Atp2b1 (ATPase plasma membrane Ca2+ transporting 1) - Rat Genome Database

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Gene: Atp2b1 (ATPase plasma membrane Ca2+ transporting 1) Rattus norvegicus
Analyze
Symbol: Atp2b1
Name: ATPase plasma membrane Ca2+ transporting 1
RGD ID: 621303
Description: Enables PDZ domain binding activity. Involved in several processes, including calcium ion export; cellular response to corticosterone stimulus; and cellular response to vitamin D. Located in several cellular components, including basolateral plasma membrane; dendritic spine membrane; and neuronal cell body membrane. Is active in GABA-ergic synapse; glutamatergic synapse; and presynaptic active zone membrane. Biomarker of heroin dependence and hypertension. Human ortholog(s) of this gene implicated in autosomal dominant intellectual developmental disorder 66. Orthologous to human ATP2B1 (ATPase plasma membrane Ca2+ transporting 1); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ATPase, Ca++ transporting, plasma membrane 1; plasma membrane calcium ATPase; plasma membrane calcium pump; plasma membrane calcium-transporting ATPase 1; Pmca1; Pmca1a; Pmca1b; Pmca1c
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Atp2b1em2Mcwi
Genetic Models: SS-Atp2b1em2Mcwi
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8735,622,267 - 35,731,904 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl735,622,461 - 35,731,904 (+)EnsemblGRCr8
mRatBN7.2733,735,595 - 33,845,226 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl733,735,871 - 33,843,295 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx735,724,169 - 35,833,598 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0737,905,923 - 38,015,361 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0737,640,639 - 37,750,121 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0741,114,606 - 41,223,138 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl741,114,697 - 41,220,579 (+)Ensemblrn6Rnor6.0
Rnor_5.0741,153,926 - 41,262,537 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4736,493,661 - 36,600,280 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera730,753,051 - 30,859,194 (+)NCBICelera
RGSC_v3.1736,513,931 - 36,620,551 (+)NCBI
Cytogenetic Map7q13NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,4,6-tribromophenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-palmitoylglycerol  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-tert-Octylphenol  (EXP)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
aminoguanidine  (EXP)
amitrole  (EXP)
antimony(0)  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
Azoxymethane  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bucladesine  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calciol  (ISO)
calcitriol  (EXP,ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
chromium atom  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (EXP,ISO)
decabromodiphenyl ether  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP)
diethylstilbestrol  (EXP)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
disulfiram  (EXP)
diuron  (EXP)
endosulfan  (EXP)
Enterolactone  (ISO)
ethanol  (EXP,ISO)
FR900359  (ISO)
gallic acid  (ISO)
gentamycin  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
GSK-J4  (ISO)
irinotecan  (EXP)
isoflavones  (ISO)
ivermectin  (ISO)
lipopolysaccharide  (ISO)
lycopene  (ISO)
medroxyprogesterone acetate  (ISO)
melphalan  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
miconazole  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-D-aspartic acid  (ISO)
N-nitrosodimethylamine  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (ISO)
PCB138  (EXP)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
resveratrol  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
serpentine asbestos  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
streptozocin  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
tetrahydropalmatine  (ISO)
thapsigargin  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vinclozolin  (EXP)
zinc oxide  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Expression of plasma membrane calcium pump mRNA in rat intestine: effect of age and 1,25-dihydroxyvitamin D. Armbrecht HJ, etal., Biochim Biophys Acta. 1994 Oct 12;1195(1):110-4.
2. Plasma membrane calcium pump isoform 1 gene expression is repressed by corticosterone and stress in rat hippocampus. Bhargava A, etal., J Neurosci. 2000 May 1;20(9):3129-38.
3. Molecular profiling of synaptic vesicle docking sites reveals novel proteins but few differences between glutamatergic and GABAergic synapses. Boyken J, etal., Neuron. 2013 Apr 24;78(2):285-97. doi: 10.1016/j.neuron.2013.02.027.
4. Expression of plasma membrane calcium-pumping ATPase mRNAs in developing rat brain and adult brain subregions: evidence for stage-specific expression. Brandt P and Neve RL, J Neurochem. 1992 Oct;59(4):1566-9.
5. Calcium pumps in health and disease. Brini M and Carafoli E, Physiol Rev. 2009 Oct;89(4):1341-78. doi: 10.1152/physrev.00032.2008.
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. Regulation of the 1b isoform of the plasma membrane calcium pump by 1,25-dihydroxyvitamin D3 in rat osteoblast-like cells. Glendenning P, etal., J Bone Miner Res. 2001 Mar;16(3):525-34.
8. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
9. Molecular determinants for differential membrane trafficking of PMCA1 and PMCA2 in mammalian hair cells. Grati M, etal., J Cell Sci. 2006 Jul 15;119(Pt 14):2995-3007. Epub 2006 Jun 27.
10. Regulation of vascular smooth muscle cell proliferation by plasma membrane Ca(2+)-ATPase. Husain M, etal., Am J Physiol. 1997 Jun;272(6 Pt 1):C1947-59.
11. Partitioning of the plasma membrane Ca2+-ATPase into lipid rafts in primary neurons: effects of cholesterol depletion. Jiang L, etal., J Neurochem. 2007 Jul;102(2):378-88.
12. Cellular and subcellular localization of the neuron-specific plasma membrane calcium ATPase PMCA1a in the rat brain. Kenyon KA, etal., J Comp Neurol. 2010 Aug 15;518(16):3169-83. doi: 10.1002/cne.22409.
13. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
14. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
16. The localization of PMCA1b in epithelial cells and aposomes of the rat coagulating gland is influenced by androgens. Post H, etal., Prostate. 2008 Jul 1;68(10):1076-85.
17. Ontogeny of plasma membrane Ca2+ ATPase isoforms in the neural retina of the postnatal rat. Renteria RC, etal., Vis Neurosci. 2005 May-Jun;22(3):263-74.
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. The Homer-1 protein Ania-3 interacts with the plasma membrane calcium pump. Sgambato-Faure V, etal., Biochem Biophys Res Commun. 2006 May 5;343(2):630-7. Epub 2006 Mar 15.
21. Molecular cloning of two isoforms of the plasma membrane Ca2+-transporting ATPase from rat brain. Structural and functional domains exhibit similarity to Na+,K+- and other cation transport ATPases. Shull GE and Greeb J, J Biol Chem 1988 Jun 25;263(18):8646-57.
22. Prefrontal cortex AMPA receptor plasticity is crucial for cue-induced relapse to heroin-seeking. Van den Oever MC, etal., Nat Neurosci. 2008 Sep;11(9):1053-8. doi: 10.1038/nn.2165.
23. Disrupted placental vitamin D metabolism and calcium signaling in gestational diabetes and pre-eclampsia patients. Varshney S, etal., Endocrine. 2023 Apr;80(1):191-200. doi: 10.1007/s12020-022-03272-9. Epub 2022 Dec 8.
24. [Effects of ANP upon ion pump activity and gene expression in aortic smooth muscle cells from spontaneously hypertensive rats]. Zhang GH, etal., Zhonghua Yi Xue Za Zhi. 2009 Nov 3;89(40):2862-6.
Additional References at PubMed
PMID:8428948   PMID:10858669   PMID:14593108   PMID:16956963   PMID:17938178   PMID:18029012   PMID:18058007   PMID:19292454   PMID:19653992   PMID:19946888   PMID:20458337   PMID:20553254  
PMID:22311909   PMID:22713297   PMID:22871113   PMID:23460639   PMID:24378673   PMID:24805951   PMID:26392310   PMID:28827723   PMID:29104511   PMID:29476059   PMID:29950683   PMID:30053369  
PMID:30190470  


Genomics

Comparative Map Data
Atp2b1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8735,622,267 - 35,731,904 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl735,622,461 - 35,731,904 (+)EnsemblGRCr8
mRatBN7.2733,735,595 - 33,845,226 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl733,735,871 - 33,843,295 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx735,724,169 - 35,833,598 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0737,905,923 - 38,015,361 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0737,640,639 - 37,750,121 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0741,114,606 - 41,223,138 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl741,114,697 - 41,220,579 (+)Ensemblrn6Rnor6.0
Rnor_5.0741,153,926 - 41,262,537 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4736,493,661 - 36,600,280 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera730,753,051 - 30,859,194 (+)NCBICelera
RGSC_v3.1736,513,931 - 36,620,551 (+)NCBI
Cytogenetic Map7q13NCBI
ATP2B1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381289,588,049 - 89,709,366 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1289,588,049 - 89,709,527 (-)Ensemblhg38GRCh38
GRCh371289,981,826 - 90,103,143 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361288,505,957 - 88,573,975 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341288,484,295 - 88,552,312NCBI
Celera1289,653,490 - 89,721,509 (-)NCBICelera
Cytogenetic Map12q21.33NCBI
HuRef1287,047,680 - 87,115,698 (-)NCBIHuRef
CHM1_11289,946,885 - 90,014,891 (-)NCBICHM1_1
T2T-CHM13v2.01289,569,850 - 89,691,243 (-)NCBIT2T-CHM13v2.0
Atp2b1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391098,750,243 - 98,862,005 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1098,750,268 - 98,862,005 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381098,914,630 - 99,026,143 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1098,914,406 - 99,026,143 (+)Ensemblmm10GRCm38
MGSCv371098,377,786 - 98,488,777 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361098,344,858 - 98,453,480 (+)NCBIMGSCv36mm8
Celera10100,886,627 - 100,998,171 (+)NCBICelera
Cytogenetic Map10C3NCBI
cM Map1050.97NCBI
Atp2b1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540526,872,379 - 26,932,703 (-)Ensembl
ChiLan1.0NW_00495540526,872,379 - 26,932,270 (-)NCBIChiLan1.0ChiLan1.0
ATP2B1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21097,607,011 - 97,674,855 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11297,603,409 - 97,725,055 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01287,107,900 - 87,229,514 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11290,427,560 - 90,495,320 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1290,427,560 - 90,495,320 (-)EnsemblpanPan2panpan1.1
ATP2B1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11530,547,009 - 30,674,094 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1530,547,015 - 30,616,429 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1531,001,748 - 31,071,230 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01531,191,421 - 31,320,135 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1531,191,427 - 31,319,625 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11530,496,017 - 30,565,441 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01530,557,909 - 30,627,319 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01530,851,958 - 30,921,528 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Atp2b1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494529,604,363 - 29,710,134 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365076,523,199 - 6,630,606 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365076,525,302 - 6,631,003 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP2B1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl592,935,694 - 93,061,405 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1592,935,688 - 93,061,406 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2597,597,062 - 97,709,794 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATP2B1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11184,985,957 - 85,053,923 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1184,989,169 - 85,103,957 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666037160,096,429 - 160,215,991 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atp2b1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475016,990,288 - 17,103,279 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Atp2b1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11178,040,110 - 178,151,463 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Atp2b1
578 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:220
Count of miRNA genes:141
Interacting mature miRNAs:156
Transcripts:ENSRNOT00000005450, ENSRNOT00000005491, ENSRNOT00000041354, ENSRNOT00000066174
Prediction methods:Microtar, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354644Spl4Serum phospholipid level QTL 44.9blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)72154197751639954Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72380760668807606Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)71051708662346019Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72663805771638057Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72417947886817926Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)731770293110435881Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)71011291660150541Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7946087754460877Rat
1354637Scl30Serum cholesterol level QTL 303.7blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)72154197751639954Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73299870277998702Rat
1354639Spl5Serum phospholipid level QTL 53.9blood LDL phospholipid amount (VT:0010505)blood low density lipoprotein phospholipid level (CMO:0001568)72154197735707405Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72862457565788017Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)72154197786817926Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)71049882055498820Rat
61369Mcs2Mammary carcinoma susceptibility QTL 23.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72092049437412865Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71746044762460447Rat
70207Niddm31Non-insulin dependent diabetes mellitus QTL 313.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)72005723265057232Rat
61439Cia8Collagen induced arthritis QTL 85.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)72718291472182914Rat

Markers in Region
RH144662  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2733,835,721 - 33,835,927 (+)MAPPERmRatBN7.2
Rnor_6.0741,214,071 - 41,214,276NCBIRnor6.0
Rnor_5.0741,253,241 - 41,253,446UniSTSRnor5.0
RGSC_v3.4736,593,772 - 36,593,977UniSTSRGSC3.4
Celera730,852,686 - 30,852,891UniSTS
RH 3.4 Map7279.7UniSTS
Cytogenetic Map7q13UniSTS
BF387281  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2733,788,039 - 33,788,212 (+)MAPPERmRatBN7.2
Rnor_6.0741,166,391 - 41,166,563NCBIRnor6.0
Rnor_5.0741,205,561 - 41,205,733UniSTSRnor5.0
RGSC_v3.4736,546,092 - 36,546,264UniSTSRGSC3.4
Celera730,805,006 - 30,805,178UniSTS
RH 3.4 Map7277.0UniSTS
Cytogenetic Map7q13UniSTS
RH140668  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8735,675,676 - 35,675,879 (+)Marker Load Pipeline
mRatBN7.2733,788,997 - 33,789,200 (+)MAPPERmRatBN7.2
Rnor_6.0741,167,349 - 41,167,551NCBIRnor6.0
Rnor_5.0741,206,519 - 41,206,721UniSTSRnor5.0
RGSC_v3.4736,547,050 - 36,547,252UniSTSRGSC3.4
Celera730,805,964 - 30,806,166UniSTS
RH 3.4 Map7277.3UniSTS
Cytogenetic Map7q13UniSTS


Genetic Models
This gene Atp2b1 is modified in the following models/strains:
SS-Atp2b1em2Mcwi    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001399339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001399343 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_053311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078600 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039078601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF076783 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J03753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L04739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000041354   ⟹   ENSRNOP00000040092
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl735,622,461 - 35,731,904 (+)Ensembl
mRatBN7.2 Ensembl733,735,879 - 33,843,041 (+)Ensembl
Rnor_6.0 Ensembl741,114,697 - 41,220,579 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000066174   ⟹   ENSRNOP00000059397
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl735,622,461 - 35,731,904 (+)Ensembl
mRatBN7.2 Ensembl733,735,871 - 33,843,295 (+)Ensembl
Rnor_6.0 Ensembl741,115,154 - 41,220,344 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119758   ⟹   ENSRNOP00000090086
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl735,622,461 - 35,731,904 (+)Ensembl
mRatBN7.2 Ensembl733,735,879 - 33,843,041 (+)Ensembl
RefSeq Acc Id: NM_001399339   ⟹   NP_001386268
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,622,461 - 35,731,904 (+)NCBI
mRatBN7.2733,735,780 - 33,845,226 (+)NCBI
RefSeq Acc Id: NM_001399343   ⟹   NP_001386272
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,622,461 - 35,731,904 (+)NCBI
mRatBN7.2733,735,780 - 33,845,226 (+)NCBI
RefSeq Acc Id: NM_053311   ⟹   NP_445763
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,622,461 - 35,731,904 (+)NCBI
mRatBN7.2733,735,780 - 33,845,226 (+)NCBI
Rnor_6.0741,114,697 - 41,220,579 (+)NCBI
Rnor_5.0741,153,926 - 41,262,537 (+)NCBI
RGSC_v3.4736,493,661 - 36,600,280 (+)RGD
Celera730,753,051 - 30,859,194 (+)RGD
Sequence:
RefSeq Acc Id: XM_039078600   ⟹   XP_038934528
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,622,267 - 35,731,904 (+)NCBI
mRatBN7.2733,735,595 - 33,845,226 (+)NCBI
RefSeq Acc Id: XM_039078601   ⟹   XP_038934529
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,623,115 - 35,731,904 (+)NCBI
mRatBN7.2733,736,361 - 33,845,226 (+)NCBI
RefSeq Acc Id: XM_063263123   ⟹   XP_063119193
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,623,115 - 35,731,904 (+)NCBI
RefSeq Acc Id: XM_063263124   ⟹   XP_063119194
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,623,115 - 35,731,904 (+)NCBI
RefSeq Acc Id: XM_063263125   ⟹   XP_063119195
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8735,622,267 - 35,731,904 (+)NCBI
RefSeq Acc Id: NP_445763   ⟸   NM_053311
- Peptide Label: isoform 3
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot),   A6IG76 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000040092   ⟸   ENSRNOT00000041354
Ensembl Acc Id: ENSRNOP00000059397   ⟸   ENSRNOT00000066174
RefSeq Acc Id: XP_038934528   ⟸   XM_039078600
- Peptide Label: isoform X1
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038934529   ⟸   XM_039078601
- Peptide Label: isoform X1
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot)
Ensembl Acc Id: ENSRNOP00000090086   ⟸   ENSRNOT00000119758
RefSeq Acc Id: NP_001386272   ⟸   NM_001399343
- Peptide Label: isoform 1
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot),   A0A8L2QSH6 (UniProtKB/TrEMBL),   A6IG74 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001386268   ⟸   NM_001399339
- Peptide Label: isoform 2
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot),   A6IG75 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063119195   ⟸   XM_063263125
- Peptide Label: isoform X4
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063119194   ⟸   XM_063263124
- Peptide Label: isoform X3
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot),   A6IG76 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063119193   ⟸   XM_063263123
- Peptide Label: isoform X2
- UniProtKB: Q9R1L7 (UniProtKB/Swiss-Prot),   Q63442 (UniProtKB/Swiss-Prot),   P11505 (UniProtKB/Swiss-Prot),   A6IG75 (UniProtKB/TrEMBL)
Protein Domains
Cation-transporting P-type ATPase N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P11505-F1-model_v2 AlphaFold P11505 1-1220 view protein structure

Transcriptome

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

Promoters
RGD ID:13695171
Promoter ID:EPDNEW_R5696
Type:initiation region
Name:Atp2b1_2
Description:ATPase plasma membrane Ca2+ transporting 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5697  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0741,114,631 - 41,114,691EPDNEW
RGD ID:13695188
Promoter ID:EPDNEW_R5697
Type:multiple initiation site
Name:Atp2b1_1
Description:ATPase plasma membrane Ca2+ transporting 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5696  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0741,115,081 - 41,115,141EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621303 AgrOrtholog
BioCyc Gene G2FUF-34275 BioCyc
Ensembl Genes ENSRNOG00000004026 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000041354 ENTREZGENE
  ENSRNOT00000066174 ENTREZGENE
Gene3D-CATH 3.40.1110.10 UniProtKB/Swiss-Prot
  3.40.50.1000 UniProtKB/Swiss-Prot
  Calcium-transporting ATPase, cytoplasmic transduction domain A UniProtKB/Swiss-Prot
  Calcium-transporting ATPase, transmembrane domain UniProtKB/Swiss-Prot
InterPro ATP_Ca_trans_C UniProtKB/Swiss-Prot
  ATPase_P-typ_cation-transptr_C UniProtKB/Swiss-Prot
  ATPase_P-typ_cation-transptr_N UniProtKB/Swiss-Prot
  ATPase_P-typ_cyto_dom_N UniProtKB/Swiss-Prot
  ATPase_P-typ_P_site UniProtKB/Swiss-Prot
  ATPase_P-typ_TM_dom_sf UniProtKB/Swiss-Prot
  ATPase_P-typ_transduc_dom_A_sf UniProtKB/Swiss-Prot
  HAD-like_sf UniProtKB/Swiss-Prot
  HAD_sf UniProtKB/Swiss-Prot
  P-type_ATPase_IIB UniProtKB/Swiss-Prot
  P_typ_ATPase UniProtKB/Swiss-Prot
  P_typ_ATPase_HD_dom UniProtKB/Swiss-Prot
KEGG Report rno:29598 UniProtKB/Swiss-Prot
NCBI Gene 29598 ENTREZGENE
PANTHER CATION TRANSPORTING ATPASE UniProtKB/Swiss-Prot
  PTHR24093:SF245 UniProtKB/Swiss-Prot
Pfam ATP_Ca_trans_C UniProtKB/Swiss-Prot
  Cation_ATPase UniProtKB/Swiss-Prot
  Cation_ATPase_C UniProtKB/Swiss-Prot
  Cation_ATPase_N UniProtKB/Swiss-Prot
  E1-E2_ATPase UniProtKB/Swiss-Prot
  Hydrolase UniProtKB/Swiss-Prot
PhenoGen Atp2b1 PhenoGen
PRINTS CATATPASE UniProtKB/Swiss-Prot
PROSITE ATPASE_E1_E2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000004026 RatGTEx
SMART Cation_ATPase_N UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56784 UniProtKB/Swiss-Prot
  SSF81653 UniProtKB/Swiss-Prot
  SSF81660 UniProtKB/Swiss-Prot
  SSF81665 UniProtKB/Swiss-Prot
UniProt A0A8I6AD42_RAT UniProtKB/TrEMBL
  A0A8L2QK78_RAT UniProtKB/TrEMBL
  A0A8L2QSH6 ENTREZGENE, UniProtKB/TrEMBL
  A6IG74 ENTREZGENE, UniProtKB/TrEMBL
  A6IG75 ENTREZGENE, UniProtKB/TrEMBL
  A6IG76 ENTREZGENE, UniProtKB/TrEMBL
  A6IG78_RAT UniProtKB/TrEMBL
  AT2B1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q63442 ENTREZGENE
  Q9R1L7 ENTREZGENE
UniProt Secondary Q63442 UniProtKB/Swiss-Prot
  Q9R1L7 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Atp2b1  ATPase, Ca++ transporting, plasma membrane 1      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Atp2b1  ATPase, Ca++ transporting, plasma membrane 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_protein 1,176 amino acids; 129.5 kDa 631720