Slc12a6 (solute carrier family 12, member 6) - Rat Genome Database

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Gene: Slc12a6 (solute carrier family 12, member 6) Rattus norvegicus
Analyze
Symbol: Slc12a6
Name: solute carrier family 12, member 6
RGD ID: 1311335
Description: Predicted to enable ammonium transmembrane transporter activity; potassium:chloride symporter activity; and protein kinase binding activity. Predicted to be involved in several processes, including cellular hypotonic salinity response; inorganic ion homeostasis; and inorganic ion transmembrane transport. Predicted to be located in axon and basolateral plasma membrane. Human ortholog(s) of this gene implicated in agenesis of the corpus callosum with peripheral neuropathy. Orthologous to human SLC12A6 (solute carrier family 12 member 6); PARTICIPATES IN amiloride pharmacodynamics pathway; bendroflumethiazide pharmacodynamics pathway; bumetanide pharmacodynamics pathway; INTERACTS WITH 1,2-dimethylhydrazine; 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: furosemide-sensitive KCl cotransporter 3; Kcc3; LOC362189; LOC691209; similar to Solute carrier family 12 member 6 (Electroneutral potassium-chloride cotransporter 3) (K-Cl cotransporter 3); solute carrier family 12 member 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2399,071,577 - 99,170,266 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl399,071,391 - 99,170,258 (+)Ensembl
Rnor_6.03103,752,213 - 103,852,686 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3103,753,238 - 103,852,686 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03110,347,112 - 110,446,527 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4398,110,547 - 98,212,242 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1398,005,593 - 98,106,019 (+)NCBI
Celera398,058,005 - 98,155,735 (+)NCBICelera
Cytogenetic Map3q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:10187864   PMID:11246162   PMID:12657561   PMID:15533301   PMID:16048901   PMID:16872584   PMID:18178552   PMID:20691666   PMID:22732406   PMID:22776998   PMID:24089410   PMID:24393035  
PMID:27782176  


Genomics

Comparative Map Data
Slc12a6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2399,071,577 - 99,170,266 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl399,071,391 - 99,170,258 (+)Ensembl
Rnor_6.03103,752,213 - 103,852,686 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3103,753,238 - 103,852,686 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03110,347,112 - 110,446,527 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4398,110,547 - 98,212,242 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1398,005,593 - 98,106,019 (+)NCBI
Celera398,058,005 - 98,155,735 (+)NCBICelera
Cytogenetic Map3q35NCBI
SLC12A6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381534,229,784 - 34,338,057 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1534,229,784 - 34,338,060 (-)EnsemblGRCh38hg38GRCh38
GRCh371534,521,985 - 34,630,258 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361532,309,489 - 32,417,557 (-)NCBINCBI36hg18NCBI36
Build 341532,312,957 - 32,398,222NCBI
Celera1511,324,764 - 11,432,905 (-)NCBI
Cytogenetic Map15q14NCBI
HuRef1511,385,680 - 11,493,609 (-)NCBIHuRef
CHM1_11534,640,225 - 34,748,321 (-)NCBICHM1_1
T2T-CHM13v2.01532,028,044 - 32,136,362 (-)NCBI
Slc12a6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392112,096,659 - 112,193,508 (+)NCBIGRCm39mm39
GRCm39 Ensembl2112,096,170 - 112,193,508 (+)Ensembl
GRCm382112,266,314 - 112,363,163 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2112,265,825 - 112,363,163 (+)EnsemblGRCm38mm10GRCm38
MGSCv372112,106,471 - 112,203,320 (+)NCBIGRCm37mm9NCBIm37
MGSCv362112,067,658 - 112,163,995 (+)NCBImm8
Celera2113,423,625 - 113,514,137 (+)NCBICelera
Cytogenetic Map2E3NCBI
Slc12a6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955416276,987 - 375,812 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955416277,215 - 375,812 (+)NCBIChiLan1.0ChiLan1.0
SLC12A6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11531,575,336 - 31,681,016 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1531,576,756 - 31,680,061 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01512,741,526 - 12,846,894 (-)NCBIMhudiblu_PPA_v0panPan3
SLC12A6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.130773,021 - 860,936 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl30773,933 - 858,487 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha30817,004 - 905,364 (+)NCBI
ROS_Cfam_1.030868,821 - 957,072 (+)NCBI
ROS_Cfam_1.0 Ensembl30868,632 - 957,072 (+)Ensembl
UMICH_Zoey_3.130817,202 - 905,323 (+)NCBI
UNSW_CanFamBas_1.030916,172 - 1,004,333 (+)NCBI
UU_Cfam_GSD_1.0301,043,815 - 1,131,948 (+)NCBI
Slc12a6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864079,326,666 - 79,419,750 (+)NCBI
SpeTri2.0NW_0049366732,731,454 - 2,825,179 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC12A6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl780,161,495 - 80,268,323 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1780,164,788 - 80,266,335 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SLC12A6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12648,570,399 - 48,673,935 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2648,589,770 - 48,674,486 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604892,228,864 - 92,332,462 (-)NCBIVero_WHO_p1.0
Slc12a6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462480431,495 - 105,949 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462480431,489 - 105,944 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
BE114428  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2399,073,491 - 99,073,660 (+)MAPPERmRatBN7.2
Rnor_6.03103,754,513 - 103,754,681NCBIRnor6.0
Rnor_5.03110,349,375 - 110,349,543UniSTSRnor5.0
RGSC_v3.4398,111,822 - 98,111,990UniSTSRGSC3.4
Celera398,059,280 - 98,059,448UniSTS
RH 3.4 Map3873.7UniSTS
Cytogenetic Map3q34UniSTS
RH127577  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2399,169,847 - 99,170,047 (+)MAPPERmRatBN7.2
Rnor_6.03103,852,276 - 103,852,475NCBIRnor6.0
Rnor_5.03110,446,117 - 110,446,316UniSTSRnor5.0
RGSC_v3.4398,211,832 - 98,212,031UniSTSRGSC3.4
Celera398,155,325 - 98,155,524UniSTS
RH 3.4 Map3873.71UniSTS
Cytogenetic Map3q34UniSTS
RH129702  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2399,075,159 - 99,075,368 (+)MAPPERmRatBN7.2
Rnor_6.03103,756,340 - 103,756,547NCBIRnor6.0
Rnor_6.03103,756,181 - 103,756,547NCBIRnor6.0
Rnor_5.03110,351,202 - 110,351,409UniSTSRnor5.0
Rnor_5.03110,351,043 - 110,351,409UniSTSRnor5.0
RGSC_v3.4398,113,490 - 98,113,698UniSTSRGSC3.4
Celera398,060,948 - 98,061,156UniSTS
RH 3.4 Map3781.9UniSTS
Cytogenetic Map3q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
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
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
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
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)380800231114297550Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
1582252Sual1Serum uric acid level QTL 13.40.0123blood uric acid amount (VT:0010302)blood uric acid level (CMO:0000501)396127817102200699Rat
1582219Bw63Body weight QTL 633.80.001body mass (VT:0001259)body weight (CMO:0000012)396127817115665732Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:366
Count of miRNA genes:202
Interacting mature miRNAs:272
Transcripts:ENSRNOT00000007144
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 3 12 19 72 33 40 11
Low 43 45 41 41 8 11 2 2 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000007144   ⟹   ENSRNOP00000007144
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl399,072,217 - 99,170,258 (+)Ensembl
Rnor_6.0 Ensembl3103,753,238 - 103,852,686 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000079727   ⟹   ENSRNOP00000073931
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl399,092,361 - 99,170,258 (+)Ensembl
Rnor_6.0 Ensembl3103,773,459 - 103,850,232 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000099025   ⟹   ENSRNOP00000084986
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl399,071,391 - 99,170,258 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000104424   ⟹   ENSRNOP00000077276
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl399,091,276 - 99,170,258 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000106821   ⟹   ENSRNOP00000086289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl399,091,276 - 99,170,258 (+)Ensembl
RefSeq Acc Id: NM_001109630   ⟹   NP_001103100
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2399,072,217 - 99,170,258 (+)NCBI
Rnor_6.03103,753,238 - 103,852,686 (+)NCBI
Rnor_5.03110,347,112 - 110,446,527 (+)NCBI
RGSC_v3.4398,110,547 - 98,212,242 (+)RGD
Celera398,058,005 - 98,155,735 (+)RGD
Sequence:
RefSeq Acc Id: XM_006234710   ⟹   XP_006234772
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2399,071,577 - 99,170,266 (+)NCBI
Rnor_6.03103,752,213 - 103,851,347 (+)NCBI
Rnor_5.03110,347,112 - 110,446,527 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006234711   ⟹   XP_006234773
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2399,088,461 - 99,170,266 (+)NCBI
Rnor_6.03103,769,684 - 103,851,347 (+)NCBI
Rnor_5.03110,347,112 - 110,446,527 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001103100   ⟸   NM_001109630
- UniProtKB: G3V6N7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006234772   ⟸   XM_006234710
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006234773   ⟸   XM_006234711
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K6T0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073931   ⟸   ENSRNOT00000079727
RefSeq Acc Id: ENSRNOP00000007144   ⟸   ENSRNOT00000007144
RefSeq Acc Id: ENSRNOP00000084986   ⟸   ENSRNOT00000099025
RefSeq Acc Id: ENSRNOP00000077276   ⟸   ENSRNOT00000104424
RefSeq Acc Id: ENSRNOP00000086289   ⟸   ENSRNOT00000106821
Protein Domains
AA_permease   SLC12

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V6N7-F1-model_v2 AlphaFold G3V6N7 1-1150 view protein structure

Transcriptome

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

Promoters
RGD ID:13692293
Promoter ID:EPDNEW_R2814
Type:initiation region
Name:Slc12a6_1
Description:solute carrier family 12, member 6
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_6.03103,773,543 - 103,773,603EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 103846739 103846740 T A snv HXB20/IpcvMcwi (2020)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 98198242 98198243 G T snv HCR/1Mco (UMich)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 99164310 99164311 T A snv HXB20/IpcvMcwi (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311335 AgrOrtholog
BioCyc Gene G2FUF-48390 BioCyc
Ensembl Genes ENSRNOG00000005196 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000007144 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073931 UniProtKB/TrEMBL
  ENSRNOP00000077276 ENTREZGENE
  ENSRNOP00000084986 ENTREZGENE
Ensembl Transcript ENSRNOT00000007144 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000079727 UniProtKB/TrEMBL
  ENSRNOT00000099025 ENTREZGENE
  ENSRNOT00000104424 ENTREZGENE
InterPro AA-permease_dom UniProtKB/TrEMBL
  K/Cl_cotranspt_1/3 UniProtKB/TrEMBL
  KCC1 UniProtKB/TrEMBL
  KCC3 UniProtKB/TrEMBL
  KCL_cotranspt UniProtKB/TrEMBL
  Na/K/Cl_cotransptS UniProtKB/TrEMBL
KEGG Report rno:691209 UniProtKB/TrEMBL
NCBI Gene 691209 ENTREZGENE
PANTHER PTHR11827 UniProtKB/TrEMBL
  PTHR11827:SF66 UniProtKB/TrEMBL
Pfam AA_permease UniProtKB/TrEMBL
  KCl_Cotrans_1 UniProtKB/TrEMBL
PhenoGen Slc12a6 PhenoGen
PRINTS KCLTRNSPORT UniProtKB/TrEMBL
  KCLTRNSPORT1 UniProtKB/TrEMBL
TIGRFAMs 2a30 UniProtKB/TrEMBL
UniProt A0A0G2K6T0 ENTREZGENE, UniProtKB/TrEMBL
  G3V6N7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-09-21 Slc12a6  solute carrier family 12, member 6  LOC691209  similar to Solute carrier family 12 member 6 (Electroneutral potassium-chloride cotransporter 3) (K-Cl cotransporter 3)  Data Merged 737654 APPROVED
2008-01-09 Slc12a6  solute carrier family 12, member 6  LOC687625  region containing solute carrier family 12, member 6; similar to K-Cl cotransporter 3a  Data Merged 1643240 APPROVED
2006-11-19 LOC687625  region containing solute carrier family 12, member 6; similar to K-Cl cotransporter 3a      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC691209  similar to Solute carrier family 12 member 6 (Electroneutral potassium-chloride cotransporter 3) (K-Cl cotransporter 3)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Slc12a6  solute carrier family 12, member 6  Slc12a6_predicted  solute carrier family 12, member 6 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Slc12a6_predicted  solute carrier family 12, member 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED