SLC9A6 (solute carrier family 9 member A6) - Rat Genome Database

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Gene: SLC9A6 (solute carrier family 9 member A6) Canis lupus familiaris
Analyze
Symbol: SLC9A6
Name: solute carrier family 9 member A6
RGD ID: 12280422
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN axon extension (ortholog); brain-derived neurotrophic factor receptor signaling pathway (ortholog); dendrite extension (ortholog); PARTICIPATES IN angiotensin II signaling pathway via AT2 receptor; ASSOCIATED WITH astigmatism (ortholog); autistic disorder (ortholog); Christianson syndrome (ortholog); FOUND IN early endosome membrane (ortholog); endoplasmic reticulum membrane (ortholog); glutamatergic synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sodium/hydrogen exchanger 6; solute carrier family 9 (sodium/hydrogen exchanger), member 6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X106,408,789 - 106,465,504 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX106,398,850 - 106,463,252 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX92,228,868 - 92,285,695 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X108,385,561 - 108,442,397 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX108,375,657 - 108,440,140 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X105,522,975 - 105,586,115 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X107,706,620 - 107,763,439 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X107,355,362 - 107,412,198 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SLC9A6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X106,408,789 - 106,465,504 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX106,398,850 - 106,463,252 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX92,228,868 - 92,285,695 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X108,385,561 - 108,442,397 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX108,375,657 - 108,440,140 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X105,522,975 - 105,586,115 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X107,706,620 - 107,763,439 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X107,355,362 - 107,412,198 (+)NCBIUU_Cfam_GSD_1.0
SLC9A6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X135,973,837 - 136,047,269 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX135,973,841 - 136,047,269 (+)EnsemblGRCh38hg38GRCh38
GRCh37X135,055,996 - 135,129,428 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X134,895,252 - 134,957,094 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X134,793,146 - 134,854,812NCBI
CeleraX135,428,360 - 135,490,286 (+)NCBICelera
Cytogenetic MapXq26.3NCBI
HuRefX124,341,164 - 124,403,216 (+)NCBIHuRef
CHM1_1X134,978,471 - 135,040,349 (+)NCBICHM1_1
T2T-CHM13v2.0X134,282,570 - 134,355,980 (+)NCBIT2T-CHM13v2.0
Slc9a6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X55,654,921 - 55,709,590 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX55,655,117 - 55,709,590 (+)EnsemblGRCm39 Ensembl
GRCm38X56,609,556 - 56,664,230 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX56,609,757 - 56,664,230 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X53,863,012 - 53,917,407 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X52,956,638 - 53,008,677 (+)NCBIMGSCv36mm8
CeleraX43,091,843 - 43,146,238 (+)NCBICelera
Cytogenetic MapXA5- A6NCBI
cM MapX30.06NCBI
Slc9a6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X139,468,045 - 139,524,111 (+)NCBIGRCr8
mRatBN7.2X134,430,677 - 134,486,747 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX134,420,756 - 134,485,375 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X158,979,081 - 159,045,019 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX158,978,755 - 159,045,044 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X153,620,082 - 153,675,717 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X141,146,237 - 141,201,234 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX142,471,399 - 142,536,119 (+)NCBICelera
Cytogenetic MapXq36NCBI
Slc9a6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554899,019,425 - 9,078,705 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554899,020,719 - 9,078,375 (-)NCBIChiLan1.0ChiLan1.0
SLC9A6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X135,398,673 - 135,460,202 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X135,402,314 - 135,463,798 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X125,099,378 - 125,171,161 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X135,378,091 - 135,439,781 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX135,378,094 - 135,439,781 (+)Ensemblpanpan1.1panPan2
Slc9a6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X104,399,038 - 104,455,882 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651311,158,730 - 11,215,568 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651311,158,609 - 11,215,477 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC9A6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX111,176,495 - 111,233,099 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X111,176,461 - 111,233,108 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X127,098,575 - 127,154,902 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC9A6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X110,997,985 - 111,060,164 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX110,998,281 - 111,060,252 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606548,664,039 - 48,725,734 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc9a6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480811,107,125 - 11,157,913 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SLC9A6
334 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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 1 11 12 8 6
Low 4 5 11 6 6 6 6 6 8 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_014111746 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038450958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038450959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038450961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038464658 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038464659 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038524428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038524429 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038524430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038588401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038588402 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038588403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038652923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038652924 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038652925 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000146 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000398 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000175 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000039 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000030043   ⟹   ENSCAFP00000027920
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 EnsemblX106,398,850 - 106,463,252 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000044273   ⟹   ENSCAFP00000036480
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 EnsemblX106,398,850 - 106,463,252 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845047478   ⟹   ENSCAFP00845037252
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 EnsemblX108,375,657 - 108,440,140 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845047544   ⟹   ENSCAFP00845037305
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 EnsemblX108,375,657 - 108,440,140 (+)Ensembl
RefSeq Acc Id: XM_014111746   ⟹   XP_013967221
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1X106,408,789 - 106,465,504 (+)NCBI
Dog10K_Boxer_TashaX92,228,978 - 92,285,695 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038450958   ⟹   XP_038306886
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0X108,385,671 - 108,442,397 (+)NCBI
RefSeq Acc Id: XM_038450959   ⟹   XP_038306887
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0X108,385,671 - 108,442,397 (+)NCBI
RefSeq Acc Id: XM_038450961   ⟹   XP_038306889
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0X108,385,561 - 108,442,397 (+)NCBI
RefSeq Acc Id: XM_038464658   ⟹   XP_038320586
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_TashaX92,228,978 - 92,285,695 (+)NCBI
RefSeq Acc Id: XM_038464659   ⟹   XP_038320587
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_TashaX92,228,868 - 92,285,695 (+)NCBI
RefSeq Acc Id: XM_038524428   ⟹   XP_038380356
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1X105,523,085 - 105,586,115 (+)NCBI
RefSeq Acc Id: XM_038524429   ⟹   XP_038380357
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1X105,523,085 - 105,586,115 (+)NCBI
RefSeq Acc Id: XM_038524430   ⟹   XP_038380358
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1X105,522,975 - 105,586,115 (+)NCBI
RefSeq Acc Id: XM_038588401   ⟹   XP_038444329
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0X107,355,472 - 107,412,198 (+)NCBI
RefSeq Acc Id: XM_038588402   ⟹   XP_038444330
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0X107,355,472 - 107,412,198 (+)NCBI
RefSeq Acc Id: XM_038588403   ⟹   XP_038444331
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0X107,355,362 - 107,412,198 (+)NCBI
RefSeq Acc Id: XM_038652923   ⟹   XP_038508851
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0X107,706,730 - 107,763,439 (+)NCBI
RefSeq Acc Id: XM_038652924   ⟹   XP_038508852
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0X107,706,730 - 107,763,439 (+)NCBI
RefSeq Acc Id: XM_038652925   ⟹   XP_038508853
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0X107,706,620 - 107,763,439 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_013967221   ⟸   XM_014111746
- Peptide Label: isoform X1
- UniProtKB: A0A8C0LH11 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000036480   ⟸   ENSCAFT00000044273
RefSeq Acc Id: ENSCAFP00000027920   ⟸   ENSCAFT00000030043
RefSeq Acc Id: XP_038380358   ⟸   XM_038524430
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038380356   ⟸   XM_038524428
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038380357   ⟸   XM_038524429
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038508853   ⟸   XM_038652925
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038508851   ⟸   XM_038652923
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038508852   ⟸   XM_038652924
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038306889   ⟸   XM_038450961
- Peptide Label: isoform X3
- UniProtKB: A0A8C0TNQ8 (UniProtKB/TrEMBL),   A0A8I3QCG5 (UniProtKB/TrEMBL),   A0A8C0LPP7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038306886   ⟸   XM_038450958
- Peptide Label: isoform X1
- UniProtKB: A0A8C0LH11 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038306887   ⟸   XM_038450959
- Peptide Label: isoform X2
- UniProtKB: A0A8C0LH11 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038320587   ⟸   XM_038464659
- Peptide Label: isoform X3
- UniProtKB: A0A8C0TNQ8 (UniProtKB/TrEMBL),   A0A8I3QCG5 (UniProtKB/TrEMBL),   A0A8C0LPP7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038320586   ⟸   XM_038464658
- Peptide Label: isoform X2
- UniProtKB: A0A8C0LH11 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038444331   ⟸   XM_038588403
- Peptide Label: isoform X3
- UniProtKB: A0A8C0LPP7 (UniProtKB/TrEMBL),   A0A8C0TNQ8 (UniProtKB/TrEMBL),   A0A8I3QCG5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038444329   ⟸   XM_038588401
- Peptide Label: isoform X1
- UniProtKB: A0A8C0LH11 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038444330   ⟸   XM_038588402
- Peptide Label: isoform X2
- UniProtKB: A0A8C0LH11 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845037305   ⟸   ENSCAFT00845047544
RefSeq Acc Id: ENSCAFP00845037252   ⟸   ENSCAFT00845047478
Protein Domains
Cation/H+ exchanger

Promoters
RGD ID:13689441
Promoter ID:EPDNEW_C7508
Type:single initiation site
Name:SLC9A6_1
Description:solute carrier family 9 member A6
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1X106,408,789 - 106,408,849EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000018927 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00040023861 UniProtKB/TrEMBL
  ENSCAFG00845026808 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000030043.6 UniProtKB/TrEMBL
  ENSCAFT00000044273.3 UniProtKB/TrEMBL
  ENSCAFT00040044604.1 UniProtKB/TrEMBL
  ENSCAFT00040044618.1 UniProtKB/TrEMBL
  ENSCAFT00845047478 ENTREZGENE
  ENSCAFT00845047478.1 UniProtKB/TrEMBL
  ENSCAFT00845047544 ENTREZGENE
  ENSCAFT00845047544.1 UniProtKB/TrEMBL
Gene3D-CATH 6.10.140.1330 UniProtKB/TrEMBL
InterPro Cation/H_exchanger UniProtKB/TrEMBL
  Cation/H_exchanger_CPA1 UniProtKB/TrEMBL
  NaH_exchanger UniProtKB/TrEMBL
  NHE-6/7/9 UniProtKB/TrEMBL
NCBI Gene SLC9A6 ENTREZGENE
PANTHER PTHR10110 UniProtKB/TrEMBL
  SODIUM/HYDROGEN EXCHANGER 6 UniProtKB/TrEMBL
Pfam Na_H_Exchanger UniProtKB/TrEMBL
PRINTS NAHEXCHNGR UniProtKB/TrEMBL
  NAHEXCHNGR6 UniProtKB/TrEMBL
UniProt A0A8C0LH11 ENTREZGENE
  A0A8C0LPP7 ENTREZGENE
  A0A8C0TNQ8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0TS98_CANLF UniProtKB/TrEMBL
  A0A8I3PR48_CANLF UniProtKB/TrEMBL
  A0A8I3QCG5 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:46488 ENTREZGENE