  (ISO)
AICA ribonucleotide  (EXP,ISO)
aldehydo-D-glucose  (ISO)
amiodarone  (ISO)
amlexanox  (ISO)
ammonium chloride  (EXP)
ANTIMYCIN  (ISO)
apigenin  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
berberine  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
Calcimycin  (ISO)
calcitriol  (ISO)
capsaicin  (EXP,ISO)
carbonyl cyanide p-trifluoromethoxyphenylhydrazone  (ISO)
celecoxib  (ISO)
chlorpromazine  (EXP)
chlorpyrifos  (EXP)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
colforsin daropate hydrochloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cylindrospermopsin  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (EXP)
Deguelin  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dioscin  (EXP)
dorsomorphin  (EXP,ISO)
doxorubicin  (ISO)
econazole  (ISO)
enalapril  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenofibrate  (ISO)
flavonoids  (EXP)
formaldehyde  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
ginsenoside Re  (ISO)
ginsenoside Rg1  (ISO)
glucose  (ISO)
hexadecanoic acid  (ISO)
histamine  (ISO)
hydrogen peroxide  (ISO)
irinotecan  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
isoprenaline  (EXP,ISO)
lipopolysaccharide  (ISO)
mangiferin  (EXP)
mercury dichloride  (EXP)
metformin  (EXP,ISO)
methotrexate  (ISO)
methoxyacetic acid  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
naproxen  (EXP)
nickel atom  (ISO)
nicotinamide  (ISO)
nitric oxide  (ISO)
Nonylphenol  (EXP)
O-palmitoylcarnitine  (ISO)
oleic acid  (ISO)
orlistat  (EXP,ISO)
orotic acid  (ISO)
paracetamol  (ISO)
paraquat  (EXP,ISO)
paricalcitol  (ISO)
pentanal  (ISO)
perfluorooctanoic acid  (EXP)
phenformin  (ISO)
phenobarbital  (ISO)
phorone  (EXP)
pioglitazone  (ISO)
pirinixic acid  (EXP)
platycodin D  (ISO)
progesterone  (EXP)
pterostilbene  (ISO)
quercetin  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 203580  (ISO)
simvastatin  (EXP)
sirolimus  (EXP)
sodium arsenite  (ISO)
sodium azide  (ISO)
sodium dichromate  (EXP)
steviol  (ISO)
sumatriptan  (EXP)
tebuconazole  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
theophylline  (ISO)
thioacetamide  (EXP)
thymoquinone  (ISO)
triacsin C  (ISO)
Tributyltin oxide  (EXP,ISO)
Triptolide  (EXP)
tunicamycin  (ISO)
U0126  (EXP)
WIN 55212-2  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
autophagy  (IEA)
bile acid and bile salt transport  (IEP)
bile acid signaling pathway  (IEP)
CAMKK-AMPK signaling cascade  (ISO)
cellular response to calcium ion  (IMP,ISO)
cellular response to drug  (IEP)
cellular response to ethanol  (IEP)
cellular response to glucose starvation  (ISO,ISS)
cellular response to glucose stimulus  (IMP,ISO)
cellular response to hydrogen peroxide  (IEP)
cellular response to hypoxia  (IEP)
cellular response to nutrient levels  (ISO,ISS)
cellular response to organonitrogen compound  (IEP)
cellular response to oxidative stress  (ISO)
cellular response to prostaglandin E stimulus  (ISO)
cholesterol biosynthetic process  (IEA)
cold acclimation  (IDA)
energy homeostasis  (IDA)
fatty acid biosynthetic process  (IEA)
fatty acid homeostasis  (IDA)
fatty acid oxidation  (ISO)
glucose homeostasis  (ISO,ISS)
glucose metabolic process  (ISO)
histone-serine phosphorylation  (IEA)
intracellular signal transduction  (IBA)
lipid biosynthetic process  (ISO,ISS)
motor behavior  (ISO)
negative regulation of apoptotic process  (ISO,ISS)
negative regulation of gene expression  (ISO)
negative regulation of insulin receptor signaling pathway  (IMP)
negative regulation of lipid catabolic process  (ISO,ISS)
negative regulation of TOR signaling  (ISO,ISS)
negative regulation of translation  (NAS)
negative regulation of tubulin deacetylation  (ISO)
neuron cellular homeostasis  (ISO)
positive regulation of autophagy  (ISO,ISS)
positive regulation of cell population proliferation  (IDA)
positive regulation of cellular protein localization  (ISO)
positive regulation of fatty acid oxidation  (NAS)
positive regulation of gene expression  (ISO)
positive regulation of gluconeogenesis  (NAS)
positive regulation of glucose import  (NAS)
positive regulation of glycolytic process  (IDA)
positive regulation of mitochondrial transcription  (ISO)
positive regulation of peptidyl-lysine acetylation  (ISO)
positive regulation of protein serine/threonine kinase activity  (IEA)
positive regulation of protein targeting to mitochondrion  (ISO)
positive regulation of skeletal muscle tissue development  (ISO)
protein phosphorylation  (IBA,IDA,ISO,NAS)
regulation of bile acid secretion  (IEP)
regulation of circadian rhythm  (ISO,ISS)
regulation of gene expression  (IEP)
regulation of microtubule cytoskeleton organization  (ISO)
regulation of peptidyl-serine phosphorylation  (ISO)
regulation of stress granule assembly  (ISO)
regulation of vesicle-mediated transport  (IMP)
response to 17alpha-ethynylestradiol  (IEP)
response to activity  (IDA)
response to caffeine  (IDA)
response to camptothecin  (ISO)
response to drug  (IEP)
response to gamma radiation  (ISO,ISS)
response to hydrogen peroxide  (ISO)
response to UV  (ISO)
rhythmic process  (IEA)
Wnt signaling pathway  (IEA)

Cellular Component
apical plasma membrane  (IDA)
axon  (IMP,ISO)
cytoplasm  (IBA,IDA,ISO)
cytosol  (ISO,TAS)
dendrite  (IMP,ISO)
neuronal cell body  (IMP,ISO)
nuclear speck  (IEA,ISO)
nucleotide-activated protein kinase complex  (IDA)
nucleus  (IBA,IDA,ISO,ISS)
protein-containing complex  (IDA)

References

References - curated
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3. Carling D, etal., J Biol Chem 1994 Apr 15;269(15):11442-8.
4. Chen L, etal., Exp Mol Med. 2010 Feb 11.
5. Chen SH, etal., Exp Clin Endocrinol Diabetes. 2012 Feb;120(2):84-8. Epub 2012 Jan 9.
6. Cheung PC, etal., Biochem J. 2000 Mar 15;346 Pt 3:659-69.
7. Crawford RM, etal., Biochem J. 2005 Nov 15;392(Pt 1):201-9.
8. Egawa T, etal., Metabolism. 2009 Nov;58(11):1609-17. Epub 2009 Jul 15.
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14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. GOA data from the GO Consortium
16. Hardie DG J Cell Sci. 2004 Nov 1;117(Pt 23):5479-87.
17. Hardie DG, etal., FEBS Lett. 2003 Jul 3;546(1):113-20.
18. Hawley SA, etal., J Biol. 2003;2(4):28. Epub 2003 Sep 24.
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22. Ishii H, etal., J Hepatol. 2009 Mar;50(3):562-71. Epub 2008 Dec 27.
23. Javadov S, etal., J Mol Cell Cardiol. 2009 Jun;46(6):998-1007. doi: 10.1016/j.yjmcc.2008.12.023. Epub 2009 Jan 20.
24. Ju TC, etal., J Cell Biol. 2011 Jul 25;194(2):209-27. Epub 2011 Jul 18.
25. Kawaguchi T, etal., J Biol Chem 2002 Feb 8;277(6):3829-35.
26. KEGG
27. Koh HJ, etal., Biochem J. 2007 May 1;403(3):473-81.
28. Lakshmanan AP, etal., Free Radic Res. 2011 Jul;45(7):788-95. Epub 2011 May 9.
29. Li J, etal., Am J Physiol Heart Circ Physiol. 2006 Oct;291(4):H1927-34. Epub 2006 Apr 28.
30. Li X, etal., Arch Toxicol. 2017 Jan;91(1):481-494. doi: 10.1007/s00204-016-1697-8. Epub 2016 Apr 18.
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33. MGD data from the GO Consortium
34. Mitchelhill KI, etal., J Biol Chem 1994 Jan 28;269(4):2361-4.
35. Nath N, etal., Biochem Biophys Res Commun. 2009 Aug 14;386(1):16-20. Epub 2009 May 30.
36. NCBI rat LocusLink and RefSeq merged data July 26, 2002
37. Pipeline to import KEGG annotations from KEGG into RGD
38. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
39. RGD automated data pipeline
40. RGD automated import pipeline for gene-chemical interactions
41. Sample V, etal., Mol Biol Cell. 2015 May 15;26(10):1935-46. doi: 10.1091/mbc.E14-02-0764. Epub 2015 Mar 18.
42. Seo E, etal., Korean J Physiol Pharmacol. 2009 Dec;13(6):449-54. Epub 2009 Dec 31.
43. Slattery M, etal., Carcinogenesis. 2012 May 4.
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45. Stapleton D, etal., J Biol Chem 1994 Nov 25;269(47):29343-6.
46. Stapleton D, etal., J Biol Chem 1996 Jan 12;271(2):611-4.
47. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
48. Velasco G, etal., FEBS Lett. 1998 Nov 20;439(3):317-20.
49. Vucetic M, etal., Biochim Biophys Acta. 2011 Dec;1810(12):1252-61. Epub 2011 Sep 16.
50. Wang L, etal., FEBS Lett. 2010 Jan 4;584(1):39-43. doi: 10.1016/j.febslet.2009.11.033. Epub .
51. Woods A, etal., FEBS Lett. 1996 Nov 18;397(2-3):347-51.
52. Xiao B, etal., Nature. 2007 Sep 27;449(7161):496-500. Epub 2007 Sep 12.
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54. Yang Z, etal., J Biol Chem. 2010 Jun 18;285(25):19051-9. Epub 2010 Apr 26.
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56. Zheng L, etal., Biomed Pharmacother. 2018 Jan;97:481-488. doi: 10.1016/j.biopha.2017.10.153. Epub 2017 Nov 6.
Additional References at PubMed
PMID:10862786   PMID:11165240   PMID:11546797   PMID:12802337   PMID:15153111   PMID:15878856   PMID:16054095   PMID:16308421   PMID:16316631   PMID:16340011   PMID:16943243   PMID:17023420  
PMID:17028174   PMID:17488477   PMID:18381428   PMID:18439900   PMID:18556591   PMID:18941912   PMID:19049348   PMID:19116341   PMID:19380482   PMID:19625676   PMID:19833968   PMID:19933272  
PMID:19940039   PMID:20057367   PMID:20349193   PMID:20615388   PMID:20647423   PMID:20660302   PMID:20841353   PMID:20844250   PMID:21232561   PMID:21258367   PMID:21352901   PMID:21389275  
PMID:21436401   PMID:21459323   PMID:21481774   PMID:21562306   PMID:21680893   PMID:21730292   PMID:21994947   PMID:22012985   PMID:22124463   PMID:22194917   PMID:22230191   PMID:22452514  
PMID:22560150   PMID:22582096   PMID:22610379   PMID:22941749   PMID:23024365   PMID:23095119   PMID:23184732   PMID:23283301   PMID:23479225   PMID:23750537   PMID:23788766   PMID:23926128  
PMID:23999859   PMID:24097562   PMID:24566685   PMID:24625528   PMID:24656927   PMID:24739942   PMID:24801390   PMID:25117440   PMID:25687571   PMID:25826445   PMID:26103054   PMID:26136559  
PMID:26196303   PMID:26498380   PMID:27430620   PMID:28041982   PMID:28147330   PMID:28482939   PMID:28686615   PMID:30132885   PMID:30291215   PMID:30348767   PMID:31100477   PMID:31526389  
PMID:32305957  


Genomics

Comparative Map Data
Prkaa1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2254,240,298 - 54,275,978 (+)NCBI
Rnor_6.0 Ensembl254,857,688 - 54,893,404 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0254,857,688 - 54,893,404 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0273,882,080 - 73,917,812 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4254,327,821 - 54,360,462 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1254,256,055 - 54,288,695 (+)NCBI
Celera249,888,577 - 49,923,847 (+)NCBICelera
Cytogenetic Map2q16NCBI
PRKAA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl540,759,379 - 40,798,374 (-)EnsemblGRCh38hg38GRCh38
GRCh38540,759,379 - 40,798,195 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37540,759,481 - 40,798,297 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36540,795,238 - 40,834,054 (-)NCBINCBI36hg18NCBI36
Build 34540,795,238 - 40,834,046NCBI
Celera540,648,066 - 40,686,889 (-)NCBI
Cytogenetic Map5p13.1NCBI
HuRef540,711,304 - 40,750,184 (-)NCBIHuRef
CHM1_1540,761,376 - 40,800,178 (-)NCBICHM1_1
Prkaa1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39155,172,641 - 5,211,380 (+)NCBIGRCm39mm39
GRCm39 Ensembl155,173,343 - 5,211,380 (+)Ensembl
GRCm38155,143,861 - 5,181,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl155,143,861 - 5,181,899 (+)EnsemblGRCm38mm10GRCm38
MGSCv37155,093,861 - 5,131,899 (+)NCBIGRCm37mm9NCBIm37
MGSCv36155,091,090 - 5,129,114 (+)NCBImm8
Celera154,993,697 - 5,031,451 (+)NCBICelera
Cytogenetic Map15A1NCBI
Prkaa1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542625,079,718 - 25,102,090 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542625,079,718 - 25,102,090 (-)NCBIChiLan1.0ChiLan1.0
PRKAA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1574,627,844 - 74,666,505 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl574,627,830 - 74,666,505 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0569,581,748 - 69,620,721 (+)NCBIMhudiblu_PPA_v0panPan3
PRKAA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1468,579,061 - 68,614,548 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl468,579,037 - 68,611,841 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha468,255,490 - 68,291,515 (+)NCBI
ROS_Cfam_1.0469,085,598 - 69,121,628 (+)NCBI
UMICH_Zoey_3.1468,844,836 - 68,880,871 (+)NCBI
UNSW_CanFamBas_1.0468,957,934 - 68,993,962 (+)NCBI
UU_Cfam_GSD_1.0469,496,965 - 69,533,038 (+)NCBI
Prkaa1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213229,528,457 - 229,554,782 (-)NCBI
SpeTri2.0NW_0049365181,817,051 - 1,843,376 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRKAA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1625,745,321 - 25,783,610 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11625,745,902 - 25,783,524 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PRKAA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1439,516,307 - 39,553,627 (-)NCBI
Prkaa1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475914,143,439 - 14,174,971 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)23127638105149020Rat
1578671Bmd10Bone mineral density QTL 105.4femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)2944467968866454Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21055527555555275Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21423783059237830Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21901646564016465Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22027698165276981Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22064137165641371Rat
7387318Stl32Serum triglyceride level QTL 323.20.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)22261295267612952Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22328064775687607Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)223837491149614623Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22618609783819822Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226186097135654963Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226186097142053534Rat
12879841Cm87Cardiac mass QTL 870.026heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)227161361148295267Rat
12879842Cm88Cardiac mass QTL 880.042heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)227161361148295267Rat
12879843Am3Aortic mass QTL 30.016aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)227161361148295267Rat
12879844Kidm62Kidney mass QTL 620.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227161361148295267Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22776030172760301Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23127237976272379Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23408817591101903Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23513320280133202Rat
2306903Bp336Blood pressure QTL 3360.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)236245223112175725Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)240171834105089682Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)240171834105089682Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)240171834105089682Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)240171834105089682Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)240171834105089682Rat
12879863Bp402Blood pressure QTL 4020.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24106343956736627Rat
1300155Bp174Blood pressure QTL 1744.09arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)24277691662238534Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242776916169852800Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242776916195645082Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243133606217498545Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243133606217498545Rat
2293676Bmd19Bone mineral density QTL 1910.70.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)243141290114164944Rat
2293682Bmd24Bone mineral density QTL 248.90.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)243141290114164944Rat
2293671Bss44Bone structure and strength QTL 4410.970.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)243141290154583160Rat
631208Bw1Body weight QTL15.09mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight as a percentage of body weight (CMO:0000654)24314978885642672Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243149788198704485Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246537589217498710Rat
1354592Rf50Renal function QTL 503.5urine output (VT:0003620)timed urine volume (CMO:0000260)25443669875687607Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:101
Count of miRNA genes:79
Interacting mature miRNAs:92
Transcripts:ENSRNOT00000017626
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 29 40 24 19 24 7 7 74 34 38 11 7
Low 14 17 17 17 1 4 1 3 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000017626   ⟹   ENSRNOP00000017626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl254,857,688 - 54,893,404 (+)Ensembl
RefSeq Acc Id: NM_019142   ⟹   NP_062015
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,240,298 - 54,275,978 (+)NCBI
Rnor_6.0254,857,688 - 54,893,404 (+)NCBI
Rnor_5.0273,882,080 - 73,917,812 (+)NCBI
RGSC_v3.4254,327,821 - 54,360,462 (+)RGD
Celera249,888,577 - 49,923,847 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039103097   ⟹   XP_038959025
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,256,129 - 54,275,978 (+)NCBI
RefSeq Acc Id: XM_039103098   ⟹   XP_038959026
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,256,129 - 54,275,978 (+)NCBI
RefSeq Acc Id: XM_039103099   ⟹   XP_038959027
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2254,248,070 - 54,275,978 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_062015   ⟸   NM_019142
- UniProtKB: P54645 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000017626   ⟸   ENSRNOT00000017626
RefSeq Acc Id: XP_038959027   ⟸   XM_039103099
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038959025   ⟸   XM_039103097
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038959026   ⟸   XM_039103098
- Peptide Label: isoform X2
Protein Domains
Protein kinase

Transcriptome

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

Promoters
RGD ID:13691167
Promoter ID:EPDNEW_R1692
Type:multiple initiation site
Name:Prkaa1_1
Description:protein kinase AMP-activated catalytic subunit alpha 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_6.0254,857,700 - 54,857,760EPDNEW

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)
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)
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:3387 AgrOrtholog
Ensembl Genes ENSRNOG00000012799 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000017626 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000017626 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro AMPK_C UniProtKB/Swiss-Prot
  AMPKA1_C UniProtKB/Swiss-Prot
  KA1/Ssp2_C UniProtKB/Swiss-Prot
  Kinase-like_dom_sf UniProtKB/Swiss-Prot
  PRKAA1_UBA UniProtKB/Swiss-Prot
  Prot_kinase_dom UniProtKB/Swiss-Prot
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:65248 UniProtKB/Swiss-Prot
NCBI Gene 65248 ENTREZGENE
Pfam AdenylateSensor UniProtKB/Swiss-Prot
  Pkinase UniProtKB/Swiss-Prot
PharmGKB PRKAA1 RGD
PhenoGen Prkaa1 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot
SMART S_TKc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF103243 UniProtKB/Swiss-Prot
  SSF56112 UniProtKB/Swiss-Prot
TIGR TC215672
UniProt AAPK1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-03 Prkaa1  protein kinase AMP-activated catalytic subunit alpha 1  Prkaa1  protein kinase, AMP-activated, alpha 1 catalytic subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Prkaa1  protein kinase, AMP-activated, alpha 1 catalytic subunit      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein 548 amino acids; 63 kDa 69937