SLC9A4 (solute carrier family 9 member A4) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: SLC9A4 (solute carrier family 9 member A4) Sus scrofa
Analyze
Symbol: SLC9A4
Name: solute carrier family 9 member A4
RGD ID: 14025394
Description: ENCODES a protein that exhibits antiporter activity (inferred); potassium:proton antiporter activity (inferred); sodium:proton antiporter activity (inferred); INVOLVED IN gastric acid secretion (ortholog); glandular epithelial cell development (ortholog); ASSOCIATED WITH Acidoses (ortholog); aortic dissection (ortholog); genetic disease (ortholog); FOUND IN basolateral plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Na+/H+ exchanger; NHE4; sodium/hydrogen exchanger 4; solute carrier family 9 (sodium/hydrogen exchanger), member 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382102,473,226 - 102,533,972 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2102,473,226 - 102,533,972 (+)EnsemblGRCh38hg38GRCh38
GRCh372103,089,685 - 103,150,431 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362102,456,194 - 102,516,863 (+)NCBINCBI36Build 36hg18NCBI36
Celera297,290,912 - 97,351,604 (+)NCBICelera
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 (+)NCBIT2T-CHM13v2.0
Slc9a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39140,619,146 - 40,670,188 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl140,619,241 - 40,669,885 (+)EnsemblGRCm39 Ensembl
GRCm38140,579,986 - 40,630,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl140,580,081 - 40,630,725 (+)EnsemblGRCm38mm10GRCm38
MGSCv37140,637,072 - 40,687,576 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36140,524,747 - 40,574,199 (+)NCBIMGSCv36mm8
Celera140,395,812 - 40,446,178 (+)NCBICelera
Cytogenetic Map1BNCBI
cM Map119.51NCBI
Slc9a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8950,320,948 - 50,375,336 (+)NCBIGRCr8
mRatBN7.2942,825,334 - 42,879,729 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl942,825,064 - 42,879,422 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx951,327,359 - 51,376,047 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0956,450,043 - 56,498,733 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0954,725,727 - 54,774,484 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1939,726,548 - 39,774,782 (+)NCBI
Celera940,568,530 - 40,616,779 (+)NCBICelera
Cytogenetic Map9q22NCBI
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
NHGRI_mPanPan1-v21225,165,483 - 25,228,594 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A25,168,248 - 25,231,359 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A99,280,738 - 99,341,618 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A103,566,298 - 103,626,975 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A103,566,128 - 103,626,975 (+)Ensemblpanpan1.1panPan2
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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01041,358,013 - 41,426,831 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1041,358,399 - 41,426,351 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11041,068,471 - 41,141,354 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01041,349,102 - 41,422,016 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01041,541,819 - 41,614,694 (-)NCBIUU_Cfam_GSD_1.0
Slc9a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629289,943,031 - 89,999,402 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367131,134,059 - 1,186,145 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367131,134,059 - 1,186,145 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC9A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1146,136,179 - 6,197,632 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl146,137,368 - 6,195,786 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041173,819,885 - 173,879,102 (+)NCBIVero_WHO_p1.0Vero_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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247496,972,364 - 7,025,929 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SLC9A4
2458 total Variants

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

hemolymphoid system nervous system renal system reproductive system respiratory system
High
Medium
Low 1 1 1 1
Below cutoff 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000008932   ⟹   ENSSSCP00000008706
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl351,687,642 - 51,749,636 (-)Ensembl
RefSeq Acc Id: XM_003354711   ⟹   XP_003354759
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1351,686,001 - 51,749,996 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003354759 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAD26544 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000008706
  ENSSSCP00000008706.3
  ENSSSCP00065049452.1
Reference Protein Sequences
RefSeq Acc Id: XP_003354759   ⟸   XM_003354711
- UniProtKB: F1STH4 (UniProtKB/TrEMBL),   A0A8D2CJP3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000008706   ⟸   ENSSSCT00000008932
Protein Domains
Cation/H+ exchanger   Sodium/hydrogen exchanger regulatory region


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000008155 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00065079087 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000008932 ENTREZGENE
  ENSSSCT00000008932.5 UniProtKB/TrEMBL
  ENSSSCT00065109901.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.1330 UniProtKB/TrEMBL
  6.10.250.1040 UniProtKB/TrEMBL
  6.10.250.2020 UniProtKB/TrEMBL
InterPro Cation/H_exchanger UniProtKB/TrEMBL
  Cation/H_exchanger_CPA1 UniProtKB/TrEMBL
  Na/H_exchanger_2 UniProtKB/TrEMBL
  NaH_exchanger UniProtKB/TrEMBL
  NHE_CaM-bd UniProtKB/TrEMBL
NCBI Gene SLC9A4 ENTREZGENE
PANTHER PTHR10110 UniProtKB/TrEMBL
  PTHR10110:SF103 UniProtKB/TrEMBL
Pfam Na_H_Exchanger UniProtKB/TrEMBL
  NEXCaM_BD UniProtKB/TrEMBL
PRINTS NAHEXCHNGR UniProtKB/TrEMBL
  NAHEXCHNGR2 UniProtKB/TrEMBL
UniProt A0A8D2CJP3 ENTREZGENE, UniProtKB/TrEMBL
  F1STH4 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:93186 ENTREZGENE