Slc8a2 (solute carrier family 8 member A2) - Rat Genome Database
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Gene: Slc8a2 (solute carrier family 8 member A2) Rattus norvegicus
Analyze
Symbol: Slc8a2
Name: solute carrier family 8 member A2
RGD ID: 620194
Description: Exhibits calcium:cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration and calcium:sodium antiporter activity. Involved in inorganic cation transmembrane transport; response to vitamin D; and telencephalon development. Localizes to several cellular components, including dendritic spine; integral component of mitochondrial membrane; and integral component of postsynaptic membrane. Biomarker of brain ischemia and status epilepticus. Orthologous to human SLC8A2 (solute carrier family 8 member A2); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: na(+)/Ca(2+)-exchange protein 2; Ncx2; sodium/calcium exchanger 2; solute carrier family 8 (sodium/calcium exchanger), member 2; solute carrier family 8 member 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Slc8a2m1Mcwi  
Genetic Models: FHH-Slc8a2m1Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2176,816,583 - 76,852,928 (+)NCBI
Rnor_6.0 Ensembl178,025,995 - 78,060,111 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0178,029,555 - 78,054,042 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0179,296,259 - 79,320,746 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4176,473,938 - 76,498,624 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1176,552,048 - 76,576,735 (+)NCBI
Celera171,312,731 - 71,337,222 (+)NCBICelera
Cytogenetic Map1q21NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bojarski C, etal., Brain Res. 2008 Jan 16;1189:198-202. Epub 2007 Nov 1.
2. Boscia F, etal., J Cereb Blood Flow Metab. 2006 Apr;26(4):502-17.
3. Brini M, etal., Ann N Y Acad Sci 2002 Nov;976:376-81.
4. Cross JL, etal., Neurosci Res. 2012 Jul;73(3):191-8. doi: 10.1016/j.neures.2012.04.007. Epub 2012 Apr 27.
5. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. Ketelaars SO, etal., Epilepsia. 2004 Oct;45(10):1189-201.
7. Kuroda H, etal., Mol Pain. 2013 Apr 29;9:22. doi: 10.1186/1744-8069-9-22.
8. Li Z, etal., J Biol Chem 1994 Jul 1;269(26):17434-9.
9. Linck B, etal., Am J Physiol. 1998 Feb;274(2 Pt 1):C415-23.
10. Lu J, etal., Neurosci Lett 2002 Oct 25;332(1):21-4.
11. Lytton J Biochem J. 2007 Sep 15;406(3):365-82.
12. MGD data from the GO Consortium
13. Minelli A, etal., Cell Calcium. 2007 Mar;41(3):221-34. Epub 2006 Aug 17.
14. NCBI rat LocusLink and RefSeq merged data July 26, 2002
15. Persson AK, etal., Mol Pain. 2010 Nov 30;6:84. doi: 10.1186/1744-8069-6-84.
16. Pipeline to import KEGG annotations from KEGG into RGD
17. Polumuri SK, etal., Ann N Y Acad Sci. 2002 Nov;976:60-3.
18. Pulina MV, etal., J Biol Chem. 2006 Jul 14;281(28):19645-54. Epub 2006 May 5.
19. RGD automated data pipeline
20. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. RGD automated import pipeline for gene-chemical interactions
22. Secondo A, etal., Cell Calcium. 2007 Dec;42(6):521-35. Epub 2007 Mar 6.
23. Sokolow S, etal., Cell Calcium. 2011 Apr;49(4):208-16. doi: 10.1016/j.ceca.2010.12.008. Epub 2011 Mar 5.
24. Thurneysen T, etal., Ann N Y Acad Sci 2002 Nov;976:367-75.
25. Yamauchi D, etal., BMC Physiol. 2010 Jan 29;10:1.
Additional References at PubMed
PMID:8798769   PMID:12722103   PMID:12818181   PMID:15541203   PMID:17884163   PMID:22871113   PMID:23403180   PMID:26924806   PMID:27595821   PMID:28428550   PMID:29274751   PMID:29476059  


Genomics

Comparative Map Data
Slc8a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2176,816,583 - 76,852,928 (+)NCBI
Rnor_6.0 Ensembl178,025,995 - 78,060,111 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0178,029,555 - 78,054,042 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0179,296,259 - 79,320,746 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4176,473,938 - 76,498,624 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1176,552,048 - 76,576,735 (+)NCBI
Celera171,312,731 - 71,337,222 (+)NCBICelera
Cytogenetic Map1q21NCBI
SLC8A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1947,428,017 - 47,471,893 (-)EnsemblGRCh38hg38GRCh38
GRCh381947,428,017 - 47,471,893 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371947,931,274 - 47,975,150 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361952,623,735 - 52,666,934 (-)NCBINCBI36hg18NCBI36
Build 341952,623,734 - 52,666,934NCBI
Celera1944,737,047 - 44,781,071 (-)NCBI
Cytogenetic Map19q13.32NCBI
HuRef1944,359,692 - 44,403,467 (-)NCBIHuRef
CHM1_11947,933,461 - 47,977,474 (-)NCBICHM1_1
Slc8a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39715,861,540 - 15,894,988 (+)NCBIGRCm39mm39
GRCm39 Ensembl715,863,751 - 15,894,988 (+)Ensembl
GRCm38716,127,592 - 16,161,063 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl716,129,826 - 16,161,063 (+)EnsemblGRCm38mm10GRCm38
MGSCv37716,715,649 - 16,745,860 (+)NCBIGRCm37mm9NCBIm37
MGSCv36715,288,822 - 15,319,033 (+)NCBImm8
Celera713,328,878 - 13,358,979 (+)NCBICelera
Cytogenetic Map7A2NCBI
cM Map78.75NCBI
Slc8a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555741,288,952 - 1,315,401 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555741,290,907 - 1,315,399 (-)NCBIChiLan1.0ChiLan1.0
SLC8A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11953,077,028 - 53,119,501 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1953,077,857 - 53,113,830 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01944,420,146 - 44,464,242 (-)NCBIMhudiblu_PPA_v0panPan3
SLC8A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1108,544,509 - 108,575,891 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11108,544,825 - 108,575,894 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Slc8a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366641,116,543 - 1,139,586 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC8A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl653,201,484 - 53,236,367 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1653,201,477 - 53,236,489 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2648,781,798 - 48,816,809 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC8A2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1640,758,106 - 40,803,277 (-)NCBI
ChlSab1.1 Ensembl640,757,440 - 40,797,126 (-)Ensembl
Slc8a2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248326,333,672 - 6,359,536 (+)NCBI

Position Markers
D1Got72  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0178,039,154 - 78,039,242NCBIRnor6.0
Rnor_5.0179,305,858 - 79,305,946UniSTSRnor5.0
RGSC_v3.4176,483,534 - 76,483,623RGDRGSC3.4
RGSC_v3.4176,483,535 - 76,483,623UniSTSRGSC3.4
RGSC_v3.1176,561,646 - 76,561,734RGD
Celera171,322,332 - 71,322,420UniSTS
RH 3.4 Map1774.3UniSTS
RH 3.4 Map1774.3RGD
Cytogenetic Map1q21UniSTS
BE106527  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0178,043,103 - 78,043,305NCBIRnor6.0
Rnor_5.0179,309,807 - 79,310,009UniSTSRnor5.0
RGSC_v3.4176,487,484 - 76,487,686UniSTSRGSC3.4
Celera171,326,281 - 71,326,483UniSTS
RH 3.4 Map1771.2UniSTS
Cytogenetic Map1q21UniSTS
RH137848  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0178,034,304 - 78,034,450NCBIRnor6.0
Rnor_5.0179,301,008 - 79,301,154UniSTSRnor5.0
RGSC_v3.4176,478,685 - 76,478,831UniSTSRGSC3.4
Celera171,317,478 - 71,317,624UniSTS
RH 3.4 Map1777.4UniSTS
Cytogenetic Map1q21UniSTS


QTLs in Region (Rnor_6.0)
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)125439386904217Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11131448983657083Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11131448983657083Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11131448983657083Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11131448983657083Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)12429779978748000Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13148945479689689Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)13444911279449112Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)13444911279449112Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134993530173445086Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13537750894364229Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)13585416780854167Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13585416780854167Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13585416780854167Rat
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13603316579689689Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)13603316579689689Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14190724986907249Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143579208126240667Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143579208126240667Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143579208126240667Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143579208126240667Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143579208126240667Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14611346179689689Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)149147799156446783Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14954732883657083Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14957857794578577Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149578577169852184Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15052271494225616Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15385134883657083Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15385134883657083Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157761301104391981Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)158209327103209327Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)158354072161711996Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)164588516125875986Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)166113339122614963Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)16722768394201552Rat


Genetic Models
This gene Slc8a2 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:41
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000047289
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 62 4
Low 3 7 19 3 17 3 4 5 12 32 31 10 4
Below cutoff 34 19 19 2 19 4 6 3 6 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000047289   ⟹   ENSRNOP00000042012
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl178,029,555 - 78,054,044 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086396   ⟹   ENSRNOP00000071086
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl178,025,995 - 78,060,111 (+)Ensembl
RefSeq Acc Id: NM_078619   ⟹   NP_511174
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,822,579 - 76,847,070 (+)NCBI
Rnor_6.0178,029,555 - 78,054,042 (+)NCBI
Rnor_5.0179,296,259 - 79,320,746 (+)NCBI
RGSC_v3.4176,473,938 - 76,498,624 (+)RGD
Celera171,312,731 - 71,337,222 (+)RGD
Sequence:
RefSeq Acc Id: XM_039080711   ⟹   XP_038936639
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,816,583 - 76,847,192 (+)NCBI
RefSeq Acc Id: XM_039080746   ⟹   XP_038936674
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2176,816,583 - 76,852,928 (+)NCBI
Protein Sequences
Protein RefSeqs NP_511174 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936639 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936674 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA19920 (Get FASTA)   NCBI Sequence Viewer  
  P48768 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_511174   ⟸   NM_078619
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000071086   ⟸   ENSRNOT00000086396
RefSeq Acc Id: ENSRNOP00000042012   ⟸   ENSRNOT00000047289
RefSeq Acc Id: XP_038936674   ⟸   XM_039080746
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038936639   ⟸   XM_039080711
- Peptide Label: isoform X1
Protein Domains
Calx-beta

Transcriptome

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

Promoters
RGD ID:13689727
Promoter ID:EPDNEW_R250
Type:initiation region
Name:Slc8a2_1
Description:solute carrier family 8 member A2
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_6.0178,025,991 - 78,026,051EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620194 AgrOrtholog
Ensembl Genes ENSRNOG00000001492 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000042012 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071086 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047289 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000086396 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.2030 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro CalX-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calx_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_Ca_Ex UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_Ca_Ex_C-exten UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NaCa_Exmemb UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:140447 UniProtKB/Swiss-Prot
NCBI Gene 140447 ENTREZGENE
Pfam Calx-beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_Ca_ex UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na_Ca_ex_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SLC8A2 RGD
PhenoGen Slc8a2 PhenoGen
PRINTS NACAEXCHNGR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Calx_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF141072 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs caca UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JZK7_RAT UniProtKB/TrEMBL
  F1M9A2_RAT UniProtKB/TrEMBL
  NAC2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-01 Slc8a2  solute carrier family 8 member A2  Slc8a2  solute carrier family 8 member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-24 Slc8a2  solute carrier family 8 member 2  Slc8a2  solute carrier family 8 (sodium/calcium exchanger), member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Slc8a2  solute carrier family 8 (sodium/calcium exchanger), member 2      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Slc8a2  solute carrier family 8 (sodium/calcium exchanger), member 2      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression mRNA expressed in cerebral cortex and hippocampus 727449
gene_protein protein contains 921 aa residues 730182