Slc9a3 (solute carrier family 9 member A3) - Rat Genome Database

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Gene: Slc9a3 (solute carrier family 9 member A3) Rattus norvegicus
Analyze
Symbol: Slc9a3
Name: solute carrier family 9 member A3
RGD ID: 3720
Description: Enables sodium:proton antiporter activity. Involved in several processes, including regulation of pH; response to glucocorticoid; and sodium ion transport. Located in apical plasma membrane and brush border membrane. Used to study hypertension. Biomarker of obesity and renovascular hypertension. Human ortholog(s) of this gene implicated in congenital secretory sodium diarrhea 8. Orthologous to human SLC9A3 (solute carrier family 9 member A3); PARTICIPATES IN endothelin signaling pathway; bile acid transport pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: na(+)/H(+) exchanger 3; NHE-3; Nhe3; plasma membrane ion transport protein; sodium/hydrogen exchanger 3; Solute carrier family 9 (sodium/hydrogen exchanger 3) antiporter 3 Na+/H+ (amiloride insensitive); Solute carrier family 9 (sodium/hydrogen exchanger 3), antiporter 3, Na+/H+ (amiloride insensitive); solute carrier family 9 (sodium/hydrogen exchanger), member 3; solute carrier family 9 member 3; solute carrier family 9, member 3; solute carrier family 9, subfamily A (NHE3, cation proton antiporter 3), member 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2129,124,633 - 29,167,912 (-)NCBI
Rnor_6.0 Ensembl131,734,327 - 31,777,070 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0131,731,652 - 31,777,144 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0133,159,607 - 33,201,753 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,930,908 - 29,973,686 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1129,933,852 - 29,976,631 (-)NCBI
Celera127,776,582 - 27,819,219 (-)NCBICelera
Cytogenetic Map1p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Dagan A, etal., Am J Physiol Regul Integr Comp Physiol. 2007 Mar;292(3):R1230-5. Epub 2006 Nov 9.
2. Dixit MP, etal., Biochim Biophys Acta. 2004 Jul 1;1664(1):38-44.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Gekle M, etal., Am J Physiol Renal Physiol. 2004 Sep;287(3):F469-73. Epub 2004 Apr 27.
5. Girardi AC, etal., Am J Physiol Renal Physiol 2002 Dec;283(6):F1296-303.
6. GOA data from the GO Consortium
7. Han W, etal., J Biol Chem. 2006 Jan 20;281(3):1461-9. Epub 2005 Nov 17.
8. He P, etal., J Biol Chem. 2010 Sep 3;285(36):27869-78. doi: 10.1074/jbc.M110.133066. Epub 2010 Jun 28.
9. Inoue H, etal., Biol Pharm Bull 2003 Feb;26(2):148-55.
10. Khan I, etal., Nephron 2002 Oct;92(2):346-55.
11. Kirchhoff P, etal., Am J Physiol Gastrointest Liver Physiol. 2003 Dec;285(6):G1242-8. Epub 2003 Aug 7.
12. Klisic J, etal., Nephron Physiol. 2005 Oct 19;102(2):p27-p35.
13. Leong PK, etal., Am J Physiol Renal Physiol 2002 Nov;283(5):F1142-50.
14. Lucioni A, etal., Am J Physiol Gastrointest Liver Physiol 2002 Jul;283(1):G51-6.
15. MGD data from the GO Consortium
16. Musch MW, etal., Am J Physiol Gastrointest Liver Physiol 2002 Oct;283(4):G975-85.
17. NCBI rat LocusLink and RefSeq merged data July 26, 2002
18. Oliveira CA, etal., Endocrinology 2002 Jun;143(6):2399-409.
19. Orlowski J, etal., J Biol Chem 1992 May 5;267(13):9331-9.
20. Pedrosa R, etal., Br J Pharmacol. 2004 Aug;142(8):1343-53. Epub 2004 Jul 20.
21. Perike S, etal., Exp Cell Res. 2014 May 15;324(1):13-29. doi: 10.1016/j.yexcr.2014.03.005. Epub 2014 Mar 19.
22. Pipeline to import KEGG annotations from KEGG into RGD
23. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
24. RGD automated data pipeline
25. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
26. RGD automated import pipeline for gene-chemical interactions
27. Riazi S, etal., Am J Nephrol. 2006;26(3):245-57. Epub 2006 Jun 2.
28. Saifur Rohman M, etal., Kidney Int. 2005 Apr;67(4):1410-9.
29. Tsuganezawa H, etal., Kidney Int 2002 Jul;62(1):41-50.
30. Tureyen K, etal., J Neurochem. 2007 Apr;101(1):41-56.
31. Wang T, etal., Am J Physiol Renal Physiol 2001 Dec;281(6):F1117-22.
32. Yang L, etal., Am J Physiol Renal Physiol 2002 Apr;282(4):F730-40.
Additional References at PubMed
PMID:8631855   PMID:9933588   PMID:10666043   PMID:11934693   PMID:11954662   PMID:12169661   PMID:12191963   PMID:12427137   PMID:12464626   PMID:12470201   PMID:12657563   PMID:12684793  
PMID:12837683   PMID:15086471   PMID:15113742   PMID:16141316   PMID:16251474   PMID:16267653   PMID:16501490   PMID:16575514   PMID:16757729   PMID:17303069   PMID:17344314   PMID:17977906  
PMID:18067590   PMID:18077600   PMID:18177483   PMID:18256274   PMID:18325982   PMID:18417539   PMID:18420826   PMID:18508879   PMID:19056867   PMID:19064501   PMID:19158399   PMID:19194547  
PMID:19202345   PMID:19338654   PMID:19710385   PMID:19776175   PMID:19805644   PMID:19864301   PMID:20015946   PMID:20926631   PMID:21148403   PMID:21593187   PMID:21613418   PMID:21677414  
PMID:21814178   PMID:23376485   PMID:23402556   PMID:23612977   PMID:23863468   PMID:24118769   PMID:24384423   PMID:24652792   PMID:24666699   PMID:24831004   PMID:25119059   PMID:25298526  
PMID:25656367   PMID:26173747   PMID:26246427   PMID:26260990   PMID:26358773   PMID:26727380   PMID:28126464   PMID:28490531   PMID:29537313  


Genomics

Candidate Gene Status
Slc9a3 is a candidate Gene for QTL Bp95
Comparative Map Data
Slc9a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2129,124,633 - 29,167,912 (-)NCBI
Rnor_6.0 Ensembl131,734,327 - 31,777,070 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0131,731,652 - 31,777,144 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0133,159,607 - 33,201,753 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,930,908 - 29,973,686 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1129,933,852 - 29,976,631 (-)NCBI
Celera127,776,582 - 27,819,219 (-)NCBICelera
Cytogenetic Map1p11NCBI
SLC9A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5470,456 - 524,449 (-)EnsemblGRCh38hg38GRCh38
GRCh385470,456 - 524,449 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375470,571 - 524,564 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365526,425 - 577,447 (-)NCBINCBI36hg18NCBI36
Build 345526,424 - 577,447NCBI
Celera5570,966 - 620,781 (-)NCBI
Cytogenetic Map5p15.33NCBI
HuRef5460,638 - 510,183 (-)NCBIHuRef
CHM1_15472,597 - 524,559 (-)NCBICHM1_1
Slc9a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391374,234,374 - 74,317,561 (+)NCBIGRCm39mm39
GRCm39 Ensembl1374,269,576 - 74,317,561 (+)Ensembl
GRCm381374,086,255 - 74,169,442 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1374,121,457 - 74,169,442 (+)EnsemblGRCm38mm10GRCm38
MGSCv371374,258,963 - 74,303,512 (+)NCBIGRCm37mm9NCBIm37
MGSCv361374,587,517 - 74,632,066 (+)NCBImm8
Celera1376,451,103 - 76,495,653 (+)NCBICelera
Cytogenetic Map13C1NCBI
cM Map1340.15NCBI
Slc9a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955504228,049 - 260,650 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955504226,192 - 260,632 (-)NCBIChiLan1.0ChiLan1.0
SLC9A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15597,897 - 646,108 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5597,897 - 647,464 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05444,720 - 500,121 (-)NCBIMhudiblu_PPA_v0panPan3
SLC9A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13411,748,556 - 11,785,209 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3411,748,175 - 11,785,786 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3416,258,013 - 16,298,999 (+)NCBI
ROS_Cfam_1.03411,649,118 - 11,689,897 (+)NCBI
UMICH_Zoey_3.13411,699,849 - 11,740,579 (+)NCBI
UNSW_CanFamBas_1.03411,680,359 - 11,721,422 (+)NCBI
UU_Cfam_GSD_1.03411,890,462 - 11,930,512 (+)NCBI
Slc9a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213244,802,254 - 244,839,418 (+)NCBI
SpeTri2.0NW_004936815963,715 - 999,280 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC9A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1679,625,262 - 79,704,082 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11679,625,555 - 79,704,084 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LOC103214902
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.14362,417 - 408,113 (-)NCBI
ChlSab1.1 Ensembl4365,135 - 408,033 (-)Ensembl
Vero_WHO_p1.0NW_02366606427,500,607 - 27,511,358 (-)NCBI
Slc9a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624751254,373 - 290,218 (-)NCBI

Position Markers
RH94714  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2129,125,783 - 29,125,983 (+)MAPPER
Rnor_6.0131,735,437 - 31,735,636NCBIRnor6.0
Rnor_5.0133,160,717 - 33,160,916UniSTSRnor5.0
RGSC_v3.4129,932,018 - 29,932,217UniSTSRGSC3.4
Celera127,777,692 - 27,777,891UniSTS
Cytogenetic Map1p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1134993530Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1134993530Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)1134993530Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1164407321Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)125439343579402Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)125439343579402Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)125439343579402Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1186804543724576Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1457869349578693Rat
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
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11131448975844121Rat
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
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11131465834993348Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11249343957493439Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11362925158629251Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)11614314349547474Rat
5684999Bss102Bone structure and strength QTL 1025.50.00000072tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)11614314349547474Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)12034156058000154Rat
724520Bp145Blood pressure QTL 1452.10.0024arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12107930566079305Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12130082249454378Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)12181262344409802Rat
1357397Bw41Body weight QTL 414.190.0001body mass (VT:0001259)body weight (CMO:0000012)12340642849547474Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)12340642849547474Rat
1357400Bw62Body weight QTL624.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)12340642868406428Rat
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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:363
Count of miRNA genes:206
Interacting mature miRNAs:252
Transcripts:ENSRNOT00000020711
Prediction methods:Miranda, 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 2 23
Low 1 9 7 2 2 29 8 12 2 2
Below cutoff 27 15 8 9 8 6 8 17 16 8 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020711   ⟹   ENSRNOP00000020711
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl131,734,327 - 31,777,070 (-)Ensembl
RefSeq Acc Id: NM_012654   ⟹   NP_036786
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,124,674 - 29,167,417 (-)NCBI
Rnor_6.0131,734,327 - 31,777,070 (-)NCBI
Rnor_5.0133,159,607 - 33,201,753 (-)NCBI
RGSC_v3.4129,930,908 - 29,973,686 (-)RGD
Celera127,776,582 - 27,819,219 (-)RGD
Sequence:
RefSeq Acc Id: XM_008758677   ⟹   XP_008756899
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,127,110 - 29,167,522 (-)NCBI
Rnor_6.0131,731,652 - 31,777,144 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039100846   ⟹   XP_038956774
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2129,124,633 - 29,167,912 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_036786   ⟸   NM_012654
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_008756899   ⟸   XM_008758677
- Peptide Label: isoform X2
- UniProtKB: G3V7Y7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020711   ⟸   ENSRNOT00000020711
RefSeq Acc Id: XP_038956774   ⟸   XM_039100846
- Peptide Label: isoform X1
Protein Domains
Na_H_Exchanger

Transcriptome

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

Promoters
RGD ID:13689560
Promoter ID:EPDNEW_R83
Type:initiation region
Name:Slc9a3_1
Description:solute carrier family 9 member A3
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_6.0131,777,078 - 31,777,138EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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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:3720 AgrOrtholog
Ensembl Genes ENSRNOG00000015159 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020711 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020711 ENTREZGENE, UniProtKB/TrEMBL
InterPro Cation/H_exchanger UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cation/H_exchanger_CPA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na/H_exchanger_3/5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NaH_exchanger UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24784 UniProtKB/Swiss-Prot
NCBI Gene 24784 ENTREZGENE
PANTHER PTHR10110 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Na_H_Exchanger UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc9a3 PhenoGen
PRINTS NAHEXCHNGR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAHEXCHNGR3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs b_cpa1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V7Y7 ENTREZGENE, UniProtKB/TrEMBL
  P26433 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-01 Slc9a3  solute carrier family 9 member A3  Slc9a3  solute carrier family 9 member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-24 Slc9a3  solute carrier family 9 member 3  Slc9a3  solute carrier family 9, subfamily A (NHE3, cation proton antiporter 3), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-16 Slc9a3  solute carrier family 9, subfamily A (NHE3, cation proton antiporter 3), member 3  Slc9a3  solute carrier family 9 (sodium/hydrogen exchanger), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Slc9a3  solute carrier family 9 (sodium/hydrogen exchanger), member 3    solute carrier family 9, member 3  Name updated 1299863 APPROVED
2003-04-09 Slc9a3  solute carrier family 9, member 3    Solute carrier family 9 (sodium/hydrogen exchanger 3), antiporter 3, Na+/H+ (amiloride insensitive)  Name updated 629478 APPROVED
2002-06-10 Slc9a3  Solute carrier family 9 (sodium/hydrogen exchanger 3), antiporter 3, Na+/H+ (amiloride insensitive)      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease associated with chronic metabolic acidosis 628393
gene_disease decreased localization to the renal proximal tubule apical brush border is associated with a model of acute hypertension 737665
gene_drugs administration of the antiestrogen ICI 182,780 decreases the levels of mRNA and protein 628393
gene_drugs selective inhibitor S3226 blocks activity and growth response in young uninephrectomized rats 628393
gene_expression expressed in the proximal tubule of the kidney 628393
gene_expression expressed in the small and large intestine 628393
gene_process facilitates increased absorption of NaCl in the intestine 625757
gene_process facilitates the hyperplastic/hypertrophic response in different cell types 628529
gene_process mediates fluid and electrolyte reabsorption in the efferent ductules 628393
gene_regulation estrogen receptor (ER) is required for the expression and function 628393
gene_regulation activity is regulated by physiological stimuli, glucorticoids, aldosterone, and other neurohormones and also by signal transduction pathways that involve protein kinase C, cAMP, cGMP, intracellular calcium and accessory proteins such as NHE regulatory fac 628393
gene_regulation increased acidosis reported in rats after 6 days of treatment with ammonium chloride resulted in enhanced exchanger activity 628393
gene_regulation significant increase in the mRNA is observed in the uninephrectomized rats 628393
gene_regulation after the removal of the renal mass the activity of the apical membrane exchanger is increased 628393