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Gene: Slc9a6 (solute carrier family 9 member A6) Rattus norvegicus

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Symbol:

Slc9a6

Name:

solute carrier family 9 member A6

RGD ID:

1563582

Description:

Predicted to enable identical protein binding activity; potassium:proton antiporter activity; and sodium:proton antiporter activity. Involved in glial cell activation and regulation of synaptic vesicle lumen acidification. Is active in presynapse. Human ortholog(s) of this gene implicated in Christianson syndrome. Orthologous to human SLC9A6 (solute carrier family 9 member A6); PARTICIPATES IN angiotensin II signaling pathway via AT2 receptor; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 2-methoxyethanol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC302863; Na(+)/H(+) exchanger 6; NHE-6; RGD1563582; similar to mKIAA0267 protein; sodium/hydrogen exchanger 6; solute carrier family 9 (sodium/hydrogen exchanger), isoform 6; solute carrier family 9 (sodium/hydrogen exchanger), member 6; solute carrier family 9 member 6; solute carrier family 9, subfamily A (NHE6, cation proton antiporter 6), member 6

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SLC9A6 (solute carrier family 9 member A6)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Slc9a6 (solute carrier family 9 (sodium/hydrogen exchanger), member 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Slc9a6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SLC9A6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SLC9A6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Slc9a6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SLC9A6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SLC9A6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Slc9a6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Slc9a6 (solute carrier family 9 member A6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	PPT2 (palmitoyl-protein thioesterase 2)	HGNC	OMA
Homo sapiens (human):	PPT2-EGFL8 (PPT2-EGFL8 readthrough (NMD candidate))	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	SLC9A6 (solute carrier family 9 member A6)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Slc9a6 (solute carrier family 9 (sodium/hydrogen exchanger), member 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	slc9a6a (solute carrier family 9 member A6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	slc9a6b (solute carrier family 9 member 6b)	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	slc9a6b (solute carrier family 9 member 6b)	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	NHX1	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Nhe3	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	nhx-5	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	slc9a6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	slc9a6	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Allele / Splice:

Slc9a6 ^em1Moro

Genetic Models:

SD-Slc9a6 ^em1Moro ; SD-Slc9a6 ^em1Moro/Rrrc

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	139,468,045 - 139,524,111 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	X	139,458,127 - 139,524,109 (+)	Ensembl				GRCr8
mRatBN7.2	X	134,430,677 - 134,486,747 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	134,420,756 - 134,485,375 (+)	Ensembl				mRatBN7.2
Rnor_6.0	X	158,979,081 - 159,045,019 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	X	158,978,755 - 159,045,044 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	X	153,620,082 - 153,675,717 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	X	141,146,237 - 141,201,234 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	X	142,471,399 - 142,536,119 (+)	NCBI		Celera
Cytogenetic Map	X	q36	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

astigmatism (ISO)

autosomal recessive limb-girdle muscular dystrophy type 2A (ISO)

Christianson syndrome (ISO,ISS)

Developmental Disabilities (ISO)

genetic disease (ISO)

intellectual disability (ISO)

NEURODEGENERATIVE DISORDER, X-LINKED, FEMALE-RESTRICTED, WITH PARKINSONISM AND (ISO)

Neurodevelopmental Disorders (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,6-dinitrotoluene (EXP)

2-hydroxypropanoic acid (ISO)

2-methoxyethanol (EXP)

3,4-methylenedioxymethamphetamine (ISO)

3-iodothyronamine (ISO)

4,4'-sulfonyldiphenol (ISO)

acrolein (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

arsenous acid (ISO)

benzo[a]pyrene (EXP,ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

caffeine (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

cisplatin (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

diarsenic trioxide (ISO)

doxorubicin (ISO)

epoxiconazole (ISO)

fenvalerate (EXP)

ivermectin (ISO)

ketamine (ISO)

lead(0) (ISO)

leflunomide (ISO)

N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine (ISO)

ozone (ISO)

paracetamol (ISO)

pentachlorophenol (ISO)

pirinixic acid (ISO)

quercetin (ISO)

rac-lactic acid (ISO)

sunitinib (ISO)

tetrachloromethane (EXP)

titanium dioxide (ISO)

trichostatin A (ISO)

triphenyl phosphate (ISO)

triptonide (ISO)

zinc sulfate (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

axon extension (ISO)

brain-derived neurotrophic factor receptor signaling pathway (ISO)

dendrite extension (ISO)

dendritic spine development (ISO)

establishment of cell polarity (ISO,ISS)

glial cell activation (IMP)

monoatomic cation transport (IEA)

monoatomic ion transport (IEA)

neuron projection morphogenesis (ISO)

potassium ion transmembrane transport (IBA)

proton transmembrane transport (IEA,ISO)

regulation of intracellular pH (IBA,ISO)

regulation of neurotrophin TRK receptor signaling pathway (ISO)

regulation of pH (IEA)

regulation of postsynaptic membrane neurotransmitter receptor levels (ISO)

regulation of synaptic vesicle lumen acidification (IDA,IEP,IMP)

sodium ion import across plasma membrane (IBA)

sodium ion transmembrane transport (IEA)

sodium ion transport (IEA)

synapse organization (ISO)

transmembrane transport (IEA)

Cellular Component

axon terminus (ISO)

axonal spine (ISO)

cytoplasmic vesicle (ISO)

dendrite (ISO)

early endosome (ISO)

early endosome membrane (IEA,ISO,ISS)

endoplasmic reticulum membrane (ISO)

endosome (ISO)

endosome membrane (IEA)

glutamatergic synapse (ISO)

late endosome (ISO)

late endosome membrane (IEA,ISO,ISS)

membrane (IEA)

mitochondrion (ISO)

plasma membrane (IBA,IEA,ISO,ISS)

presynapse (IDA,IMP)

recycling endosome (IBA,ISO,ISS)

recycling endosome membrane (IEA,ISO,ISS)

Schaffer collateral - CA1 synapse (ISO)

synapse (ISO)

Molecular Function

antiporter activity (IEA)

identical protein binding (ISO)

potassium:proton antiporter activity (IBA,ISO)

protein binding (ISO)

sodium:proton antiporter activity (IBA,IEA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

angiotensin II signaling pathway via AT2 receptor (ISO)

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

abnormal lysosome physiology (IMP)

astrocytosis (IMP)

axon degeneration (IMP)

decreased cerebral cortex average cell area (IMP)

decreased locomotor activity (IMP)

decreased Purkinje cell number (IMP)

decreased vertical activity (IMP)

enlarged lateral ventricles (IMP)

impaired autophagy (IMP)

impaired coordination (IMP)

increased ganglioside level (IMP)

loss of cortex neurons (IMP)

loss of hippocampal neurons (IMP)

microgliosis (IMP)

shortened head (IMP)

small cerebellum (IMP)

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.	SCAMP5 plays a critical role in axonal trafficking and synaptic localization of NHE6 to adjust quantal size at glutamatergic synapses.	Lee U, etal., Proc Natl Acad Sci U S A. 2021 Jan 12;118(2):e2011371118. doi: 10.1073/pnas.2011371118.
3.	Early lysosome defects precede neurodegeneration with amyloid-β and tau aggregation in NHE6-null rat brain.	Lee Y, etal., Brain. 2021 Dec 20. pii: 6470622. doi: 10.1093/brain/awab467.
4.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
5.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Comprehensive gene review and curation	RGD comprehensive gene curation
8.	An ATIPical family of angiotensin II AT2 receptor-interacting proteins.	Rodrigues-Ferreira S and Nahmias C, Trends Endocrinol Metab. 2010 Nov;21(11):684-90.

Additional References at PubMed

PMID:11641397	PMID:11940519	PMID:14651853	PMID:23303939	PMID:24035762	PMID:33663553	PMID:36621975

Genomics

Comparative Map Data

Slc9a6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	139,468,045 - 139,524,111 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	X	139,458,127 - 139,524,109 (+)	Ensembl				GRCr8
mRatBN7.2	X	134,430,677 - 134,486,747 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	134,420,756 - 134,485,375 (+)	Ensembl				mRatBN7.2
Rnor_6.0	X	158,979,081 - 159,045,019 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	X	158,978,755 - 159,045,044 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	X	153,620,082 - 153,675,717 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	X	141,146,237 - 141,201,234 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	X	142,471,399 - 142,536,119 (+)	NCBI		Celera
Cytogenetic Map	X	q36	NCBI

SLC9A6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	X	135,973,837 - 136,047,269 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	X	135,973,841 - 136,047,269 (+)	Ensembl			hg38	GRCh38
GRCh37	X	135,055,996 - 135,129,428 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	X	134,895,252 - 134,957,094 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	X	134,793,146 - 134,854,812	NCBI
Celera	X	135,428,360 - 135,490,286 (+)	NCBI		Celera
Cytogenetic Map	X	q26.3	NCBI
HuRef	X	124,341,164 - 124,403,216 (+)	NCBI		HuRef
CHM1_1	X	134,978,471 - 135,040,349 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	X	134,282,570 - 134,355,980 (+)	NCBI		T2T-CHM13v2.0

Slc9a6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	X	55,654,921 - 55,709,590 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	X	55,655,117 - 55,709,590 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	X	56,609,556 - 56,664,230 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	X	56,609,757 - 56,664,230 (+)	Ensembl			mm10	GRCm38
MGSCv37	X	53,863,012 - 53,917,407 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	X	52,956,638 - 53,008,677 (+)	NCBI		MGSCv36	mm8
Celera	X	43,091,843 - 43,146,238 (+)	NCBI		Celera
Cytogenetic Map	X	A5- A6	NCBI
cM Map	X	30.06	NCBI

Slc9a6
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955489	9,019,425 - 9,078,705 (-)	Ensembl
ChiLan1.0	NW_004955489	9,020,719 - 9,078,375 (-)	NCBI	ChiLan1.0	ChiLan1.0

SLC9A6
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	X	135,398,673 - 135,460,202 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	X	135,402,314 - 135,463,798 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	X	125,099,378 - 125,171,161 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	X	135,378,091 - 135,439,781 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	X	135,378,094 - 135,439,781 (+)	Ensembl			panPan2	panpan1.1

SLC9A6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	X	106,408,789 - 106,465,504 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	X	106,398,850 - 106,463,252 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	X	92,228,868 - 92,285,695 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	X	108,385,561 - 108,442,397 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	X	108,375,657 - 108,440,140 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	X	105,522,975 - 105,586,115 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	X	107,706,620 - 107,763,439 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	X	107,355,362 - 107,412,198 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Slc9a6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	X	104,399,038 - 104,455,882 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936513	11,158,730 - 11,215,568 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936513	11,158,609 - 11,215,477 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SLC9A6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	X	111,176,495 - 111,233,099 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	X	111,176,461 - 111,233,108 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	X	127,098,575 - 127,154,902 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SLC9A6
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	X	110,997,985 - 111,060,164 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	X	110,998,281 - 111,060,252 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666065	48,664,039 - 48,725,734 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Slc9a6
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624808	11,107,125 - 11,157,913 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Slc9a6
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	X	116,540,812 - 116,597,768 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Slc9a6
248 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	45
Count of miRNA genes:	35
Interacting mature miRNAs:	45
Transcripts:	ENSRNOT00000066809
Prediction methods:	Miranda, Pita, 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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1598856	Memor1	Memory QTL 1	1.9		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	X	120028026	141353710	Rat
1598872	Memor14	Memory QTL 14	4.5		exploratory behavior trait (VT:0010471)	difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	X	97528096	142528096	Rat
1598809	Memor15	Memory QTL 15	4.4		exploratory behavior trait (VT:0010471)	difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	X	120028026	141353710	Rat
738025	Stresp3	Stress response QTL 3	4.61	0.0066	stress-related behavior trait (VT:0010451)	defensive burying - approach	X	105359969	157758123	Rat
10059603	Bw174	Body weight QTL 174	3.4	0.025	body mass (VT:0001259)	body weight (CMO:0000012)	X	118973754	157758123	Rat
2302047	Pia34	Pristane induced arthritis QTL 34	5.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	19	96916163	141916163	Rat

Markers in Region

DXRat55

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	X	134,429,057 - 134,429,259 (+)	MAPPER	mRatBN7.2
Rnor_6.0	X	158,987,252 - 158,987,453	NCBI	Rnor6.0
Rnor_5.0	X	153,618,494 - 153,618,695	UniSTS	Rnor5.0
RGSC_v3.4	X	141,144,544 - 141,144,746	RGD	RGSC3.4
RGSC_v3.4	X	141,144,545 - 141,144,746	UniSTS	RGSC3.4
Celera	X	142,479,570 - 142,479,771	UniSTS
RGSC_v3.1	X	141,217,811 - 141,218,264	RGD
FHH x ACI Map	X	39.09	UniSTS
FHH x ACI Map	X	39.09	RGD
Cytogenetic Map	X	q36	UniSTS

Genetic Models

This gene Slc9a6 is modified in the following models/strains:

SD-Slc9a6 ^em1Moro SD-Slc9a6 ^em1Moro/Rrrc

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	164	91	90	59	92	59	6	356	192	11	143	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001419592	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_001053956	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008758583	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008773665	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017588362	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017588363	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017602435	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017602436	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039100496	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_217630	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474106	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ213597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000021	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000066809 ⟹ ENSRNOP00000060014

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	X	139,468,041 - 139,524,106 (+)	Ensembl
mRatBN7.2 Ensembl	X	134,420,756 - 134,485,375 (+)	Ensembl
Rnor_6.0 Ensembl	X	158,978,755 - 159,045,044 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000122635 ⟹ ENSRNOP00000104438

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	X	139,468,039 - 139,524,102 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000157096 ⟹ ENSRNOP00000111331

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	X	139,458,127 - 139,524,109 (+)	Ensembl

RefSeq Acc Id:

NM_001419592 ⟹ NP_001406521

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	139,468,045 - 139,524,111 (+)	NCBI
mRatBN7.2	X	134,430,677 - 134,486,747 (+)	NCBI

RefSeq Acc Id:

XM_039100496 ⟹ XP_038956424

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	139,468,097 - 139,524,109 (+)	NCBI
mRatBN7.2	X	134,430,728 - 134,486,747 (+)	NCBI

RefSeq Acc Id:

XM_217630 ⟹ XP_217630

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	139,468,097 - 139,524,109 (+)	NCBI
mRatBN7.2	X	134,430,728 - 134,486,747 (+)	NCBI
Rnor_6.0	X	158,988,928 - 159,045,019 (+)	NCBI
Rnor_5.0	X	153,620,082 - 153,675,717 (+)	NCBI
RGSC_v3.4	X	141,146,237 - 141,201,234 (+)	RGD

Sequence:

show sequence

GGGTGGGGGGGAAGACATGGCTGTGGCTCGGCGCGGCTGGCGGCTGGCGCCCGTTCGCCGTGGC
GTCTGCGGGCCCCGGGCGCGTCTGCTTATGCGGCCCCTCTGGTTGCTCTTCGCAGTGAGCTTCT
TTGGCTGGGCCGGGGCTCTGGACAGCTCTGGGGGAACGACCAGAGCCATGGACGAGGAGATCGT
GTCCGAGAAGCAGGCGGAGGAGAGCCATCGGCAGGACAGCGCCAACCTGCTCATCTTCATCCTG
CTGCTCACCCTCACCATTCTGACGATCTGGCTTTTCAAGCACCGCCGGGCCCGCTTCCTGCACG
AAACCGGCCTTGCTATGATTTATGGTCTTTTGGTTGGCCTTGTGCTTCGGTATGGCATCCATGT
CCCGAGCGATGTGAACAATGTGACCTTGAGCTGTGAAGTGCAGTCAAGTCCGACTACCTTGCTG
GTGAACGTCAGTGGGAAGTTTTATGAGTATACGCTGAAAGGAGAGATTAGTTCCCACGAACTCA
ACAATGTTCAGGATAACGAGATGCTCAGGAAGGTTACTTTTGATCCAGAAGTCTTTTTCAACAT
ACTGCTTCCTCCTATCATATTTTATGCAGGCTACAGTCTCAAAAGGAGACATTTCTTCCGGAAC
CTTGGGTCTATCTTAGCATATGCCTTTCTCGGAACAGCAATCTCTTGTTTCGTTATTGGGTCCA
TAATGTACGGCTGTGTAACCCTGATGAAGGTGACTGGGCAACTCGCGGGAGATTTCTACTTTAC
AGACTGCTTGCTGTTCGGTGCCATTGTATCAGCCACAGACCCAGTGACTGTTCTTGCCATCTTC
CATGAACTTCAAGTTGATGTTGAACTCTACGCTCTTCTCTTCGGGGAAAGTGTCCTCAATGATG
CAGTTGCCATAGTGCTGTCCTCCTCAATAGTGGCGTACCAGCCAGCTGGAGACAACAGCCACAC
CTTTGATGTTACAGCCATGTTCAAATCTATTGGAATTTTCCTTGGGATCTTCAGTGGATCTTTT
GCAATGGGTGCTGCAACAGGAGTGGTGACAGCTTTAGTGACAAAGTTCACAAAGCTGCGGGAGT
TCCAGCTGTTGGAGACAGGTCTGTTCTTCTTGATGTCCTGGAGCACCTTCCTTTTGGCCGAAGC
ATGGGGTTTTACAGGTGTGGTTGCAGTATTGTTCTGTGGCATCACACAAGCACATTACACGTAC
AATAATTTGTCTACGGAATCTCAGCATAGAACGAAGCAGTTGTTTGAGCTTCTCAATTTTTTAG
CGGAGAACTTCATCTTTTCCTACATGGGGCTGACGCTGTTCACCTTCCAGAATCATGTCTTTAA
CCCAACATTTGTTGTAGGCGCATTCATCGCTATTTTCTTGGGAAGAGCTGCCAATATTTACCCC
TTGTCTCTCTTACTTAATTTGGGTAGAAGAAGTAAGATTGGATCAAATTTTCAACATATGATGA
TGTTTGCTGGTCTCCGTGGTGCAATGGCATTTGCCTTGGCCATTCGAGATACCGCCACTTACGC
CCGGCAAATGATGTTCAGCACTACACTCCTGATCGTGTTCTTTACTGTGTGGGTGTTTGGTGGA
GGTACCACTGCCATGCTGTCGTGCCTGCACATAAGGGTTGGTGTTGATTCAGACCAAGAACATT
TGGGTGTTCCTGACAACGAAAGGAGAACCACCAAAGCAGAGAGTGCCTGGCTCTTTCGGATGTG
GTACAACTTCGATCATAACTACCTGAAGCCCCTGCTGACCCACAGTGGGCCTCCTCTGACCACC
ACGCTCCCAGCCTGCTGCGGGCCAATTGCCAGGTGCCTGACCAGCCCCCAGGCGTACGAAAACC
AGGAGCAGTTGAAAGATGATGACTCCGATCTCATTCTCAATGATGGTGATATCAGTTTGACGTA
TGGGGATTCTACTGTGAACACAGAGTCCGCAACAGCCAGCGCCCCAAGGAGATTTATGGGCACC
AGTACTGAAGATGCCTTGGATCGGGAGCTTACATTTGGGGACCACGAACTGGTCATTCGTGGGA
CACGCCTGGTTCTTCCGATGGATGATTCTGAACCTGCATTAAATTCATTAGATGACACAAGACA
CAGTCCAGCCTAAGCGTTCTGATACTCAGTTAGTGGTTTGTAAACTTTGCACATGTGATTGTGA
AGAAATGTGTACTACCTACAAGTCCTAGTGCATGTCTCTGAATGTGTAAGCTATATAAATGCCG
TTTATATGGCATAGGAAGAATATAAATACCCTGTACAAGGCAGATTGTGAAAAAACTGTTCTCT
TAAGTTTTGCTGGCTGTATTACATTGGCCAGATGTGTTTTAGAAACTTTCTTTCACAGTGATGT
TGTGTTTTCTGTTAGTTTTATGTTTCAGTTAAAGTATAAAAAGTGACGGATTGCCCCTTTCTTA
TATTTATCTGAGTACCAAGTTCTTGTGATGTGAGTTAATTTGTGTGTGGCAGGGAAGGGGAGGG
AAGGGGGAGCTGTTGTTCCCTCGGGAACCCAGGGAGGAGAGGTTCCTTTGTTGGAAAAACTTTT
GTTGATTGCTGCTGCCTTTGTCGTGACTTTTTCTTTCCCTTTTCTCTGGTGGCCCTTTGTGGTG
CAAGGAGCTGATGGCATTTTGATCTCACCCCATTCAGGTTGGGGACTGAAGTGGGGGGGCCGTT
TTTCCCCCATTGATGTGAAAGAACAGATTTCTTGACTACAGTACATTGATGCTCTGAGAAAGTA
GGCTACAAATGACCTCCAAGACCTTATTTCTTTCCTTTCACACCAAGACCATAGGAATTGCATC
CAGCTGGCTCAGCCAAAGAACAGGTGTATATCATTCAGGGCACTTGTTACAGATTTGGGGGCGC
TGGAGCAAGTGGACATGGGGCATAGGATGGGGGTGTTGGAGGTCTTTCTTCCCAAATATGTAAA
TATCTATACCAGATAAGTGAAATAGGAAAAGTAACTGCTGCTTCATTTTGGATTATGTTCTTTG
TGTGGACAGCCAGCCTTGACATCCCAAGTTTTTTATATCAACGCAAATCGCTGCTCTTTAGCAG
CCAAACAGGAGCAAAATGTAAAATTTTTAAACTCATTATGTTTAGTGGTCACTTGTGAGTTGCT
AGTTGATGTTAAAAGTTAATTTATGAACCCACAATTGTTCTGTACTACACCAGAGGCAGCCCGA
AGGGGAATGCAGTGCTCTGCAGTGTCTTTGAAGGGGTTCTCTTGGTGTGGAGTGGGTGTGCTTG
TCTCCATTGTCCTGTTACCTAAGCCGCCGTGTGTCATTTTCTGATGGTTTTTTGAGGAAGAGCA
CAGAACAAATTTTCATTTCATATTCATAGTATGAAAGTGGTTTCTACTGTGTAATGCTGCAAAT
ACCCAAAGGTACATTGAACACCTGGAAGGGGATACTTTTTGATGCTGATTCTGACCTGTTCCTG
ATTCAGGAGAAAAAAGTACAAATGTGTATTTTTCTCCCTCAGGTCCCAGTAGCATTGCCTTAAA
TCTAACCCGATTAGAAACTTGATTACTTATGTGATGTTCAAATTTTCCACTGGGAAGAAACCTT
CCAAACTAAAGATGCACTTACTCTCAAAAGGGTTCTGTGCCATTGCCAACACTCCTTGAAATTT
TAAAGGAATTCTCATGGTGTACCCTTCGTGGCAGCCTTGACTTTTGGCATAGCCATTTGTTATG
TAGTGGTAGTGACTTTCCTGCTATGCAGGAACTCCGCCTGTGAAGTGTACGTTTTATATGATGC
GTGGCTCTTCATGCAGTAAATAATTTCTTGTTAATGTATGTTTGAGGGGTTTTGAATGTCAGCA
TCATTGACCCACAAAATCATTCAAGTTGTAAAAGGGTATCCAGTGATTTAACTACTATCTTTTT
TCATTCTGTCAGGTTACTGAGCTCACATTATGAAAATGGCTATAAATACTTAGCATGACAAATT
CTGTAACCTGTCTCTTTTTAGCATGCATAAGATTGCTCATTAAGGAAACTGATAACGCTTGAGT
CCACTAAATCTGCCTTCAGTACTTTATCAAAGGAGAACGAAGCTGGTTGTACTTATGTATTCAT
CTGGAAGACTTTTTCCCCTCTCTTGTCTGTGTACAACATCCCCATGCAAAGAGAAAAGCACCTC
TGTTGAGACAGTCATTAGGATTAAGCGCCTCGATGAGCTTTGATGAAGTACAGTGAGTTACAAT
CGTGCATGAGTGAACTGCTCGTGGACCTGTGTTTCTGTTGTTCGTGGAACCTACATGTTTGATT
GACTTGAACATTGCATCTCTCAGAGTTGTTTTTTTAAGATCTCCTGGCATTTATCCTAGTCTGT
GTTTGGCAGCGTGCTGTTAAAGTACTAGACTTCTAATCTTTGTGTGCTTTTTCTTTTCCCTTGG
AGTACTTGGAAAGATGTTATAGTGGTTTCTTTTAGGAAAATCTGTCATTAAAAAAATTATAGCC
TTGCAAATAACCATTCA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001406521	(Get FASTA)	NCBI Sequence Viewer
	XP_038956424	(Get FASTA)	NCBI Sequence Viewer
	XP_217630	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	D3ZJ86	(Get FASTA)	NCBI Sequence Viewer
	EDL75145	(Get FASTA)	NCBI Sequence Viewer
	EDL75146	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000060014
	ENSRNOP00000060014.3
	ENSRNOP00000104438

RefSeq Acc Id:	XP_217630 ⟸ XM_217630
- Peptide Label:	isoform X1
- UniProtKB:	A6KSN8 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAVARRGWRLAPVRRGVCGPRARLLMRPLWLLFAVSFFGWAGALDSSGGTTRAMDEEIVSEKQA EESHRQDSANLLIFILLLTLTILTIWLFKHRRARFLHETGLAMIYGLLVGLVLRYGIHVPSDVN NVTLSCEVQSSPTTLLVNVSGKFYEYTLKGEISSHELNNVQDNEMLRKVTFDPEVFFNILLPPI IFYAGYSLKRRHFFRNLGSILAYAFLGTAISCFVIGSIMYGCVTLMKVTGQLAGDFYFTDCLLF GAIVSATDPVTVLAIFHELQVDVELYALLFGESVLNDAVAIVLSSSIVAYQPAGDNSHTFDVTA MFKSIGIFLGIFSGSFAMGAATGVVTALVTKFTKLREFQLLETGLFFLMSWSTFLLAEAWGFTG VVAVLFCGITQAHYTYNNLSTESQHRTKQLFELLNFLAENFIFSYMGLTLFTFQNHVFNPTFVV GAFIAIFLGRAANIYPLSLLLNLGRRSKIGSNFQHMMMFAGLRGAMAFALAIRDTATYARQMMF STTLLIVFFTVWVFGGGTTAMLSCLHIRVGVDSDQEHLGVPDNERRTTKAESAWLFRMWYNFDH NYLKPLLTHSGPPLTTTLPACCGPIARCLTSPQAYENQEQLKDDDSDLILNDGDISLTYGDSTV NTESATASAPRRFMGTSTEDALDRELTFGDHELVIRGTRLVLPMDDSEPALNSLDDTRHSPA hide sequence

Ensembl Acc Id:

ENSRNOP00000060014 ⟸ ENSRNOT00000066809

RefSeq Acc Id:	XP_038956424 ⟸ XM_039100496
- Peptide Label:	isoform X2
- UniProtKB:	A6KSN8 (UniProtKB/TrEMBL)

RefSeq Acc Id:	NP_001406521 ⟸ NM_001419592
- UniProtKB:	A6KSN8 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000104438 ⟸ ENSRNOT00000122635

Ensembl Acc Id:

ENSRNOP00000111331 ⟸ ENSRNOT00000157096

Protein Domains

Cation/H+ exchanger transmembrane

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZJ86-F1-model_v2	AlphaFold	D3ZJ86	1-721	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1563582	AgrOrtholog
BioCyc Gene	G2FUF-919	BioCyc
Ensembl Genes	ENSRNOG00000000879	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000066809	ENTREZGENE
	ENSRNOT00000066809.4	UniProtKB/Swiss-Prot
	ENSRNOT00000122635	ENTREZGENE
Gene3D-CATH	6.10.140.1330	UniProtKB/Swiss-Prot
InterPro	Cation/H_exchanger	UniProtKB/Swiss-Prot
	Cation/H_exchanger_CPA1	UniProtKB/Swiss-Prot
	NaH_exchanger	UniProtKB/Swiss-Prot
	NHE-6/7/9	UniProtKB/Swiss-Prot
NCBI Gene	302863	ENTREZGENE
PANTHER	SODIUM/HYDROGEN EXCHANGER	UniProtKB/Swiss-Prot
	SODIUM/HYDROGEN EXCHANGER 6	UniProtKB/Swiss-Prot
Pfam	Na_H_Exchanger	UniProtKB/Swiss-Prot
PhenoGen	Slc9a6	PhenoGen
PRINTS	NAHEXCHNGR	UniProtKB/Swiss-Prot
	NAHEXCHNGR6	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000000879	RatGTEx
UniProt	A0ABK0LIC1_RAT	UniProtKB/TrEMBL
	A6KSN8	ENTREZGENE, UniProtKB/TrEMBL
	D3ZJ86	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-01	Slc9a6	solute carrier family 9 member A6	Slc9a6	solute carrier family 9, subfamily A (NHE6, cation proton antiporter 6), member 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-10-16	Slc9a6	solute carrier family 9, subfamily A (NHE6, cation proton antiporter 6), member 6	Slc9a6	solute carrier family 9 (sodium/hydrogen exchanger), member 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-05-02	Slc9a6	solute carrier family 9 (sodium/hydrogen exchanger), member 6	Slc9a6	solute carrier family 9 (sodium/hydrogen exchanger), isoform 6	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-07	Slc9a6	solute carrier family 9 (sodium/hydrogen exchanger), isoform 6	Slc9a6_predicted	solute carrier family 9 (sodium/hydrogen exchanger), member 6 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Slc9a6_predicted	solute carrier family 9 (sodium/hydrogen exchanger), member 6 (predicted)	RGD1563582_predicted	similar to mKIAA0267 protein (predicted)	Symbol and Name updated	1299863	APPROVED
2006-03-07	RGD1563582_predicted	similar to mKIAA0267 protein (predicted)	LOC302863	similar to mKIAA0267 protein	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC302863	similar to mKIAA0267 protein			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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