Atp2b4 (ATPase plasma membrane Ca2+ transporting 4) - Rat Genome Database

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Gene: Atp2b4 (ATPase plasma membrane Ca2+ transporting 4) Rattus norvegicus
Analyze
Symbol: Atp2b4
Name: ATPase plasma membrane Ca2+ transporting 4
RGD ID: 621305
Description: Enables P-type calcium transporter activity; PDZ domain binding activity; and protein kinase binding activity. Involved in several processes, including calcium ion transport; hippocampus development; and negative regulation of calcineurin-NFAT signaling cascade. Located in basolateral plasma membrane; neuron projection; and sperm principal piece. Is active in glutamatergic synapse and presynaptic active zone membrane. Biomarker of dystonia. Orthologous to human ATP2B4 (ATPase plasma membrane Ca2+ transporting 4); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ATPase, Ca++ transporting, plasma membrane 4; LOC108352534; plasma membrane Ca2+-ATPases 4; plasma membrane calcium ATPase; plasma membrane calcium pump; plasma membrane calcium-transporting ATPase 4; PMCA4; uncharacterized LOC108352534
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
mRatBN7.21345,156,137 - 45,255,292 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1345,156,146 - 45,255,246 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1347,769,267 - 47,816,075 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01349,057,348 - 49,104,156 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01346,321,968 - 46,368,865 (-)NCBIRnor_WKY
Rnor_6.01350,091,644 - 50,153,808 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1350,091,430 - 50,153,823 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01355,157,902 - 55,204,205 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41346,631,205 - 46,697,214 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11346,645,247 - 46,711,257 (-)NCBI
Celera1345,491,969 - 45,537,415 (-)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
ammonium acetate  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
Benoxacor  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
butan-1-ol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (EXP,ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
dexamethasone  (ISO)
dicrotophos  (ISO)
Didecyldimethylammonium  (ISO)
dioxygen  (EXP,ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (ISO)
fenofibrate  (ISO)
fenvalerate  (EXP)
flavonoids  (EXP)
formaldehyde  (ISO)
gentamycin  (EXP)
irinotecan  (ISO)
isotretinoin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
lycopene  (ISO)
manganese(II) chloride  (EXP)
medroxyprogesterone acetate  (ISO)
methotrexate  (ISO)
methylseleninic acid  (ISO)
nickel sulfate  (ISO)
ozone  (ISO)
paracetamol  (EXP,ISO)
PCB138  (ISO)
perfluorononanoic acid  (ISO)
phenylephrine  (ISO)
pirinixic acid  (EXP)
potassium chromate  (ISO)
progesterone  (ISO)
prostaglandin F2alpha  (ISO)
rac-lactic acid  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (EXP,ISO)
vincristine  (ISO)
zalcitabine  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
calcium ion export  (IMP,ISO)
calcium ion transmembrane transport  (IEA,IMP,ISO)
calcium ion transport  (IDA)
cellular response to acetylcholine  (ISO,ISS)
cellular response to epinephrine stimulus  (ISO)
flagellated sperm motility  (ISO,ISS)
hippocampus development  (IEP)
intracellular calcium ion homeostasis  (IBA,ISO,ISS)
negative regulation of adenylate cyclase-activating adrenergic receptor signaling pathway involved in heart process  (ISO)
negative regulation of angiogenesis  (ISO)
negative regulation of arginine catabolic process  (ISO)
negative regulation of blood vessel endothelial cell migration  (ISO)
negative regulation of calcineurin-NFAT signaling cascade  (IMP,ISO)
negative regulation of cardiac muscle hypertrophy in response to stress  (ISO)
negative regulation of cellular response to vascular endothelial growth factor stimulus  (ISO)
negative regulation of citrulline biosynthetic process  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of nitric oxide biosynthetic process  (ISO)
negative regulation of nitric oxide mediated signal transduction  (ISO)
negative regulation of nitric-oxide synthase activity  (ISO)
negative regulation of the force of heart contraction  (ISO)
neural retina development  (IEP)
positive regulation of cAMP-dependent protein kinase activity  (ISO)
positive regulation of peptidyl-serine phosphorylation  (ISO)
positive regulation of protein localization to plasma membrane  (ISO)
regulation of cell cycle G1/S phase transition  (ISO)
regulation of cytosolic calcium ion concentration  (IBA)
regulation of transcription by RNA polymerase II  (ISO)
response to hydrostatic pressure  (ISO)
spermatogenesis  (IEP)
urinary bladder smooth muscle contraction  (ISO,ISS)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. 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.
3. 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.
4. Inhibition of the plasma membrane Ca2+ pump by CD44 receptor activation of tyrosine kinases increases the action potential afterhyperpolarization in sensory neurons. Ghosh B, etal., J Neurosci. 2011 Feb 16;31(7):2361-70.
5. 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.
6. Primary structure of rat plasma membrane Ca(2+)-ATPase isoform 4 and analysis of alternative splicing patterns at splice site A. Keeton TP and Shull GE, Biochem J 1995 Mar 15;306 ( Pt 3):779-85.
7. Changes in the expression of plasma membrane calcium extrusion systems during the maturation of hippocampal neurons. Kip SN, etal., Hippocampus. 2006;16(1):20-34.
8. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
9. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
10. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
11. 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.
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Interaction of the plasma membrane Ca2+ pump 4b/CI with the Ca2+/calmodulin-dependent membrane-associated kinase CASK. Schuh K, etal., J Biol Chem 2003 Mar 14;278(11):9778-83.
15. 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.
16. Bradykinin and ATP accelerate Ca(2+) efflux from rat sensory neurons via protein kinase C and the plasma membrane Ca(2+) pump isoform 4. Usachev YM, etal., Neuron 2002 Jan 3;33(1):113-22.
17. Expression and localization of PMCA4 in rat testis and epididymis. Wilhelm B, etal., Histochem Cell Biol. 2008 Mar;129(3):331-43. Epub 2007 Dec 4.
18. Plasma membrane Ca2+-ATPase isoform 4 antagonizes cardiac hypertrophy in association with calcineurin inhibition in rodents. Wu X, etal., J Clin Invest. 2009 Apr;119(4):976-85. doi: 10.1172/JCI36693. Epub 2009 Mar 16.
19. Caytaxin deficiency disrupts signaling pathways in cerebellar cortex. Xiao J, etal., Neuroscience. 2007 Jan 19;144(2):439-61. Epub 2006 Nov 7.
Additional References at PubMed
PMID:7694502   PMID:7945253   PMID:8428948   PMID:8530416   PMID:11591728   PMID:15078889   PMID:15955804   PMID:16956963   PMID:17242280   PMID:18591664   PMID:19278978   PMID:19715754  
PMID:19946888   PMID:21740891   PMID:22871113   PMID:23549614   PMID:24448801   PMID:25147342   PMID:25798335   PMID:29476059  


Genomics

Comparative Map Data
Atp2b4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21345,156,137 - 45,255,292 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1345,156,146 - 45,255,246 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1347,769,267 - 47,816,075 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01349,057,348 - 49,104,156 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01346,321,968 - 46,368,865 (-)NCBIRnor_WKY
Rnor_6.01350,091,644 - 50,153,808 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1350,091,430 - 50,153,823 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01355,157,902 - 55,204,205 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41346,631,205 - 46,697,214 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11346,645,247 - 46,711,257 (-)NCBI
Celera1345,491,969 - 45,537,415 (-)NCBICelera
Cytogenetic Map13q13NCBI
ATP2B4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381203,626,832 - 203,744,081 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1203,626,832 - 203,744,081 (+)EnsemblGRCh38hg38GRCh38
GRCh371203,595,960 - 203,713,209 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361201,862,551 - 201,979,832 (+)NCBINCBI36Build 36hg18NCBI36
Build 341200,327,584 - 200,444,864NCBI
Celera1176,726,268 - 176,843,554 (+)NCBICelera
Cytogenetic Map1q32.1NCBI
HuRef1174,761,519 - 174,878,762 (+)NCBIHuRef
CHM1_11205,019,430 - 205,136,718 (+)NCBICHM1_1
T2T-CHM13v2.01202,890,048 - 203,007,281 (+)NCBIT2T-CHM13v2.0
Atp2b4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391133,630,411 - 133,728,797 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1133,627,195 - 133,728,779 (-)EnsemblGRCm39 Ensembl
GRCm381133,702,674 - 133,801,059 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1133,699,457 - 133,801,041 (-)EnsemblGRCm38mm10GRCm38
MGSCv371135,600,842 - 135,650,098 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361135,523,068 - 135,569,692 (-)NCBIMGSCv36mm8
Celera1136,319,758 - 136,369,233 (-)NCBICelera
Cytogenetic Map1E4NCBI
cM Map157.95NCBI
Atp2b4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540639,552,019 - 39,645,694 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540639,552,034 - 39,645,694 (+)NCBIChiLan1.0ChiLan1.0
ATP2B4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11183,524,723 - 183,639,882 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1183,580,773 - 183,639,882 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01179,231,712 - 179,348,759 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ATP2B4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.138321,246 - 420,262 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl38366,656 - 416,952 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha38417,183 - 516,056 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.038317,612 - 416,061 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl38317,744 - 416,045 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.138309,836 - 412,983 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.038703,967 - 803,295 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.038918,139 - 1,017,502 (+)NCBIUU_Cfam_GSD_1.0
Atp2b4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934471,711,968 - 71,805,329 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936567950,797 - 993,245 (-)EnsemblSpeTri2.0
SpeTri2.0NW_004936567944,825 - 1,039,920 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATP2B4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl964,336,499 - 64,445,663 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1964,336,354 - 64,445,669 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2970,628,153 - 70,765,686 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATP2B4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12525,602,857 - 25,716,385 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2525,602,715 - 25,661,553 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605526,377,416 - 26,491,085 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atp2b4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248077,201,777 - 7,250,386 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248077,201,924 - 7,292,010 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atp2b4
514 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:338
Count of miRNA genes:152
Interacting mature miRNAs:163
Transcripts:ENSRNOT00000004078, ENSRNOT00000041084, ENSRNOT00000046273
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
2303032Bp328Blood pressure QTL 328arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134118402245417941Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134343790447841255Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134372077062022792Rat
12879436Bp395Blood pressure QTL 395arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134463918245700190Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879472Bp399Blood pressure QTL 399arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134522835847841255Rat

Markers in Region
D13Wox2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21345,162,312 - 45,162,453 (-)MAPPERmRatBN7.2
Rnor_6.01350,147,494 - 50,147,634NCBIRnor6.0
Rnor_5.01355,201,712 - 55,201,852UniSTSRnor5.0
RGSC_v3.41346,633,557 - 46,633,698RGDRGSC3.4
RGSC_v3.41346,633,558 - 46,633,698UniSTSRGSC3.4
RGSC_v3.11346,647,601 - 46,647,741RGD
Celera1345,494,322 - 45,494,462UniSTS
RH 3.4 Map13173.4UniSTS
RH 3.4 Map13173.4RGD
RH 2.0 Map13366.2RGD
Cytogenetic Map13q13UniSTS


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 30 28 22 17 22 1 1 72 34 40 11 1
Low 13 28 18 2 18 7 10 2 1 1 7
Below cutoff 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001005871 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769447 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769448 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598773 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090640 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC105642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH002538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U15408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X70978 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X76452 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000004078   ⟹   ENSRNOP00000004078
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,159,960 - 45,206,872 (-)Ensembl
Rnor_6.0 Ensembl1350,103,189 - 50,149,839 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000046273   ⟹   ENSRNOP00000039880
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,156,146 - 45,206,872 (-)Ensembl
Rnor_6.0 Ensembl1350,091,430 - 50,153,823 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101479   ⟹   ENSRNOP00000096209
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,156,146 - 45,255,246 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112237   ⟹   ENSRNOP00000080557
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1345,156,146 - 45,206,872 (-)Ensembl
RefSeq Acc Id: NM_001005871   ⟹   NP_001005871
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,159,960 - 45,206,872 (-)NCBI
Rnor_6.01350,103,022 - 50,149,987 (+)NCBI
Rnor_5.01355,157,902 - 55,204,205 (+)NCBI
RGSC_v3.41346,631,205 - 46,697,214 (-)RGD
Celera1345,491,969 - 45,537,415 (-)RGD
Sequence:
RefSeq Acc Id: XM_008769446   ⟹   XP_008767668
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,156,137 - 45,255,291 (-)NCBI
Rnor_6.01350,091,645 - 50,153,808 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090640   ⟹   XP_038946568
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,156,137 - 45,255,291 (-)NCBI
RefSeq Acc Id: XM_039090641   ⟹   XP_038946569
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,156,137 - 45,255,291 (-)NCBI
RefSeq Acc Id: XM_039090642   ⟹   XP_038946570
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,160,108 - 45,255,292 (-)NCBI
RefSeq Acc Id: XM_039090643   ⟹   XP_038946571
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,156,137 - 45,255,292 (-)NCBI
RefSeq Acc Id: XM_039090644   ⟹   XP_038946572
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,160,127 - 45,255,292 (-)NCBI
RefSeq Acc Id: XM_039090645   ⟹   XP_038946573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,156,137 - 45,193,185 (-)NCBI
RefSeq Acc Id: XM_039090646   ⟹   XP_038946574
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21345,156,137 - 45,255,292 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001005871   ⟸   NM_001005871
- UniProtKB: Q64542 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008767668   ⟸   XM_008769446
- Peptide Label: isoform X1
- UniProtKB: Q64545 (UniProtKB/Swiss-Prot),   Q64542 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004078   ⟸   ENSRNOT00000004078
RefSeq Acc Id: ENSRNOP00000039880   ⟸   ENSRNOT00000046273
RefSeq Acc Id: XP_038946574   ⟸   XM_039090646
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038946571   ⟸   XM_039090643
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038946568   ⟸   XM_039090640
- Peptide Label: isoform X1
- UniProtKB: Q64545 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038946569   ⟸   XM_039090641
- Peptide Label: isoform X1
- UniProtKB: Q64545 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038946573   ⟸   XM_039090645
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038946570   ⟸   XM_039090642
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038946572   ⟸   XM_039090644
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000080557   ⟸   ENSRNOT00000112237
RefSeq Acc Id: ENSRNOP00000096209   ⟸   ENSRNOT00000101479
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q64542-F1-model_v2 AlphaFold Q64542 1-1203 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621305 AgrOrtholog
BioCyc Gene G2FUF-18270 BioCyc
Ensembl Genes ENSRNOG00000003031 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004078 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000039880 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000080557 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000096209.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004078 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000046273 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000101479.1 UniProtKB/TrEMBL
  ENSRNOT00000112237 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.1110.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.40.50.1000 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ATP_Ca_trans_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  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_IIB 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:29600 UniProtKB/Swiss-Prot
NCBI Gene 29600 ENTREZGENE
Pfam ATP_Ca_trans_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cation_ATPase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cation_ATPase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Atp2b4 PhenoGen
PROSITE ATPASE_E1_E2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Cation_ATPase_N UniProtKB/Swiss-Prot
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
TIGRFAMs ATPase-IIB_Ca UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ATPase_P-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AQE5_RAT UniProtKB/TrEMBL
  AT2B4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q64545 ENTREZGENE
UniProt Secondary Q63127 UniProtKB/Swiss-Prot
  Q63445 UniProtKB/Swiss-Prot
  Q64543 UniProtKB/Swiss-Prot
  Q64544 UniProtKB/Swiss-Prot
  Q64545 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Atp2b4  ATPase plasma membrane Ca2+ transporting 4  LOC108352534  uncharacterized LOC108352534  Data Merged 737654 PROVISIONAL
2016-08-02 LOC108352534  uncharacterized LOC108352534      Symbol and Name status set to provisional 70820 PROVISIONAL
2016-02-17 Atp2b4  ATPase plasma membrane Ca2+ transporting 4  Atp2b4  ATPase, Ca++ transporting, plasma membrane 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Atp2b4  ATPase, Ca++ transporting, plasma membrane 4      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Atp2b4  ATPase, Ca++ transporting, plasma membrane 4      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization colocalizes with voltage-gated Ca2+ channels 628395
gene_function binds to and extrudes Ca++ from neurons 628395
gene_process meidates Ca2+ expulsion from the somata of dorsal root ganglion (DRG) neurons and from the presynaptic terminals of photoreceptors 628395
gene_regulation removal of action potential-induced Ca2+ loads in sensory neurons is greatly enhanced by bradykinin and ATP; the carboxy-terminal domains are phosphorylated by protein kinase A (PKA) and protein kinase C (PKC) 628395