Human Gene SLCO2B1 (uc001owd.3)
  Description: Homo sapiens solute carrier organic anion transporter family, member 2B1 (SLCO2B1), transcript variant 2, mRNA.
RefSeq Summary (NM_001145211): This locus encodes a member of the organic anion-transporting polypeptide family of membrane proteins. The protein encoded by this locus may function in regulation of placental uptake of sulfated steroids. Alternatively spliced transcript variants have been described. [provided by RefSeq, Nov 2010].
Transcript (Including UTRs)
   Position: hg19 chr11:74,870,844-74,917,445 Size: 46,602 Total Exon Count: 14 Strand: +
Coding Region
   Position: hg19 chr11:74,873,750-74,915,625 Size: 41,876 Coding Exon Count: 13 

Page IndexSequence and LinksPrimersGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:74,870,844-74,917,445)mRNA (may differ from genome)Protein (687 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
TreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): SLCO2B1
CDC HuGE Published Literature: SLCO2B1

-  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: 56.21 RPKM in Liver
Total median expression: 532.27 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -57.20156-0.367 Picture PostScript Text
3' UTR -691.361820-0.380 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
IPR016196 - MFS_dom_general_subst_transpt
IPR004156 - OA_transporter

Pfam Domains:
PF03137 - Organic Anion Transporter Polypeptide (OATP) family
PF07648 - Kazal-type serine protease inhibitor domain
PF07690 - Major Facilitator Superfamily

SCOP Domains:
103473 - MFS general substrate transporter
100895 - Kazal-type serine protease inhibitors

ModBase Predicted Comparative 3D Structure on B4DGA9
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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 orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Descriptions from all associated GenBank mRNAs
  FM209049 - Homo sapiens partial mRNA for solute carrier organic anion transporter family, member 2B1 (SLCO2B1 gene), from DU145 cell line, containing exon 1a.
FM209050 - Homo sapiens partial mRNA for solute carrier organic anion transporter family, member 2B1 (SLCO2B1 gene), from adrenal cortex, containing exon 1b.
AK304783 - Homo sapiens cDNA FLJ58831 complete cds, highly similar to Solute carrier organic anion transporter family member 2B1.
AK302492 - Homo sapiens cDNA FLJ61474 complete cds, highly similar to Solute carrier organic anion transporter family member 2B1.
AK290234 - Homo sapiens cDNA FLJ75623 complete cds, highly similar to Homo sapiens solute carrier organic anion transporter family, member 2B1 (SLCO2B1), mRNA.
AK300134 - Homo sapiens cDNA FLJ59421 complete cds, highly similar to Solute carrier organic anion transporterfamily member 2B1.
AB020687 - Homo sapiens KIAA0880 mRNA for KIAA0880 protein.
BC041095 - Homo sapiens solute carrier organic anion transporter family, member 2B1, mRNA (cDNA clone MGC:46127 IMAGE:5752976), complete cds.
AB026256 - Homo sapiens mRNA for organic anion transporter OATP-B, complete cds.
AL117465 - Homo sapiens mRNA; cDNA DKFZp586I0322 (from clone DKFZp586I0322).
AB384029 - Synthetic construct DNA, clone: pF1KSDA0880, Homo sapiens SLCO2B1 gene for solute carrier organic anion transporter family, member 2B1, complete cds, without stop codon, in Flexi system.
KJ898401 - Synthetic construct Homo sapiens clone ccsbBroadEn_07795 SLCO2B1 gene, encodes complete protein.
KR711014 - Synthetic construct Homo sapiens clone CCSBHm_00018964 SLCO2B1 (SLCO2B1) mRNA, encodes complete protein.
FM209051 - Homo sapiens partial mRNA for solute carrier organic anion transporter family, member 2B1 (SLCO2B1 gene), from uterus, containing exon 1c.
FM209052 - Homo sapiens partial mRNA for solute carrier organic anion transporter family, member 2B1 (SLCO2B1 gene), from thyrois, containing exon 1d.
FM209054 - Homo sapiens partial mRNA for solute carrier organic anion transporter family, member 2B1 (SLCO2B1 gene), from placenta, containing exon 1e/b.
FM209053 - Homo sapiens partial mRNA for solute carrier organic anion transporter family, member 2B1 (SLCO2B1 gene), from placenta, containing exon 1e/a.
AF205073 - Homo sapiens organic anion transporter polypeptide-related protein 2 (OATPRP2) mRNA, complete cds.
AK294503 - Homo sapiens cDNA FLJ55766 complete cds, highly similar to Solute carrier organic anion transporter family member 2B1.
AK296079 - Homo sapiens cDNA FLJ55217 complete cds, highly similar to Solute carrier organic anion transporter family member 2B1.
AK127289 - Homo sapiens cDNA FLJ45356 fis, clone BRHIP3012868, highly similar to Homo sapiens solute carrier family 21 (organic anion transporter), member 9 (SLC21A9).
AK127363 - Homo sapiens cDNA FLJ45437 fis, clone BRSSN2000832, highly similar to Organic anion transporter B.
AL833466 - Homo sapiens mRNA; cDNA DKFZp686E0517 (from clone DKFZp686E0517).
JD062426 - Sequence 43450 from Patent EP1572962.
JD368776 - Sequence 349800 from Patent EP1572962.
JD186988 - Sequence 168012 from Patent EP1572962.
JD491648 - Sequence 472672 from Patent EP1572962.
JD478925 - Sequence 459949 from Patent EP1572962.
JD402279 - Sequence 383303 from Patent EP1572962.
JD104072 - Sequence 85096 from Patent EP1572962.
JD067092 - Sequence 48116 from Patent EP1572962.
JD498475 - Sequence 479499 from Patent EP1572962.
JD149908 - Sequence 130932 from Patent EP1572962.
JD216572 - Sequence 197596 from Patent EP1572962.
JD216573 - Sequence 197597 from Patent EP1572962.
JD383415 - Sequence 364439 from Patent EP1572962.
JD335521 - Sequence 316545 from Patent EP1572962.
JD137321 - Sequence 118345 from Patent EP1572962.
JD508255 - Sequence 489279 from Patent EP1572962.
JD151243 - Sequence 132267 from Patent EP1572962.
JD415726 - Sequence 396750 from Patent EP1572962.
JD370497 - Sequence 351521 from Patent EP1572962.
JD461503 - Sequence 442527 from Patent EP1572962.
JD191151 - Sequence 172175 from Patent EP1572962.
JD391004 - Sequence 372028 from Patent EP1572962.
JD560452 - Sequence 541476 from Patent EP1572962.
JD351317 - Sequence 332341 from Patent EP1572962.
JD338446 - Sequence 319470 from Patent EP1572962.
JD483938 - Sequence 464962 from Patent EP1572962.
JD168489 - Sequence 149513 from Patent EP1572962.
JD429552 - Sequence 410576 from Patent EP1572962.
JD527035 - Sequence 508059 from Patent EP1572962.
JD481675 - Sequence 462699 from Patent EP1572962.
JD324279 - Sequence 305303 from Patent EP1572962.
JD218529 - Sequence 199553 from Patent EP1572962.
JD166241 - Sequence 147265 from Patent EP1572962.
JD271821 - Sequence 252845 from Patent EP1572962.
JD152431 - Sequence 133455 from Patent EP1572962.
JD053013 - Sequence 34037 from Patent EP1572962.
JD473135 - Sequence 454159 from Patent EP1572962.
JD214112 - Sequence 195136 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DGA9, B4DGA9_HUMAN, NM_001145211, NP_001138683
UCSC ID: uc001owd.3
RefSeq Accession: NM_001145211
Protein: B4DGA9 CCDS: CCDS44683.1, CCDS8235.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001145211.2
exon count: 14CDS single in 3' UTR: no RNA size: 4057
ORF size: 2064CDS single in intron: no Alignment % ID: 99.98
txCdsPredict score: 4328.00frame shift in genome: no % Coverage: 99.58
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.