Slc4a8 (solute carrier family 4 member 8) - Rat Genome Database

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Gene: Slc4a8 (solute carrier family 4 member 8) Rattus norvegicus
Analyze
Symbol: Slc4a8
Name: solute carrier family 4 member 8
RGD ID: 735164
Description: Predicted to enable chloride transmembrane transporter activity and sodium:bicarbonate symporter activity. Predicted to be involved in bicarbonate transport; inorganic ion transmembrane transport; and regulation of intracellular pH. Predicted to act upstream of or within positive regulation of synaptic vesicle exocytosis and regulation of membrane potential. Located in several cellular components, including axon; glutamatergic synapse; and synaptic vesicle. Biomarker of prediabetes syndrome. Orthologous to human SLC4A8 (solute carrier family 4 member 8); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: electroneutral Na+-driven Cl-HCO3 exchanger; electroneutral sodium bicarbonate exchanger 1; k-NBC3; LOC315311; Na-driven Cl-HCO3 exchanger NDCBE1-A; Na-driven Cl-HCO3 exchanger NDCBE1-B; Na-driven Cl-HCO3 exchanger NDCBE1-C; solute carrier family 4 (anion exchanger), member 8; solute carrier family 4, sodium bicarbonate cotransporter, member 8
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
mRatBN7.27131,861,284 - 131,937,963 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7131,864,102 - 131,931,051 (+)Ensembl
Rnor_6.07142,397,352 - 142,467,398 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7142,397,371 - 142,464,158 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07140,201,544 - 140,271,679 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47139,230,085 - 139,575,631 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17139,306,521 - 139,652,068 (+)NCBI
Celera7128,340,100 - 128,399,333 (+)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:11133997   PMID:16916513   PMID:18359573   PMID:18577713   PMID:21195699   PMID:21593314   PMID:23500099   PMID:23677982  


Genomics

Comparative Map Data
Slc4a8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27131,861,284 - 131,937,963 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl7131,864,102 - 131,931,051 (+)Ensembl
Rnor_6.07142,397,352 - 142,467,398 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7142,397,371 - 142,464,158 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07140,201,544 - 140,271,679 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47139,230,085 - 139,575,631 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17139,306,521 - 139,652,068 (+)NCBI
Celera7128,340,100 - 128,399,333 (+)NCBICelera
Cytogenetic Map7q36NCBI
SLC4A8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1251,391,317 - 51,515,763 (+)EnsemblGRCh38hg38GRCh38
GRCh381251,391,317 - 51,515,763 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371251,785,230 - 51,909,547 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361250,104,861 - 50,189,247 (+)NCBINCBI36hg18NCBI36
Build 341250,105,023 - 50,177,915NCBI
Celera1250,620,062 - 50,705,110 (+)NCBI
Cytogenetic Map12q13.13NCBI
HuRef1248,818,058 - 48,942,408 (+)NCBIHuRef
CHM1_11251,751,635 - 51,876,068 (+)NCBICHM1_1
Slc4a8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915100,659,628 - 100,721,852 (+)NCBIGRCm39mm39
GRCm39 Ensembl15100,659,628 - 100,721,849 (+)Ensembl
GRCm3815100,761,747 - 100,823,971 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15100,761,747 - 100,823,968 (+)EnsemblGRCm38mm10GRCm38
MGSCv3715100,592,178 - 100,654,402 (+)NCBIGRCm37mm9NCBIm37
MGSCv3615100,589,836 - 100,643,959 (+)NCBImm8
Celera15102,908,446 - 102,971,080 (+)NCBICelera
Cytogenetic Map15F1NCBI
Slc4a8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555471,896,862 - 1,969,975 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555471,896,597 - 1,975,285 (+)NCBIChiLan1.0ChiLan1.0
SLC4A8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11238,126,246 - 38,214,036 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1238,134,574 - 38,214,036 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01237,243,593 - 37,329,083 (-)NCBIMhudiblu_PPA_v0panPan3
SLC4A8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1273,398,776 - 3,460,562 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl273,403,804 - 3,460,583 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2742,783,879 - 42,858,653 (+)NCBI
ROS_Cfam_1.0273,392,807 - 3,467,680 (-)NCBI
UMICH_Zoey_3.1273,411,808 - 3,486,454 (-)NCBI
UNSW_CanFamBas_1.0273,398,150 - 3,473,015 (-)NCBI
UU_Cfam_GSD_1.02743,181,640 - 43,256,519 (+)NCBI
Slc4a8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494564,104,543 - 64,176,618 (-)NCBI
SpeTri2.0NW_0049365128,988,212 - 9,060,287 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC4A8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl516,842,710 - 16,977,611 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1516,842,667 - 16,921,669 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2517,478,543 - 17,580,590 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC4A8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11147,622,602 - 47,704,975 (+)NCBI
ChlSab1.1 Ensembl1147,622,640 - 47,703,215 (+)Ensembl
Vero_WHO_p1.0NW_023666037198,388,160 - 198,471,870 (-)NCBI
Slc4a8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624816714,766 - 821,340 (-)NCBI

Position Markers
D7Rat90  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,874,715 - 131,874,923 (+)MAPPERmRatBN7.2
Rnor_6.07142,407,471 - 142,407,676NCBIRnor6.0
Rnor_5.07140,211,652 - 140,211,857UniSTSRnor5.0
Celera7128,348,953 - 128,349,158UniSTS
FHH x ACI Map771.29RGD
FHH x ACI Map771.29UniSTS
Cytogenetic Map7q36UniSTS
D7Got244  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,772,507 - 131,772,677 (+)MAPPERmRatBN7.2
Rnor_6.07142,304,682 - 142,304,851NCBIRnor6.0
Rnor_5.07140,109,828 - 140,109,997UniSTSRnor5.0
RGSC_v3.47139,438,650 - 139,438,819UniSTSRGSC3.4
Celera7128,248,772 - 128,248,941UniSTS
Cytogenetic Map7q36UniSTS
BF394701  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,930,877 - 131,931,033 (+)MAPPERmRatBN7.2
Rnor_6.07142,463,985 - 142,464,140NCBIRnor6.0
Rnor_5.07140,266,800 - 140,266,955UniSTSRnor5.0
RGSC_v3.47139,575,458 - 139,575,613UniSTSRGSC3.4
Celera7128,399,160 - 128,399,315UniSTS
RH 3.4 Map71064.8UniSTS
Cytogenetic Map7q36UniSTS
BF405593  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,617,278 - 131,617,481 (+)MAPPERmRatBN7.2
Rnor_6.07142,139,338 - 142,139,540NCBIRnor6.0
Rnor_5.07139,946,809 - 139,947,011UniSTSRnor5.0
RGSC_v3.47139,254,519 - 139,254,721UniSTSRGSC3.4
Celera7128,094,509 - 128,094,711UniSTS
RH 3.4 Map71076.9UniSTS
Cytogenetic Map7q36UniSTS
RH134575  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,627,768 - 131,627,948 (+)MAPPERmRatBN7.2
Rnor_6.07142,149,828 - 142,150,007NCBIRnor6.0
Rnor_5.07139,957,299 - 139,957,478UniSTSRnor5.0
RGSC_v3.47139,265,009 - 139,265,188UniSTSRGSC3.4
Celera7128,105,001 - 128,105,180UniSTS
RH 3.4 Map71052.6UniSTS
Cytogenetic Map7q36UniSTS
RH134787  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,713,410 - 131,713,598 (+)MAPPERmRatBN7.2
Rnor_6.07142,237,446 - 142,237,633NCBIRnor6.0
Rnor_5.07140,042,101 - 140,042,288UniSTSRnor5.0
RGSC_v3.47139,360,537 - 139,360,724UniSTSRGSC3.4
Celera7128,188,645 - 128,188,832UniSTS
RH 3.4 Map71064.8UniSTS
Cytogenetic Map7q36UniSTS
RH137997  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,807,028 - 131,807,152 (+)MAPPERmRatBN7.2
Rnor_6.07142,339,756 - 142,339,879NCBIRnor6.0
Rnor_5.07140,144,580 - 140,144,703UniSTSRnor5.0
RGSC_v3.47139,473,488 - 139,473,611UniSTSRGSC3.4
Celera7128,283,066 - 128,283,189UniSTS
RH 3.4 Map71064.8UniSTS
Cytogenetic Map7q36UniSTS
RH142093  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,816,108 - 131,816,328 (+)MAPPERmRatBN7.2
Rnor_6.07142,348,836 - 142,349,055NCBIRnor6.0
Rnor_5.07140,153,660 - 140,153,879UniSTSRnor5.0
RGSC_v3.47139,482,568 - 139,482,787UniSTSRGSC3.4
Celera7128,292,146 - 128,292,365UniSTS
RH 3.4 Map71065.7UniSTS
Cytogenetic Map7q36UniSTS
AI179648  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,616,799 - 131,616,986 (+)MAPPERmRatBN7.2
Rnor_6.07142,138,859 - 142,139,045NCBIRnor6.0
Rnor_5.07139,946,330 - 139,946,516UniSTSRnor5.0
RGSC_v3.47139,254,040 - 139,254,226UniSTSRGSC3.4
Celera7128,094,030 - 128,094,216UniSTS
RH 3.4 Map71076.3UniSTS
Cytogenetic Map7q36UniSTS
BQ201011  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,801,329 - 131,801,491 (+)MAPPERmRatBN7.2
Rnor_6.07142,334,057 - 142,334,218NCBIRnor6.0
Rnor_5.07140,138,881 - 140,139,042UniSTSRnor5.0
RGSC_v3.47139,467,790 - 139,467,951UniSTSRGSC3.4
Celera7128,277,367 - 128,277,528UniSTS
RH 3.4 Map71073.7UniSTS
Cytogenetic Map7q36UniSTS
BE097103  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27131,677,734 - 131,677,913 (+)MAPPERmRatBN7.2
Rnor_6.07142,201,630 - 142,201,808NCBIRnor6.0
Rnor_5.07140,006,285 - 140,006,463UniSTSRnor5.0
RGSC_v3.47139,323,377 - 139,323,555UniSTSRGSC3.4
Celera7128,153,171 - 128,153,349UniSTS
RH 3.4 Map71065.1UniSTS
Cytogenetic Map7q36UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:102
Count of miRNA genes:49
Interacting mature miRNAs:51
Transcripts:ENSRNOT00000040890, ENSRNOT00000065379
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.


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 64 3
Low 2 20 21 5 17 5 10 35 37 11
Below cutoff 1 23 22 22 2 22 8 11 1 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000040890   ⟹   ENSRNOP00000043825
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7131,864,102 - 131,931,051 (+)Ensembl
Rnor_6.0 Ensembl7142,397,371 - 142,464,043 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000065379   ⟹   ENSRNOP00000059220
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7131,881,090 - 131,929,840 (+)Ensembl
Rnor_6.0 Ensembl7142,397,413 - 142,464,158 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094837   ⟹   ENSRNOP00000097887
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7131,864,102 - 131,881,558 (+)Ensembl
RefSeq Acc Id: NM_001270794   ⟹   NP_001257723
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,864,102 - 131,931,051 (+)NCBI
Rnor_6.07142,397,413 - 142,464,158 (+)NCBI
Rnor_5.07140,201,544 - 140,271,679 (+)NCBI
Celera7128,340,100 - 128,399,333 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270795   ⟹   NP_001257724
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,864,102 - 131,931,051 (+)NCBI
Rnor_6.07142,397,413 - 142,464,158 (+)NCBI
Rnor_5.07140,201,544 - 140,271,679 (+)NCBI
Celera7128,340,100 - 128,399,333 (+)NCBI
Sequence:
RefSeq Acc Id: NM_199497   ⟹   NP_955791
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,864,102 - 131,931,051 (+)NCBI
Rnor_6.07142,397,413 - 142,464,158 (+)NCBI
Rnor_5.07140,201,544 - 140,271,679 (+)NCBI
RGSC_v3.47139,230,085 - 139,575,631 (+)RGD
Celera7128,340,100 - 128,399,333 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594897   ⟹   XP_017450386
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,864,015 - 131,937,963 (+)NCBI
Rnor_6.07142,397,352 - 142,467,398 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017594898   ⟹   XP_017450387
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,895,368 - 131,937,963 (+)NCBI
Rnor_6.07142,428,491 - 142,467,398 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079342   ⟹   XP_038935270
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,864,012 - 131,937,963 (+)NCBI
RefSeq Acc Id: XM_039079343   ⟹   XP_038935271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27131,861,284 - 131,937,963 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_955791   ⟸   NM_199497
- Peptide Label: isoform 1
- UniProtKB: Q6RVG2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257723   ⟸   NM_001270794
- Peptide Label: isoform 2
- UniProtKB: Q6RVG2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257724   ⟸   NM_001270795
- Peptide Label: isoform 3
- UniProtKB: Q6RVG2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017450386   ⟸   XM_017594897
- Peptide Label: isoform X1
- UniProtKB: F1LUB7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017450387   ⟸   XM_017594898
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: ENSRNOP00000059220   ⟸   ENSRNOT00000065379
RefSeq Acc Id: ENSRNOP00000043825   ⟸   ENSRNOT00000040890
RefSeq Acc Id: XP_038935271   ⟸   XM_039079343
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038935270   ⟸   XM_039079342
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000097887   ⟸   ENSRNOT00000094837
Protein Domains
Band_3_cyto   HCO3_cotransp

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
Sequenced By: MCW
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)
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Sequenced By: MCW
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/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
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)
DA/OlaHsd (2019)
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Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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/NCrl (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
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
F344/Stm (2019)
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Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
FHH/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)
FHH/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
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)
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
GH/OmrMcwi (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)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
GK/Ox (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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
LE/Stm (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
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
LEW/Crl (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
LEW/NCrlBR (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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (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
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/MavRrrc (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
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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/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
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
MHS/Gib (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
MNS/Gib (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
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
MR/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
MWF/Hsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
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)
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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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)
Visual CSV TAB Printer
Sequenced By: MCW
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
SHRSP/Gcrc (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
SR/JrHsd (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WAG/RijCrl (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/Gcrc (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
WKY/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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/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
WKY/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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/NCrl (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
WKY/NHsd (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
WN/N (2020)
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Sequenced By: MCW
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
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:735164 AgrOrtholog
Ensembl Genes ENSRNOG00000028879 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000043825 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000059220 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000040890 UniProtKB/TrEMBL
  ENSRNOT00000065379 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.930.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Band3_cytoplasmic_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HCO3_transpt_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HCO3_transpt_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na/HCO3_transpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTrfase/Anion_transptr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:315311 UniProtKB/Swiss-Prot
NCBI Gene 315311 ENTREZGENE
PANTHER PTHR11453 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Band_3_cyto UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HCO3_cotransp UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc4a8 PhenoGen
PRINTS HCO3TRNSPORT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAHCO3TRSPRT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF55804 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs TIGR00834 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1LUB7 ENTREZGENE, UniProtKB/TrEMBL
  Q6RVG2 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6RVG1 UniProtKB/Swiss-Prot
  Q6RVG3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-09 Slc4a8  solute carrier family 4 member 8  Slc4a8  solute carrier family 4, sodium bicarbonate cotransporter, member 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-02-23 Slc4a8  solute carrier family 4, sodium bicarbonate cotransporter, member 8  Slc4a8  solute carrier family 4 (anion exchanger), member 8  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-08 Slc4a8  solute carrier family 4 (anion exchanger), member 8  LOC315311  Na-driven Cl-HCO3 exchanger NDCBE1-A  Symbol and Name updated 1299863 APPROVED