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SLC9B1 Gene

protein-coding   GIFtS: 38
GCID: GC04M103808

Solute Carrier Family 9, Subfamily B (NHA1, Cation Proton...

(Previous names: Na+/H+ exchanger domain containing 1, solute carrier family...)
(Previous symbol: NHEDC1)
  Search for SLC9B1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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This gene clusters with an RNA gene
Subcategory (RNA class): antisense

Quality score for the ORGUL clustered with this gene is 3

Aliases
Solute Carrier Family 9, Subfamily B (NHA1, Cation Proton Antiporter
1), Member 11 2
     NHE Domain-Containing Protein 12 3
NHEDC11 2 3 5     Na+/H+ Exchanger Domain Containing 11
Solute Carrier Family 9, Subfamily B (Cation Proton Antiporter 2), Member
11 2
     NHA12
Sodium/Hydrogen Exchanger-Like Domain-Containing Protein 12 3     Sodium/Hydrogen Exchanger 9B12
Na(+)/H(+) Exchanger-Like Domain-Containing Protein 12 3     Solute Carrier Family 9 Subfamily B Member 13

External Ids:    HGNC: 242441   Entrez Gene: 1501592   Ensembl: ENSG000001640377   OMIM: 6115275   UniProtKB: Q4ZJI43   
ORGUL members:         

Export aliases for SLC9B1 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for SLC9B1 Gene:
The protein encoded by this gene is a sodium/hydrogen exchanger and transmembrane protein. Highly conserved
orthologs of this gene have been found in other mammalian species. The expression of this gene may be limited to
testis. Multiple transcript variants encoding different isoforms have been found for this gene. (provided by
RefSeq, Jul 2010)

GeneCards Summary for SLC9B1 Gene:
SLC9B1 (solute carrier family 9, subfamily B (NHA1, cation proton antiporter 1), member 1) is a protein-coding gene. GO annotations related to this gene include solute:hydrogen antiporter activity. An important paralog of this gene is SLC9B2.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for SLC9B1
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLC9B1 promoter sequence
   Search Chromatin IP Primers for SLC9B1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLC9B1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 4q24   Ensembl cytogenetic band:  4q24   HGNC cytogenetic band: 4q24

SLC9B1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC9B1 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M103808:  view genomic region     (about GC identifiers)

Start:
103,806,205 bp from pter      End:
103,940,896 bp from pter
Size:
134,692 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SL9B1_HUMAN, Q4ZJI4 (See protein sequence)
Recommended Name: Sodium/hydrogen exchanger 9B1  
Size: 515 amino acids; 56054 Da
Sequence caution: Sequence=AAM22868.1; Type=Frameshift; Positions=219, 298, 381;
Secondary accessions: A1KXV1 B9EH04 C9JBP7 Q49A30 Q8NCV2 Q8WVZ0
Alternative splicing: 4 isoforms:  Q4ZJI4-1   Q4ZJI4-2   Q4ZJI4-3   Q4ZJI4-5   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)

Explore the universe of human proteins at neXtProt for SLC9B1: NX_Q4ZJI4

Explore proteomics data for SLC9B1 at MOPED


See SLC9B1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins (2 alternative transcripts): 
NP_001094344.1  NP_631912.2  

ENSEMBL proteins: 
 ENSP00000378269   ENSP00000426926   ENSP00000426584   ENSP00000296422   ENSP00000423072  
 ENSP00000425544   ENSP00000425913   ENSP00000426056   ENSP00000426325  
Reactome Protein details: Q4ZJI4

SLC9B1 Human Recombinant Protein Products:

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SLC9B1 Assay Products:

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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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HGNC Gene Families:
SLC: Solute carriers

1 InterPro protein domain:
 IPR006153 Cation/H_exchanger

Graphical View of Domain Structure for InterPro Entry Q4ZJI4

ProtoNet protein and cluster: Q4ZJI4

1 Blocks protein domain: IPB006153 Sodium/hydrogen exchanger

UniProtKB/Swiss-Prot: SL9B1_HUMAN, Q4ZJI4
Similarity: Belongs to the monovalent cation:proton antiporter 1 (CPA1) transporter (TC 2.A.36) family


SLC9B1 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0015299solute:hydrogen antiporter activity IEA--
     
SLC9B1 for ontologies           About GeneDecksing


Animal Models:
   inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLC9B1
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miRNA
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Inhib. RNA
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Predesigned siRNA for gene silencing in human, mouse, rat SLC9B1

Gene Editing
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In Situ Assay
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(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Subcellular locations from UniProtKB/Swiss-Prot
SL9B1_HUMAN, Q4ZJI4: Membrane; Multi-pass membrane protein (Potential)

Gene Ontology (GO): 2 cellular component terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005886plasma membrane TAS--
GO:0016021integral component of membrane IEA--

SLC9B1 for ontologies           About GeneDecksing


(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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SuperPaths for SLC9B1 About    
See pathways by source

SuperPathContained pathways About
1Ion channel transport
Ion channel transport0.58
Stimuli-sensing channels0.58
2Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds
Transmembrane transport of small molecules0.47

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways


1 Reactome Pathway for SLC9B1
    Stimuli-sensing channels



SLC9B1 for pathways           About GeneDecksing

    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SLC9B1
Interactions:

    Search GeneGlobe Interaction Network for SLC9B1

STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

2 Interacting proteins for SLC9B1 (ENSP000002964224) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
BRAPENSP000003308134STRING: ENSP00000330813
TMCO3ENSP000003893994STRING: ENSP00000389399
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Gene Ontology (GO): 3 biological process terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006812cation transport ----
GO:0034220ion transmembrane transport TAS--
GO:0055085transmembrane transport TAS--

SLC9B1 for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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Browse Small Molecules at EMD Millipore
   Browse drugs & compounds from Enzo Life Sciences
  Browse compounds at ApexBio 

Browse Tocris compounds for SLC9B1 (SL9B1)



(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for SLC9B1 gene (2 alternative transcripts): 
NM_001100874.2  NM_139173.3  

11 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000394789(uc003hwu.3 uc010ilm.3) ENST00000503584(uc003hwv.3)
ENST00000514972 ENST00000296422(uc003hww.3 uc011cev.2) ENST00000504216
ENST00000509614 ENST00000512651 ENST00000511253 ENST00000510243 ENST00000514340
ENST00000510559
miRNA
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Primer
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  QuantiTect SYBR Green Assays in human, mouse, rat SLC9B1
  QuantiFast Probe-based Assays in human, mouse, rat SLC9B1

Selected AceView cDNA sequences (see all 115):

F10816 BC009732 AA233152 BM702572 BM669493 BX454520 BX640844 BX359761 
Z40158 BX381078 AA233228 BF724499 AI239938 BI962996 AI367621 BQ286748 
BM971864 BM834042 BI914487 BF724498 BM683318 BX494716 BI560032 BX381077 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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SLC9B1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
SLC9B1 Expression
About this image

SLC9B1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SLC9B1 Protein Expression

UniProtKB/Swiss-Prot: SL9B1_HUMAN, Q4ZJI4
Tissue specificity: Expressed only in the testis

    Custom PCR Arrays for SLC9B1
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QuantiFast Probe-based Assays in human, mouse, rat SLC9B1
In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLC9B1

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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This gene was present in the common ancestor of animals.

Orthologs for SLC9B1 gene from Selected species (see all 12)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Slc9b11 , 5 Na+/H+ exchanger domain containing 15
solute carrier family 9, subfamily B (NHA1, cation more1
74.37(n)1
66.21(a)1
  3 (62.55 cM)5
744461  NM_028946.31  NP_083222.21 
 1353480295 
chicken
(Gallus gallus)
Aves --
Uncharacterized protein
50(a)
1 → many
4(60563363-60581026)
zebrafish
(Danio rerio)
Actinopterygii si:dkey-162b23.46
CU695013.36
Uncharacterized protein
42(a)
36(a)
many ↔ many
many ↔ many
1(44077553-44094640) ENSDARG00000052700
23(44186342-44188816) ENSDARG00000086087
fruit fly
(Drosophila melanogaster)
Insecta Nha16
Nha26
Na[+]/H[+] hydrogen antiporter 2
23(a)
19(a)
many ↔ many
many ↔ many
2L(6860903-6870387)
3R(18807181-18824250)
worm
(Caenorhabditis elegans)
Secernentea CELE_F57G8.51 CELE_F57G8.5 44.8(n)
30.4(a)
  180097  NM_074729.4  NP_507130.2 


ENSEMBL Gene Tree for SLC9B1 (if available)
TreeFam Gene Tree for SLC9B1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for SLC9B1 gene
SLC9B22  SLC9B1P12  
2 SIMAP similar genes for SLC9B1 using alignment to 6 protein entries:     SL9B1_HUMAN (see all proteins):
SLC9B1P1    SLC9B2

SLC9B1 for paralogs           About GeneDecksing


Selected Pseudogenes.org Pseudogenes for SLC9B1 (see all 6)
PGOHUM00000238423 PGOHUM00000238749 PGOHUM00000249074 PGOHUM00000246197 PGOHUM00000263083


(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for SLC9B1 (see all 2855)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 4 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2233141,2
C,F,A,H--103608145(+) TAGATG/ATATCT 3 -- ds500111Minor allele frequency- A:0.37NS NA WA EA 592
rs170333771,2
C,F--103608147(+) GATGTA/TTCTTA 3 -- ds50014Minor allele frequency- T:0.10NA EA 234
rs1486576781,2
C--103608364(+) GTTTT-/CTTAA 
        
CTTAT
3 -- ds50010--------
rs1128887241,2
C,F--103608416(+) CATAAC/TTCCTA 3 -- ds50012Minor allele frequency- T:0.11WA 120
rs757225311,2
C,F--103608630(+) AGTAAC/AAAAGA 3 -- ut31 nc-transcript-variant1Minor allele frequency- A:0.04WA 118
rs1491686171,2
C--103608654(+) GAAAC-/TAGACAT 6 -- ut31 nc-transcript-variant0--------
rs352822001,2
C,F--103608655(+) GAAACTA/-GACAT 3 -- ut31 nc-transcript-variant4Minor allele frequency- -:0.33NA CSA 12
rs1419873321,2
C--103608690(+) AGCACA/TGCAGA 3 -- ut31 nc-transcript-variant0--------
rs1902128741,2
C--103608710(+) ATCTAA/CATGTT 3 -- nc-transcript-variantut310--------
rs1462995281,2
C--103608734(+) GCTTCA/GGTTAT 3 -- ut31 nc-transcript-variant0--------

HapMap Linkage Disequilibrium report for SLC9B1 (103806205 - 103940896 bp)

Structural Variations
     Database of Genomic Variants (DGV) Selected variations for SLC9B1 (see all 19):    About this table    
Variant IDTypeSubtypePubMed ID
esv2678594CNV Deletion23128226
esv2178050CNV Deletion18987734
esv2728081CNV Deletion23290073
nsv436415CNV Deletion17901297
esv988357CNV Deletion20482838
esv2588063CNV Deletion19546169
esv2670006CNV Deletion23128226
esv1026728CNV Deletion17803354
nsv4445CNV Insertion18451855
nsv830021CNV Loss17160897

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing SLC9B1
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 611527    OMIM disorders: --


SLC9B1 for disorders           About GeneDecksing


Export disorders for SLC9B1 gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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PubMed articles for SLC9B1 gene integrated from 10 sources:
(articles sorted by number of sources associating them with SLC9B1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Cloning of a novel human NHEDC1 (Na+/H+ exchanger like domain containing 1) gene expressed specifically in testis. (PubMed id 16850186)1, 2, 3 Ye G.M.... Yu L. (Mol. Biol. Rep. 2006)
  2. A genome-wide short hairpin RNA screening of jurkat T-cells for human proteins contributing to productive HIV-1 replication. (PubMed id 19460752)1 Yeung M.L....Jeang K.T. (J. Biol. Chem. 2009)
  3. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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Entrez Gene: 150159 HGNC: 24244 AceView: LOC150159 Ensembl:ENSG00000164037 euGenes: HUgn150159
ECgene: SLC9B1 H-InvDB: SLC9B1

(According to HUGE)
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  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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NameDescription
PharmGKB entry for SLC9B1 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
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Patent Information for SLC9B1 gene:
Search GeneIP for patents involving SLC9B1

GeneCards and IP:
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(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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 Browse OriGene Antibodies   OriGene RNAi products in human, mouse, rat for SLC9B1  
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 Block miRNA regulation of human, mouse, rat SLC9B1 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing SLC9B1
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 Novus Tissue Slides
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 Browse ESI BIO Cell Lines and PureStem Progenitors for SLC9B1
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 Search ThermoFisher Antibodies for SLC9B1
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SLC9B1
 inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLC9B1
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Customized transgenic rodents for:
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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