Slc12a1 (solute carrier family 12 member 1) - Rat Genome Database

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Gene: Slc12a1 (solute carrier family 12 member 1) Rattus norvegicus
Analyze
Symbol: Slc12a1
Name: solute carrier family 12 member 1
RGD ID: 3685
Description: Enables sodium:potassium:chloride symporter activity. Involved in several processes, including chloride transport; metal ion transport; and protein insertion into membrane from inner side. Located in apical plasma membrane and cell surface. Human ortholog(s) of this gene implicated in Bartter disease and Bartter disease type 1. Orthologous to human SLC12A1 (solute carrier family 12 member 1); PARTICIPATES IN amiloride pharmacodynamics pathway; bendroflumethiazide pharmacodynamics pathway; bumetanide pharmacodynamics pathway; INTERACTS WITH (R)-noradrenaline; 2-methoxyethanol; 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BSC1; bumetanide-sensitive sodium-(potassium)-chloride cotransporter 1; bumetanide-sensitive sodium-(potassium)-chloride cotransporter 2; kidney-specific Na-K-Cl symporter; MGC93479; Na-K-2Cl cotransporter 2; Nkcc2; solute carrier family 12 (sodium/potassium/chloride transporter), member 1; solute carrier family 12 (sodium/potassium/chloride transporters), member 1; Solute carrier family 12 member 1 (bumetanide-sensitive sodium-[potassium]-chloride cotransporter); solute carrier family 12 member 1, alternative spliced isoform; solute carrier family 12, member 1; Solute carrier family 12, member 1 (bumetanide-sensitive sodium-[potassium]-chloride cotransporter)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83132,859,581 - 132,936,354 (+)NCBIGRCr8
mRatBN7.23112,406,140 - 112,482,913 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3112,406,140 - 112,482,899 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3116,266,766 - 116,343,349 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03124,862,282 - 124,938,867 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03122,522,644 - 122,599,228 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03117,421,531 - 117,498,372 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3117,421,604 - 117,498,367 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03123,945,362 - 124,022,090 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43112,455,897 - 112,534,752 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13112,361,400 - 112,440,311 (+)NCBI
Celera3111,264,326 - 111,339,676 (+)NCBICelera
Cytogenetic Map3q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
apical plasma membrane  (IBA,IDA,IEA,ISO)
cell surface  (IDA)
extracellular exosome  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. cAMP stimulates apical exocytosis of the renal Na(+)-K(+)-2Cl(-) cotransporter NKCC2 in the thick ascending limb: role of protein kinase A. Caceres PS, etal., J Biol Chem. 2009 Sep 11;284(37):24965-71. doi: 10.1074/jbc.M109.037135. Epub 2009 Jul 10.
2. Molecular cloning, primary structure, and characterization of two members of the mammalian electroneutral sodium-(potassium)-chloride cotransporter family expressed in kidney. Gamba G, etal., J Biol Chem 1994 Jul 1;269(26):17713-22.
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. NKCC activity restores muscle water during hyperosmotic challenge independent of insulin, ERK, and p38 MAPK. Gosmanov AR, etal., Am J Physiol Regul Integr Comp Physiol 2003 Mar;284(3):R655-65.
6. Changes in renal medullary transport proteins during uncontrolled diabetes mellitus in rats. Kim D, etal., Am J Physiol Renal Physiol 2003 Aug;285(2):F303-9. Epub 2003 Apr 15.
7. Time course of renal Na-K-ATPase, NHE3, NKCC2, NCC, and ENaC abundance changes with dietary NaCl restriction. Masilamani S, etal., Am J Physiol Renal Physiol 2002 Oct;283(4):F648-57.
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. Expression of the Na-K-2Cl cotransporter by macula densa and thick ascending limb cells of rat and rabbit nephron. Obermuller N, etal., J Clin Invest 1996 Aug 1;98(3):635-40
11. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
12. Activity of the renal Na+-K+-2Cl- cotransporter is reduced by mutagenesis of N-glycosylation sites: role for protein surface charge in Cl- transport. Paredes A, etal., Am J Physiol Renal Physiol. 2006 May;290(5):F1094-102. Epub 2005 Nov 15.
13. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. WNK3 kinase is a positive regulator of NKCC2 and NCC, renal cation-Cl- cotransporters required for normal blood pressure homeostasis. Rinehart J, etal., Proc Natl Acad Sci U S A. 2005 Nov 15;102(46):16777-82. Epub 2005 Nov 7.
18. Bartter's syndrome, hypokalaemic alkalosis with hypercalciuria, is caused by mutations in the Na-K-2Cl cotransporter NKCC2. Simon DB, etal., Nat Genet. 1996 Jun;13(2):183-8.
19. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:11423561   PMID:12472779   PMID:12477932   PMID:12657563   PMID:12837683   PMID:12911543   PMID:14967839   PMID:15149970   PMID:15200427   PMID:15326289   PMID:15550389   PMID:15821259  
PMID:16144963   PMID:16672318   PMID:16757903   PMID:16783486   PMID:17237717   PMID:17264314   PMID:17595192   PMID:17973873   PMID:18177483   PMID:18273442   PMID:18391953   PMID:18508879  
PMID:18550832   PMID:18579701   PMID:18684888   PMID:19056867   PMID:19193725   PMID:19194547   PMID:19202345   PMID:19460103   PMID:19656910   PMID:19923415   PMID:20458062   PMID:20530115  
PMID:20580730   PMID:20861303   PMID:21082674   PMID:21157372   PMID:21228109   PMID:21307126   PMID:21553016   PMID:21854551   PMID:21867980   PMID:22388656   PMID:22759959   PMID:22977238  
PMID:23108645   PMID:23376485   PMID:23533145   PMID:24133122   PMID:24526686   PMID:24848496   PMID:25008321   PMID:25265491   PMID:25715987   PMID:26090759   PMID:27551042   PMID:28003191  
PMID:28164127   PMID:29672130   PMID:36727946   PMID:36961378  


Genomics

Comparative Map Data
Slc12a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83132,859,581 - 132,936,354 (+)NCBIGRCr8
mRatBN7.23112,406,140 - 112,482,913 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3112,406,140 - 112,482,899 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3116,266,766 - 116,343,349 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03124,862,282 - 124,938,867 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03122,522,644 - 122,599,228 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03117,421,531 - 117,498,372 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3117,421,604 - 117,498,367 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03123,945,362 - 124,022,090 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43112,455,897 - 112,534,752 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13112,361,400 - 112,440,311 (+)NCBI
Celera3111,264,326 - 111,339,676 (+)NCBICelera
Cytogenetic Map3q36NCBI
SLC12A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381548,206,302 - 48,304,078 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1548,178,438 - 48,304,078 (+)EnsemblGRCh38hg38GRCh38
GRCh371548,498,499 - 48,596,275 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361546,285,790 - 46,383,567 (+)NCBINCBI36Build 36hg18NCBI36
Build 341546,287,189 - 46,382,417NCBI
Celera1525,391,005 - 25,488,781 (+)NCBICelera
Cytogenetic Map15q21.1NCBI
HuRef1525,331,539 - 25,429,297 (+)NCBIHuRef
CHM1_11548,616,680 - 48,714,374 (+)NCBICHM1_1
T2T-CHM13v2.01546,014,393 - 46,112,359 (+)NCBIT2T-CHM13v2.0
Slc12a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392124,994,430 - 125,071,922 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2124,994,425 - 125,071,922 (+)EnsemblGRCm39 Ensembl
GRCm382125,152,510 - 125,230,002 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2125,152,505 - 125,230,002 (+)EnsemblGRCm38mm10GRCm38
MGSCv372124,978,336 - 125,055,738 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362124,844,041 - 124,921,440 (+)NCBIMGSCv36mm8
Celera2126,402,848 - 126,480,313 (+)NCBICelera
Cytogenetic Map2F1NCBI
cM Map261.23NCBI
Slc12a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554095,597,033 - 5,680,009 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554095,597,033 - 5,680,009 (-)NCBIChiLan1.0ChiLan1.0
SLC12A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21637,446,971 - 37,544,617 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11541,628,311 - 41,725,989 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01527,155,331 - 27,252,995 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11545,479,583 - 45,577,084 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1545,479,583 - 45,577,084 (+)Ensemblpanpan1.1panPan2
SLC12A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13014,458,373 - 14,548,870 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3014,459,606 - 14,547,694 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3014,381,456 - 14,470,305 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03014,593,665 - 14,682,546 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3014,593,691 - 14,681,371 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13014,516,360 - 14,605,436 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03014,631,905 - 14,720,735 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03014,743,702 - 14,832,801 (+)NCBIUU_Cfam_GSD_1.0
Slc12a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864092,716,292 - 92,799,975 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647110,564,535 - 10,646,977 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647110,564,530 - 10,648,124 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC12A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1123,481,369 - 123,571,630 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11123,481,892 - 123,571,655 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21137,511,070 - 137,604,350 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC12A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12634,974,947 - 35,077,241 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2634,976,126 - 35,075,186 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048106,034,886 - 106,153,601 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc12a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473111,403,675 - 11,484,982 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473111,403,936 - 11,486,244 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slc12a1
455 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1076
Count of miRNA genes:274
Interacting mature miRNAs:336
Transcripts:ENSRNOT00000008857, ENSRNOT00000008860
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
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
1582216Bw65Body weight QTL 656.3body mass (VT:0001259)body weight (CMO:0000012)3102200529115665732Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)396127817115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
7387306Bw124Body weight QTL 1243.20.0003body mass (VT:0001259)body weight (CMO:0000012)384091273129091273Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)380800231114297550Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
1331758Bp207Blood pressure QTL 2072.848arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3112287552135181505Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat

Markers in Region
RH133257  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23112,482,439 - 112,482,633 (+)MAPPERmRatBN7.2
Rnor_6.03117,497,899 - 117,498,092NCBIRnor6.0
Rnor_5.03124,021,617 - 124,021,810UniSTSRnor5.0
RGSC_v3.43112,534,279 - 112,534,472UniSTSRGSC3.4
Celera3111,339,203 - 111,339,396UniSTS
RH 3.4 Map3956.2UniSTS
Cytogenetic Map3q36UniSTS
AU048716  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23112,429,947 - 112,430,106 (+)MAPPERmRatBN7.2
Rnor_6.03117,445,411 - 117,445,569NCBIRnor6.0
Rnor_5.03123,968,980 - 123,969,138UniSTSRnor5.0
RGSC_v3.43112,481,947 - 112,482,105UniSTSRGSC3.4
Celera3111,286,703 - 111,286,861UniSTS
Cytogenetic Map3q36UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
8 9 30 93 78 80 51 23 51 6 180 68 76 45 59 29

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270617 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270618 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_073053 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063283138 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB618558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC139960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC087017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF577032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM059245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JN579707 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JN579708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U10096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000008857   ⟹   ENSRNOP00000008857
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3112,406,209 - 112,482,899 (+)Ensembl
Rnor_6.0 Ensembl3117,421,673 - 117,498,358 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000008860   ⟹   ENSRNOP00000008860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3112,406,140 - 112,482,899 (+)Ensembl
Rnor_6.0 Ensembl3117,421,604 - 117,498,358 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000085647   ⟹   ENSRNOP00000073076
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3112,406,140 - 112,482,899 (+)Ensembl
Rnor_6.0 Ensembl3117,422,704 - 117,498,367 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000096612   ⟹   ENSRNOP00000097698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3112,406,140 - 112,482,899 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000109446   ⟹   ENSRNOP00000088913
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3112,406,209 - 112,482,899 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000110194   ⟹   ENSRNOP00000092717
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3112,406,140 - 112,470,657 (+)Ensembl
RefSeq Acc Id: NM_001270617   ⟹   NP_001257546
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83132,859,590 - 132,936,354 (+)NCBI
mRatBN7.23112,406,140 - 112,482,913 (+)NCBI
Rnor_6.03117,421,604 - 117,498,372 (+)NCBI
Rnor_5.03123,945,362 - 124,022,090 (+)NCBI
Celera3111,264,326 - 111,339,676 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270618   ⟹   NP_001257547
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83132,859,590 - 132,936,354 (+)NCBI
mRatBN7.23112,406,140 - 112,482,913 (+)NCBI
Rnor_6.03117,421,604 - 117,498,372 (+)NCBI
Rnor_5.03123,945,362 - 124,022,090 (+)NCBI
Celera3111,264,326 - 111,339,676 (+)NCBI
Sequence:
RefSeq Acc Id: NR_073053
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83132,859,659 - 132,936,354 (+)NCBI
mRatBN7.23112,406,209 - 112,482,913 (+)NCBI
Rnor_6.03117,421,673 - 117,498,372 (+)NCBI
Rnor_5.03123,945,362 - 124,022,090 (+)NCBI
Celera3111,264,326 - 111,339,676 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063283138   ⟹   XP_063139208
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83132,859,581 - 132,936,354 (+)NCBI
RefSeq Acc Id: NP_001257546   ⟸   NM_001270617
- Peptide Label: isoform 1
- UniProtKB: Q5PQV1 (UniProtKB/TrEMBL),   F7EUW9 (UniProtKB/TrEMBL),   G8HI66 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257547   ⟸   NM_001270618
- Peptide Label: isoform 2
- UniProtKB: P55016 (UniProtKB/Swiss-Prot),   G3V6U1 (UniProtKB/TrEMBL),   A6HPW2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000008860   ⟸   ENSRNOT00000008860
Ensembl Acc Id: ENSRNOP00000008857   ⟸   ENSRNOT00000008857
Ensembl Acc Id: ENSRNOP00000073076   ⟸   ENSRNOT00000085647
Ensembl Acc Id: ENSRNOP00000088913   ⟸   ENSRNOT00000109446
Ensembl Acc Id: ENSRNOP00000092717   ⟸   ENSRNOT00000110194
Ensembl Acc Id: ENSRNOP00000097698   ⟸   ENSRNOT00000096612
RefSeq Acc Id: XP_063139208   ⟸   XM_063283138
- Peptide Label: isoform X1
- UniProtKB: F7EUW9 (UniProtKB/TrEMBL),   Q5PQV1 (UniProtKB/TrEMBL)
Protein Domains
Amino acid permease N-terminal   Amino acid permease/ SLC12A   SLC12A transporter C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P55016-F1-model_v2 AlphaFold P55016 1-1095 view protein structure

Transcriptome

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

Promoters
RGD ID:13692378
Promoter ID:EPDNEW_R2902
Type:single initiation site
Name:Slc12a1_1
Description:solute carrier family 12 member 1
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_6.03117,421,595 - 117,421,655EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3685 AgrOrtholog
BioCyc Gene G2FUF-48049 BioCyc
Ensembl Genes ENSRNOG00000005367 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008857.8 UniProtKB/TrEMBL
  ENSRNOT00000008860.6 UniProtKB/TrEMBL
  ENSRNOT00000085647.2 UniProtKB/TrEMBL
  ENSRNOT00000096612.1 UniProtKB/TrEMBL
  ENSRNOT00000109446.1 UniProtKB/TrEMBL
  ENSRNOT00000110194.1 UniProtKB/TrEMBL
Gene3D-CATH Amino acid/polyamine transporter I UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7109809 IMAGE-MGC_LOAD
InterPro AA-permease/SLC12A_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AA_permease_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC12_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Slc12a1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC12A1/SLC12A2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC12A_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25065 UniProtKB/TrEMBL
MGC_CLONE MGC:93479 IMAGE-MGC_LOAD
NCBI Gene 25065 ENTREZGENE
PANTHER PTHR11827 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SOLUTE CARRIER FAMILY 12 MEMBER 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam AA_permease UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  AA_permease_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SLC12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB SLC12A1 RGD
PhenoGen Slc12a1 PhenoGen
PRINTS NAKCLTRNSPRT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAKCLTRSPRT2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005367 RatGTEx
TIGR TC232135
UniProt A0A0B6VM63_RAT UniProtKB/TrEMBL
  A0A0G2K4K4_RAT UniProtKB/TrEMBL
  A0A8I6A7H2_RAT UniProtKB/TrEMBL
  A0A8I6AI31_RAT UniProtKB/TrEMBL
  A6HPW2 ENTREZGENE, UniProtKB/TrEMBL
  A8JYG7_RAT UniProtKB/TrEMBL
  F7EUW9 ENTREZGENE, UniProtKB/TrEMBL
  G3V6U1 ENTREZGENE, UniProtKB/TrEMBL
  G8HI65_RAT UniProtKB/TrEMBL
  G8HI66 ENTREZGENE, UniProtKB/TrEMBL
  P55016 ENTREZGENE
  Q5PQV1 ENTREZGENE, UniProtKB/TrEMBL
  S12A1_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Slc12a1  solute carrier family 12 member 1  Slc12a1  solute carrier family 12 (sodium/potassium/chloride transporter), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-02 Slc12a1  solute carrier family 12 (sodium/potassium/chloride transporter), member 1  Slc12a1  solute carrier family 12 (sodium/potassium/chloride transporters), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-19 Slc12a1  solute carrier family 12 (sodium/potassium/chloride transporters), member 1  Slc12a1  solute carrier family 12, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Slc12a1  solute carrier family 12, member 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function transports sodium and chloride 61494
gene_function transports sodium and chloride 69999
gene_process responsible for most of the NaCl resorption in the kidney 61494
gene_process responsible for most of the NaCl resorption in the kidney 69999