Atp1a3 (ATPase Na+/K+ transporting subunit alpha 3) - Rat Genome Database

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Gene: Atp1a3 (ATPase Na+/K+ transporting subunit alpha 3) Rattus norvegicus
Analyze
Symbol: Atp1a3
Name: ATPase Na+/K+ transporting subunit alpha 3
RGD ID: 2169
Description: Enables D1 dopamine receptor binding activity and amyloid-beta binding activity. Involved in several processes, including cellular response to amyloid-beta; cellular response to retinoic acid; and metal ion transport. Located in several cellular components, including axon; dendritic spine; and myelin sheath. Part of sodium:potassium-exchanging ATPase complex. Is active in calyx of Held and postsynapse. Is integral component of presynaptic membrane. Human ortholog(s) of this gene implicated in alternating hemiplegia of childhood; bipolar disorder; developmental and epileptic encephalopathy; dystonia 12; and epilepsy. Orthologous to human ATP1A3 (ATPase Na+/K+ transporting subunit alpha 3); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; alfentanil pharmacodynamics pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Atpa1a3; ATPase Na+K+ transporting alpha 3 subunit; ATPase, Na+/K+ transporting, alpha 3 polypeptide; ATPase, Na+K+ transporting, alpha 3 subunit; na(+)/K(+) ATPase alpha(III) subunit; na(+)/K(+) ATPase alpha-3 subunit; Na+/K+ -ATPase alpha 3 subunit; NA,K-ATPase alpha subunit 3; sodium pump subunit alpha-3; sodium/potassium-transporting ATPase subunit alpha-3
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
mRatBN7.2180,572,790 - 80,601,936 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl180,572,796 - 80,601,918 (-)Ensembl
Rnor_6.0181,852,423 - 81,881,565 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,852,429 - 81,881,549 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,104,725 - 83,133,845 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4180,280,714 - 80,309,834 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1180,358,824 - 80,387,945 (-)NCBI
Celera175,018,852 - 75,047,865 (-)NCBICelera
RH 3.4 Map1842.5RGD
RH 2.0 Map1501.2RGD
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
4,4'-sulfonyldiphenol  (ISO)
acetamide  (EXP)
acrolein  (EXP)
all-trans-retinoic acid  (ISO)
ammonia  (ISO)
ammonium acetate  (EXP)
atrazine  (ISO)
beauvericin  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP)
bortezomib  (ISO)
Brodifacoum  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (EXP)
cadmium dichloride  (ISO)
calcidiol  (EXP)
carbon nanotube  (ISO)
carmustine  (ISO)
choline  (ISO)
cocaine  (EXP)
corticosterone  (EXP)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP)
diethyl phthalate  (EXP)
digoxin  (EXP)
diisobutyl phthalate  (EXP)
diisononyl phthalate  (EXP)
dioxygen  (EXP)
doxorubicin  (ISO)
enalapril  (EXP)
endosulfan  (EXP)
enniatin  (ISO)
ethanol  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
haloperidol  (EXP)
ivermectin  (ISO)
ketamine  (EXP)
L-methionine  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
Licochalcone B  (ISO)
losartan  (EXP)
lycopene  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
metformin  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
ouabain  (EXP,ISO)
ozone  (ISO)
PCB138  (EXP)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
potassium chloride  (ISO)
rotenone  (EXP)
sodium arsenite  (EXP,ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
triptonide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
XL147  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
acebutolol pharmacodynamics pathway  (ISO)
adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway  (ISO)
aldosterone signaling pathway  (IEA)
alfentanil pharmacodynamics pathway  (ISO)
amiloride pharmacodynamics pathway  (ISO)
amiodarone pharmacodynamics pathway  (ISO)
amlodipine pharmacodynamics pathway  (ISO)
atenolol pharmacodynamics pathway  (ISO)
bendroflumethiazide pharmacodynamics pathway  (ISO)
betaxolol pharmacodynamics pathway  (ISO)
bile acid transport pathway  (IEA)
bisoprolol pharmacodynamics pathway  (ISO)
bumetanide pharmacodynamics pathway  (ISO)
bupivacaine pharmacodynamics pathway  (ISO)
bupranolol drug pathway  (ISO)
bupranolol pharmacodynamics pathway  (ISO)
buprenorphine pharmacodynamics pathway  (ISO)
carvedilol pharmacodynamics pathway  (ISO)
chloroprocaine pharmacodynamics pathway  (ISO)
chlorothiazide pharmacodynamics pathway  (ISO)
chlorthalidone pharmacodynamics pathway  (ISO)
citalopram pharmacodynamics pathway  (ISO)
cocaine pharmacodynamics pathway  (ISO)
codeine and morphine pharmacodynamics pathway  (ISO)
cystinuria pathway  (ISO)
desipramine pharmacodynamics pathway  (ISO)
diltiazem pharmacodynamics pathway  (ISO)
diphenoxylate pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
eplerenone pharmacodynamics pathway  (ISO)
escitalopram pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
etacrynic acid pharmacodynamics pathway  (ISO)
ethylmorphine pharmacodynamics pathway  (ISO)
fentanyl pharmacodynamics pathway  (ISO)
flecainde pharmacodynamics pathway  (ISO)
fluoxetine pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
furosemide pharmacodynamics pathway  (ISO)
Hartnup disease pathway  (ISO)
heroin pharmacodynamics pathway  (ISO)
hydrochlorothiazide pharmacodynamics pathway  (ISO)
hydrocodone pharmacodynamics pathway  (ISO)
hydroflumethiazide pharmacodynamics pathway  (ISO)
hydromorphone pharmacodynamics pathway  (ISO)
ibutilide pharmacodynamics pathway  (ISO)
iminoglycinuria pathway  (ISO)
imipramine pharmacodynamics pathway  (ISO)
isoprenaline pharmacodynamics pathway  (ISO)
isradipine pharmacodynamics pathway  (ISO)
lactose degradation pathway  (ISO)
levacetylmethadol pharmacodynamics pathway  (ISO)
levobunolol pharmacodynamics pathway  (ISO)
levobupivacaine phgarmacodynamics pathway  (ISO)
levorphanol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
lysinuric protein intolerance pathway  (ISO)
mepivacaine pharmacodynamics pathway  (ISO)
methadone pharmacodynamics pathway  (ISO)
metolazone pharmacodynamics pathway  (ISO)
metoprolol pharmacodynamics pathway  (ISO)
mexiletine pharmacodynamics pathway  (ISO)
nadolol pharmacodynamics pathway  (ISO)
nalbuphine pharmacodynamics pathway  (ISO)
naloxone pharmacodynamics pathway  (ISO)
naltrexone pharmacodynamics pathway  (ISO)
nebivolol pharmacodynamics pathway  (ISO)
nicotine pharmacodynamics pathway  (ISO)
nifedipine pharmacodynamics pathway  (ISO)
nimodipine pharmacodynamics pathway  (ISO)
nisoldipine pharmacodynamics pathway  (ISO)
nitrendipine pharmacodynamics pathway  (ISO)
oxybuprocaine pharmacodynamics pathway  (ISO)
oxycodone pharmacodynamics pathway  (ISO)
oxymorphone pharmacodynamics pathway  (ISO)
penbutolol pharmacodynamics pathway  (ISO)
pentazocine pharmacodynamics pathway  (ISO)
phenytoin pharmacodynamics pathway  (ISO)
pindolol pharmacodynamics pathway  (ISO)
prilocaine pharmacodynamics pathway  (ISO)
procainamide pharmacodynamics pathway  (ISO)
procaine pharmacodynamics pathway  (ISO)
propranolol pharmacodynamics pathway  (ISO)
quinidine pharmacodynamics pathway  (ISO)
remifentanil pharmacodynamics pathway  (ISO)
ropivacaine pharmacodynamics pathway  (ISO)
sotalol pharmacodynamics pathway  (ISO)
spironolactone pharmacodynamics pathway  (ISO)
timolol pharmacodynamics pathway  (ISO)
torasemide pharmacodynamics pathway  (ISO)
tramadol pharmacodynamics pathway  (ISO)
trehalose degradation pathway  (ISO)
triamterene pharmacodynamics pathway  (ISO)
trichlormethiazide pharmacodynamics pathway  (ISO)
verapamil pharmacodynamics pathway  (ISO)

References

References - curated
# Reference Title Reference Citation
1. FXYD7 is a brain-specific regulator of Na,K-ATPase alpha 1-beta isozymes. Beguin P, etal., EMBO J 2002 Jul 1;21(13):3264-73.
2. Nearest neighbor analysis of dopamine D1 receptors and Na(+)-K(+)-ATPases in dendritic spines dissected by STED microscopy. Blom H, etal., Microsc Res Tech. 2012 Feb;75(2):220-8. doi: 10.1002/jemt.21046. Epub 2011 Aug 1.
3. Temporal and topographic alterations in expression of the alpha3 isoform of Na+, K(+)-ATPase in the rat freeze lesion model of microgyria and epileptogenesis. Chu Y, etal., Neuroscience. 2009 Aug 18;162(2):339-48. doi: 10.1016/j.neuroscience.2009.04.003. Epub 2009 Apr 9.
4. A novel recurrent mutation in ATP1A3 causes CAPOS syndrome. Demos MK, etal., Orphanet J Rare Dis. 2014 Jan 28;9:15. doi: 10.1186/1750-1172-9-15.
5. Stretch receptor-associated expression of alpha 3 isoform of the Na+, K+-ATPase in rat peripheral nervous system. Dobretsov M, etal., Neuroscience. 2003;116(4):1069-80.
6. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Proteomic analysis of TRPC5- and TRPC6-binding partners reveals interaction with the plasmalemmal Na(+)/K(+)-ATPase. Goel M, etal., Pflugers Arch. 2005 Oct;451(1):87-98. Epub 2005 Jul 16.
8. Primary structures of two types of alpha-subunit of rat brain Na+,K+,-ATPase deduced from cDNA sequences. Hara Y, etal., J Biochem (Tokyo) 1987 Jul;102(1):43-58.
9. Negative regulation of the rat Na-K-ATPase alpha 3-subunit gene promoter by thyroid hormone. He H, etal., Am J Physiol. 1996 Nov;271(5 Pt 1):C1750-6.
10. Three differentially expressed Na,K-ATPase alpha subunit isoforms: structural and functional implications. Herrera VL, etal., J Cell Biol 1987 Oct;105(4):1855-65.
11. Alpha3Na+/K+-ATPase is a neuronal receptor for agrin. Hilgenberg LG, etal., Cell. 2006 Apr 21;125(2):359-69.
12. Presynaptic Ca2+ buffers control the strength of a fast post-tetanic hyperpolarization mediated by the alpha3 Na(+)/K(+)-ATPase. Kim JH, etal., Nat Neurosci. 2007 Feb;10(2):196-205. doi: 10.1038/nn1839. Epub 2007 Jan 14.
13. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
14. Distribution of the Na,K-ATPase alpha subunit in the rat spiral ganglion and organ of corti. McLean WJ, etal., J Assoc Res Otolaryngol. 2009 Mar;10(1):37-49. doi: 10.1007/s10162-008-0152-9. Epub 2008 Dec 12.
15. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
16. Evidence for an allelic association between bipolar disorder and a Na+, K+ adenosine triphosphatase alpha subunit gene (ATP1A3). Mynett-Johnson L, etal., Biol Psychiatry 1998 Jul 1;44(1):47-51.
17. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
18. Na, K-ATPase a3 is a death target of Alzheimer patient amyloid-ß assembly. Ohnishi T, etal., Proc Natl Acad Sci U S A. 2015 Aug 11;112(32):E4465-74. doi: 10.1073/pnas.1421182112. Epub 2015 Jul 29.
19. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
20. Novel mutations in ATP1A3 associated with catastrophic early life epilepsy, episodic prolonged apnea, and postnatal microcephaly. Paciorkowski AR, etal., Epilepsia. 2015 Mar;56(3):422-30. doi: 10.1111/epi.12914. Epub 2015 Feb 5.
21. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
22. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
23. GOA pipeline RGD automated data pipeline
24. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
26. Genotype-phenotype correlations in alternating hemiplegia of childhood. Sasaki M, etal., Neurology. 2014 Feb 11;82(6):482-90. doi: 10.1212/WNL.0000000000000102. Epub 2014 Jan 15.
27. Molecular cloning of three distinct forms of the Na+,K+-ATPase alpha-subunit from rat brain. Shull GE, etal., Biochemistry 1986 Dec 16;25(25):8125-32.
28. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
29. Genome sequencing identifies a novel mutation in ATP1A3 in a family with dystonia in females only. Wilcox R, etal., J Neurol. 2015 Jan;262(1):187-93. doi: 10.1007/s00415-014-7547-9. Epub 2014 Oct 31.
30. Two-dimensional electrophoresis with cationic detergents: a powerful tool for the proteomic analysis of myelin proteins. Part 2: analytical aspects. Yamaguchi Y, etal., J Neurosci Res. 2008 Mar;86(4):766-75.
Additional References at PubMed
PMID:10636900   PMID:10837135   PMID:14593108   PMID:15260953   PMID:17008770   PMID:17234593   PMID:17634366   PMID:18418421   PMID:19376779   PMID:19751721   PMID:21080065   PMID:21196491  
PMID:21272290   PMID:22120110   PMID:22871113   PMID:23195960   PMID:23467881   PMID:24356962   PMID:24391932   PMID:24769233   PMID:25274047   PMID:29476059   PMID:32357304  


Genomics

Comparative Map Data
Atp1a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2180,572,790 - 80,601,936 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl180,572,796 - 80,601,918 (-)Ensembl
Rnor_6.0181,852,423 - 81,881,565 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,852,429 - 81,881,549 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0183,104,725 - 83,133,845 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4180,280,714 - 80,309,834 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1180,358,824 - 80,387,945 (-)NCBI
Celera175,018,852 - 75,047,865 (-)NCBICelera
RH 3.4 Map1842.5RGD
RH 2.0 Map1501.2RGD
Cytogenetic Map1q21NCBI
ATP1A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381941,966,582 - 41,994,230 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1941,966,582 - 41,997,497 (-)EnsemblGRCh38hg38GRCh38
GRCh371942,470,734 - 42,498,382 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361947,162,574 - 47,190,222 (-)NCBINCBI36hg18NCBI36
Build 341947,162,575 - 47,190,222NCBI
Celera1939,270,362 - 39,298,001 (-)NCBI
Cytogenetic Map19q13.2NCBI
HuRef1938,902,456 - 38,930,242 (-)NCBIHuRef
CHM1_11942,472,364 - 42,500,045 (-)NCBICHM1_1
T2T-CHM13v2.01944,785,945 - 44,813,592 (-)NCBI
Atp1a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39724,677,592 - 24,705,502 (-)NCBIGRCm39mm39
GRCm39 Ensembl724,677,592 - 24,705,383 (-)Ensembl
GRCm38724,978,167 - 25,006,077 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl724,978,167 - 25,005,958 (-)EnsemblGRCm38mm10GRCm38
MGSCv37725,763,186 - 25,790,914 (-)NCBIGRCm37mm9NCBIm37
MGSCv36724,686,927 - 24,714,655 (-)NCBImm8
Celera719,593,974 - 19,621,705 (-)NCBICelera
Cytogenetic Map7A3NCBI
cM Map713.73NCBI
Atp1a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955555869,325 - 893,542 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955555869,508 - 892,510 (+)NCBIChiLan1.0ChiLan1.0
ATP1A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11947,357,926 - 47,383,736 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1947,358,281 - 47,384,716 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01938,854,243 - 38,882,034 (-)NCBIMhudiblu_PPA_v0panPan3
ATP1A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11112,325,988 - 112,346,056 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1112,325,289 - 112,346,916 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1111,758,069 - 111,778,105 (+)NCBI
ROS_Cfam_1.01112,945,619 - 112,965,659 (+)NCBI
ROS_Cfam_1.0 Ensembl1112,945,448 - 112,986,321 (+)Ensembl
UMICH_Zoey_3.11112,498,938 - 112,518,971 (+)NCBI
UNSW_CanFamBas_1.01112,135,175 - 112,155,359 (+)NCBI
UU_Cfam_GSD_1.01113,061,496 - 113,081,538 (+)NCBI
Atp1a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934916,130,267 - 16,147,315 (+)NCBI
SpeTri2.0NW_004936706476,473 - 494,659 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP1A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl649,905,847 - 49,927,633 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1649,905,851 - 49,927,437 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2645,929,174 - 45,946,082 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATP1A3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1636,166,586 - 36,195,343 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl636,166,262 - 36,195,363 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607314,408,818 - 14,437,805 (-)NCBIVero_WHO_p1.0
Atp1a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624907715,094 - 736,432 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_004624907715,109 - 736,040 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D1Mco17  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2180,602,576 - 80,602,732 (+)MAPPERmRatBN7.2
Rnor_6.0181,882,206 - 81,882,361NCBIRnor6.0
Rnor_5.0183,134,502 - 83,134,657UniSTSRnor5.0
RGSC_v3.4180,310,490 - 80,310,646RGDRGSC3.4
RGSC_v3.4180,310,491 - 80,310,646UniSTSRGSC3.4
RGSC_v3.1180,388,601 - 80,388,757RGD
Celera175,048,522 - 75,048,677UniSTS
Cytogenetic Map1q21UniSTS
D1Bda7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2180,572,832 - 80,573,172 (+)MAPPERmRatBN7.2
Rnor_6.0181,852,466 - 81,852,805NCBIRnor6.0
Rnor_5.0183,104,762 - 83,105,101UniSTSRnor5.0
RGSC_v3.4180,280,751 - 80,281,090UniSTSRGSC3.4
Celera175,018,889 - 75,019,228UniSTS
Cytogenetic Map1q21UniSTS
RH94467  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2180,572,832 - 80,572,992 (+)MAPPERmRatBN7.2
Rnor_6.0181,852,466 - 81,852,625NCBIRnor6.0
Rnor_5.0183,104,762 - 83,104,921UniSTSRnor5.0
RGSC_v3.4180,280,751 - 80,280,910UniSTSRGSC3.4
Celera175,018,889 - 75,019,048UniSTS
RH 3.4 Map1842.5UniSTS
Cytogenetic Map1q21UniSTS
UniSTS:480319  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2180,573,589 - 80,575,216 (+)MAPPERmRatBN7.2
Rnor_6.0181,853,223 - 81,854,849NCBIRnor6.0
Rnor_5.0183,105,519 - 83,107,145UniSTSRnor5.0
RGSC_v3.4180,281,508 - 80,283,134UniSTSRGSC3.4
Celera175,019,646 - 75,021,264UniSTS
Cytogenetic Map1q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15389511782174945Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17843075491209302Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)180592172125592172Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:41
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000027497
Prediction methods:Miranda, Rnahybrid
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 23
Medium 25 45 2 1
Low 2 18 12 10 11 10 3 3 6 11 31 10 3
Below cutoff 1 45 31 8 31 5 8 24 8 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027497   ⟹   ENSRNOP00000027497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl180,572,796 - 80,601,918 (-)Ensembl
Rnor_6.0 Ensembl181,852,429 - 81,881,549 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000105436   ⟹   ENSRNOP00000080189
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl180,572,796 - 80,597,111 (-)Ensembl
RefSeq Acc Id: NM_012506   ⟹   NP_036638
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,572,796 - 80,601,920 (-)NCBI
Rnor_6.0181,852,429 - 81,881,549 (-)NCBI
Rnor_5.0183,104,725 - 83,133,845 (-)NCBI
RGSC_v3.4180,280,714 - 80,309,834 (-)RGD
Celera175,018,852 - 75,047,865 (-)RGD
Sequence:
RefSeq Acc Id: XM_017588775   ⟹   XP_017444264
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2180,572,790 - 80,601,936 (-)NCBI
Rnor_6.0181,852,423 - 81,881,565 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036638   ⟸   NM_012506
- UniProtKB: P06687 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017444264   ⟸   XM_017588775
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000027497   ⟸   ENSRNOT00000027497
RefSeq Acc Id: ENSRNOP00000080189   ⟸   ENSRNOT00000105436
Protein Domains
Cation_ATPase_N

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P06687-F1-model_v2 AlphaFold P06687 1-1013 view protein structure

Transcriptome

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

Promoters
RGD ID:13689809
Promoter ID:EPDNEW_R334
Type:initiation region
Name:Atp1a3_1
Description:ATPase Na+/K+ transporting subunit alpha 3
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_6.0181,881,559 - 81,881,619EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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
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
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
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
BUF/N (2020)
Visual CSV TAB Printer
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
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
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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
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
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
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/Stm (2019)
Visual CSV TAB Printer
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
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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
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
GK/FarMcwi (2019)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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
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
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
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
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
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
LEW/Crl (2019)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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
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
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
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
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
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
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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
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/NRrrcMcwi (2019)
Visual CSV TAB Printer
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
MR/N (2020)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
Visual CSV TAB Printer
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
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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
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
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
SR/JrHsd (2020)
Visual CSV TAB Printer
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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
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
WAG/RijCrl (2020)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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/NCrl (2019)
Visual CSV TAB Printer
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
WN/N (2020)
Visual CSV TAB Printer
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2169 AgrOrtholog
BioCyc Gene G2FUF-60407 BioCyc
Ensembl Genes ENSRNOG00000020263 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000027497 ENTREZGENE
  ENSRNOP00000027497.6 UniProtKB/TrEMBL
  ENSRNOP00000080189.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027497 ENTREZGENE
  ENSRNOT00000027497.7 UniProtKB/TrEMBL
  ENSRNOT00000105436.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.1110.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.1000 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ATPase_P-typ_cation-transptr_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-typ_cation-transptr_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-typ_cyto_dom_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-typ_P_site UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-typ_TM_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-typ_transduc_dom_A_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HAD-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HAD_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P-type_ATPase_IIC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P_typ_ATPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  P_typ_ATPase_HD_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24213 UniProtKB/Swiss-Prot
NCBI Gene 24213 ENTREZGENE
Pfam Cation_ATPase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cation_ATPase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Atp1a3 PhenoGen
PROSITE ATPASE_E1_E2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Cation_ATPase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56784 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81653 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81660 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81665 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC219862
TIGRFAMs ATPase-IIC_X-K UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZQ22_RAT UniProtKB/TrEMBL
  A0A8L2QEN5_RAT UniProtKB/TrEMBL
  AT1A3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q16732 UniProtKB/Swiss-Prot
  Q9Z1G6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Atp1a3  ATPase Na+/K+ transporting subunit alpha 3  Atp1a3  ATPase, Na+/K+ transporting, alpha 3 polypeptide  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Atp1a3  ATPase, Na+K+ transporting, alpha 3 subunit      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression 4.5 kb mRNA form is expressed in most tissues while the 6 kb form is expressed only in fetal brain, adult brain, heart, and skeletal muscle 631773
gene_expression may be specifically expressed in afferent and efferent axons innervating skeletal muscle stretch receptors 631774
gene_regulation may be regulated by FXYD7 in brain 631775
gene_transcript consists of two mRNA species with differential expression patterns 631773