Human Gene SLC10A6 (uc003hqd.2) Description and Page Index
  Description: Homo sapiens solute carrier family 10 (sodium/bile acid cotransporter family), member 6 (SLC10A6), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr4:87,744,621-87,770,416 Size: 25,796 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr4:87,744,841-87,770,268 Size: 25,428 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:87,744,621-87,770,416)mRNA (may differ from genome)Protein (377 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
HGNCHPRDLynxMGIneXtProtOMIM
PubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SOAT_HUMAN
DESCRIPTION: RecName: Full=Solute carrier family 10 member 6; AltName: Full=Sodium-dependent organic anion transporter;
FUNCTION: Transports sulfoconjugated steroid hormones, as well as taurolithocholic acid-3-sulfate and sulfoconjugated pyrenes in a sodium-dependent manner.
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
TISSUE SPECIFICITY: Highly expressed in testis, placenta and pancreas. Moderately expressed in heart, lung and mammary gland. Weakly expressed in brain, colon, kidney, liver, ovary, prostate, small intestine, spleen and thymus.
PTM: Glycosylated.
SIMILARITY: Belongs to the bile acid:sodium symporter (BASS) (TC 2.A.28) family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.77 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 44.71 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -45.60148-0.308 Picture PostScript Text
3' UTR -64.00220-0.291 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR004710 - Bil_ac_transpt
IPR002657 - BilAc/Na_symport

Pfam Domains:
PF01758 - Sodium Bile acid symporter family

ModBase Predicted Comparative 3D Structure on Q3KNW5
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008508 bile acid:sodium symporter activity
GO:0015293 symporter activity
GO:0043250 sodium-dependent organic anion transmembrane transporter activity

Biological Process:
GO:0006811 ion transport
GO:0006814 sodium ion transport
GO:0015721 bile acid and bile salt transport
GO:0043251 sodium-dependent organic anion transport
GO:0055085 transmembrane transport

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  EF437223 - Homo sapiens sodium-dependent organic anion transporter (SLC10A6) mRNA, complete cds.
AJ583502 - Homo sapiens mRNA for sodium-dependent organic anion transporter (SOAT gene).
BC107051 - Homo sapiens solute carrier family 10 (sodium/bile acid cotransporter family), member 6, mRNA (cDNA clone MGC:129575 IMAGE:40004572), complete cds.
BC107052 - Homo sapiens solute carrier family 10 (sodium/bile acid cotransporter family), member 6, mRNA (cDNA clone MGC:129576 IMAGE:40004575), complete cds.
KJ900656 - Synthetic construct Homo sapiens clone ccsbBroadEn_10050 SLC10A6 gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q3KNW5 (Reactome details) participates in the following event(s):

R-HSA-433089 SOAT can transport taurolithocholate-3-sulphate
R-HSA-425366 Transport of bile salts and organic acids, metal ions and amine compounds
R-HSA-425471 Bile salt and organic anion SLC transporters
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: NM_197965, NP_932069, Q3KNW5, Q70EX7, SOAT, SOAT_HUMAN
UCSC ID: uc003hqd.2
RefSeq Accession: NM_197965
Protein: Q3KNW5 (aka SOAT_HUMAN)
CCDS: CCDS3614.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_197965.2
exon count: 6CDS single in 3' UTR: no RNA size: 1502
ORF size: 1134CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2120.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.