Slc9a4 (solute carrier family 9 member A4) - Rat Genome Database

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Gene: Slc9a4 (solute carrier family 9 member A4) Rattus norvegicus
Analyze
Symbol: Slc9a4
Name: solute carrier family 9 member A4
RGD ID: 3721
Description: Predicted to enable potassium:proton antiporter activity and sodium:proton antiporter activity. Predicted to be involved in potassium ion transmembrane transport; regulation of intracellular pH; and sodium ion import across plasma membrane. Predicted to act upstream of or within gastric acid secretion and glandular epithelial cell development. Predicted to be located in several cellular components, including apical plasma membrane; basolateral plasma membrane; and vacuolar membrane. Predicted to be integral component of membrane. Predicted to be active in plasma membrane. Orthologous to human SLC9A4 (solute carrier family 9 member A4); INTERACTS WITH 17beta-estradiol; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: na(+)/H(+) exchanger 4; NHE-4; Nhe4; sodium/hydrogen exchanger 4; solute carrier family 9 (sodium/hydrogen exchanger) isoform 4; Solute carrier family 9 (sodium/hydrogen exchanger), isoform 4; solute carrier family 9 (sodium/hydrogen exchanger), member 4; solute carrier family 9 member 4; solute carrier family 9, member 4; solute carrier family 9, subfamily A (NHE4, cation proton antiporter 4), member 4
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
mRatBN7.2942,824,468 - 42,879,767 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl942,825,064 - 42,879,422 (+)Ensembl
Rnor_6.0947,281,821 - 47,334,755 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl947,281,961 - 47,328,839 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0946,965,557 - 47,018,293 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4939,725,135 - 39,773,368 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1939,726,548 - 39,774,782 (+)NCBI
Celera940,568,530 - 40,616,779 (+)NCBICelera
Cytogenetic Map9q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Molecular cloning of putative members of the Na/H exchanger gene family. cDNA cloning, deduced amino acid sequence, and mRNA tissue expression of the rat Na/H exchanger NHE-1 and two structurally related proteins. Orlowski J, etal., J Biol Chem 1992 May 5;267(13):9331-9.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15684419   PMID:22049213   PMID:23509787   PMID:26078707  


Genomics

Comparative Map Data
Slc9a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2942,824,468 - 42,879,767 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl942,825,064 - 42,879,422 (+)Ensembl
Rnor_6.0947,281,821 - 47,334,755 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl947,281,961 - 47,328,839 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0946,965,557 - 47,018,293 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4939,725,135 - 39,773,368 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1939,726,548 - 39,774,782 (+)NCBI
Celera940,568,530 - 40,616,779 (+)NCBICelera
Cytogenetic Map9q22NCBI
SLC9A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382102,473,226 - 102,533,972 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2102,473,226 - 102,533,972 (+)EnsemblGRCh38hg38GRCh38
GRCh372103,089,685 - 103,150,431 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362102,456,194 - 102,516,863 (+)NCBINCBI36hg18NCBI36
Celera297,290,912 - 97,351,604 (+)NCBI
Cytogenetic Map2q12.1NCBI
HuRef296,854,147 - 96,914,821 (+)NCBIHuRef
CHM1_12103,094,074 - 103,154,769 (+)NCBICHM1_1
T2T-CHM13v2.02102,932,202 - 102,992,943 (+)NCBI
Slc9a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39140,619,146 - 40,669,891 (+)NCBIGRCm39mm39
GRCm39 Ensembl140,619,241 - 40,669,885 (+)Ensembl
GRCm38140,579,986 - 40,630,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl140,580,081 - 40,630,725 (+)EnsemblGRCm38mm10GRCm38
MGSCv37140,637,072 - 40,687,576 (+)NCBIGRCm37mm9NCBIm37
MGSCv36140,524,747 - 40,574,199 (+)NCBImm8
Celera140,395,812 - 40,446,178 (+)NCBICelera
Cytogenetic Map1BNCBI
cM Map119.51NCBI
Slc9a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554707,936,532 - 7,984,777 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554707,936,677 - 7,989,946 (+)NCBIChiLan1.0ChiLan1.0
SLC9A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A103,566,298 - 103,626,975 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A103,566,128 - 103,626,975 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A99,280,738 - 99,341,618 (-)NCBIMhudiblu_PPA_v0panPan3
SLC9A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11040,492,031 - 40,560,423 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1040,492,613 - 40,560,472 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1040,413,457 - 40,486,515 (-)NCBI
ROS_Cfam_1.01041,358,013 - 41,426,831 (-)NCBI
ROS_Cfam_1.0 Ensembl1041,358,399 - 41,426,351 (-)Ensembl
UMICH_Zoey_3.11041,068,471 - 41,141,354 (-)NCBI
UNSW_CanFamBas_1.01041,349,102 - 41,422,016 (-)NCBI
UU_Cfam_GSD_1.01041,541,819 - 41,614,694 (-)NCBI
Slc9a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629289,943,031 - 89,999,402 (-)NCBI
SpeTri2.0NW_0049367131,134,059 - 1,186,145 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC9A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl351,687,642 - 51,749,636 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1351,686,001 - 51,749,996 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2354,166,243 - 54,230,077 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SLC9A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1146,136,179 - 6,197,632 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl146,137,368 - 6,195,786 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041173,819,885 - 173,879,102 (+)NCBIVero_WHO_p1.0
Slc9a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247496,972,904 - 7,024,665 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247496,972,364 - 7,025,929 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D9Rat124  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2942,864,924 - 42,865,057 (+)MAPPERmRatBN7.2
Rnor_6.0947,319,756 - 47,319,888NCBIRnor6.0
Rnor_5.0947,004,007 - 47,004,139UniSTSRnor5.0
RGSC_v3.4939,764,582 - 39,764,715RGDRGSC3.4
RGSC_v3.4939,764,583 - 39,764,715UniSTSRGSC3.4
RGSC_v3.1939,765,996 - 39,766,129RGD
Celera940,608,076 - 40,608,208UniSTS
SHRSP x BN Map937.7198UniSTS
SHRSP x BN Map937.7198RGD
Cytogenetic Map9q21UniSTS
D9Mco26  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2942,831,017 - 42,831,226 (+)MAPPERmRatBN7.2
Rnor_6.0947,287,912 - 47,288,120NCBIRnor6.0
Rnor_5.0946,972,136 - 46,972,344UniSTSRnor5.0
RGSC_v3.4939,731,087 - 39,731,295UniSTSRGSC3.4
Celera940,574,481 - 40,574,689UniSTS
Cytogenetic Map9q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
631680Cm11Cardiac mass QTL 113.10.00089heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)92043051965430519Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
631643Bp120Blood pressure QTL 12030.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)92207120067071200Rat
1598823Memor16Memory QTL 161.9exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)92213332249968732Rat
7207805Bmd88Bone mineral density QTL 884femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)92375402458157242Rat
1300180Bw14Body weight QTL 143.776body mass (VT:0001259)body weight (CMO:0000012)92375402461381613Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)92746863972468639Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93253550577535505Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93253550577535505Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)93696235977814038Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94019418885194188Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94019418885194188Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94249534379271511Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:54
Count of miRNA genes:43
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000065234
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

endocrine system hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 9
Low 1 1 34 24 8
Below cutoff 1 1 8 9 13 2 14 6 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000065234   ⟹   ENSRNOP00000059258
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl942,825,064 - 42,879,422 (+)Ensembl
Rnor_6.0 Ensembl947,281,961 - 47,328,839 (+)Ensembl
RefSeq Acc Id: NM_173098   ⟹   NP_775121
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2942,825,064 - 42,873,819 (+)NCBI
Rnor_6.0947,281,961 - 47,328,845 (+)NCBI
Rnor_5.0946,965,557 - 47,018,293 (+)NCBI
RGSC_v3.4939,725,135 - 39,773,368 (+)RGD
Celera940,568,530 - 40,616,779 (+)RGD
Sequence:
RefSeq Acc Id: XM_006244738   ⟹   XP_006244800
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2942,824,468 - 42,879,767 (+)NCBI
Rnor_6.0947,281,821 - 47,334,755 (+)NCBI
Rnor_5.0946,965,557 - 47,018,293 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_775121 (Get FASTA)   NCBI Sequence Viewer  
  XP_006244800 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41703 (Get FASTA)   NCBI Sequence Viewer  
  EDL99168 (Get FASTA)   NCBI Sequence Viewer  
  EDL99169 (Get FASTA)   NCBI Sequence Viewer  
  P26434 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_775121   ⟸   NM_173098
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_006244800   ⟸   XM_006244738
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000059258   ⟸   ENSRNOT00000065234
Protein Domains
Na_H_Exchanger   NEXCaM_BD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P26434-F1-model_v2 AlphaFold P26434 1-717 view protein structure

Transcriptome

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

Promoters
RGD ID:13696633
Promoter ID:EPDNEW_R7158
Type:single initiation site
Name:Slc9a4_1
Description:solute carrier family 9 member A4
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_6.0947,281,938 - 47,281,998EPDNEW

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)
Visual CSV TAB Printer
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
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
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)
Visual CSV TAB Printer
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
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)
Visual CSV TAB Printer
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
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)
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
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
9 47333416 47333417 G A snv CDR, WKY/N (2020), COP/CrCrl (MCW & UW), FHL/EurMcwi (MCW), SBN/Ygl (MCW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), WKY/N (MCW), F344/NCrl (RGD), FHL/EurMcwi (RGD), MHS/Gib (RGD), SBN/Ygl (RGD), SHRSP/Gcrc (RGD), WKY/NCrl (RGD), WKY/NHsd (RGD), BUF/N (2020), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF3/Stm (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), WKY/NCrl (2019), CDS


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 47016964 47016965 G A snv COP/CrCrl (MCW & UW), SDLEF7/Barth (UDEL), SBN/Ygl (MCW), MHS/Gib (KNAW), BUF/N (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHL/EurMcwi (KNAW), M520/N (KNAW), SBN/Ygl (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), FHL/EurMcwi (MCW)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 42878390 42878391 G A snv BUF/N (2020), WKY/N (2020), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF3/Stm (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), WKY/NCrl (2019), F344/DuCrl (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3721 AgrOrtholog
BioCyc Gene G2FUF-27720 BioCyc
Ensembl Genes ENSRNOG00000015306 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000059258 ENTREZGENE
  ENSRNOP00000059258.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000065234 ENTREZGENE
  ENSRNOT00000065234.3 UniProtKB/TrEMBL
InterPro Cation/H_exchanger UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cation/H_exchanger_CPA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Na/H_exchanger_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NaH_exchanger UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NHE_CaM-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NHX4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24785 UniProtKB/Swiss-Prot
NCBI Gene 24785 ENTREZGENE
PANTHER PTHR10110 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10110:SF103 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Na_H_Exchanger UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NEXCaM_BD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Slc9a4 PhenoGen
PRINTS NAHEXCHNGR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NAHEXCHNGR2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs b_cpa1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V9T3_RAT UniProtKB/TrEMBL
  P26434 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-01 Slc9a4  solute carrier family 9 member A4  Slc9a4  solute carrier family 9 member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-24 Slc9a4  solute carrier family 9 member 4  Slc9a4  solute carrier family 9, subfamily A (NHE4, cation proton antiporter 4), member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-16 Slc9a4  solute carrier family 9, subfamily A (NHE4, cation proton antiporter 4), member 4  Slc9a4  solute carrier family 9 (sodium/hydrogen exchanger), member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Slc9a4  solute carrier family 9 (sodium/hydrogen exchanger), member 4  Slc9a4  solute carrier family 9, member 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2003-04-09 Slc9a4  solute carrier family 9, member 4    Solute carrier family 9 (sodium/hydrogen exchanger), isoform 4  Name updated 629478 APPROVED
2002-06-10 Slc9a4  Solute carrier family 9 (sodium/hydrogen exchanger), isoform 4      Symbol and Name status set to approved 70586 APPROVED