Human Gene OBP2B (uc004ccz.3)
  Description: Homo sapiens odorant binding protein 2B (OBP2B), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr9:136,080,666-136,084,628 Size: 3,963 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr9:136,081,305-136,084,586 Size: 3,282 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:136,080,666-136,084,628)mRNA (may differ from genome)Protein (170 aa)
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GeneNetworkHGNCHPRDLynxMGIneXtProt
OMIMPubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: OBP2B_HUMAN
DESCRIPTION: RecName: Full=Odorant-binding protein 2b; AltName: Full=Odorant-binding protein IIb; Short=OBPIIb; Flags: Precursor;
FUNCTION: Probably binds and transports small hydrophobic volatile molecules.
SUBCELLULAR LOCATION: Secreted (Probable).
TISSUE SPECIFICITY: Strongly expressed in genital sphere organs such as the prostate and mammary glands.
SIMILARITY: Belongs to the calycin superfamily. Lipocalin family.

-  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): OBP2B
CDC HuGE Published Literature: OBP2B
Positive Disease Associations: E-Selectin
Related Studies:
  1. E-Selectin
    Andrew D Paterson et al. Arteriosclerosis, thrombosis, and vascular biology 2009, Genome-wide association identifies the ABO blood group as a major locus associated with serum levels of soluble E-selectin., Arteriosclerosis, thrombosis, and vascular biology. [PubMed 19729612]
    ABO is a major locus for serum soluble E-selectin levels. We excluded population stratification, fine-mapped the association to sub-A alleles, and also document association with additional variation in the ABO region.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 6.08 RPKM in Testis
Total median expression: 9.87 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 -15.2042-0.362 Picture PostScript Text
3' UTR -27.67134-0.206 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
IPR012674 - Calycin
IPR011038 - Calycin-like
IPR000566 - Lipocln_cytosolic_FA-bd_dom
IPR002450 - von_Ebner_gland

Pfam Domains:
PF00061 - Lipocalin / cytosolic fatty-acid binding protein family

SCOP Domains:
50814 - Lipocalins

ModBase Predicted Comparative 3D Structure on Q9NPH6
FrontTopSide
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 Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005549 odorant binding
GO:0036094 small molecule binding

Biological Process:
GO:0007608 sensory perception of smell
GO:0007635 chemosensory behavior
GO:0050896 response to stimulus

Cellular Component:
GO:0005575 cellular_component
GO:0005576 extracellular region


-  Descriptions from all associated GenBank mRNAs
  AY358981 - Homo sapiens clone DNA65404 OBP2B (UNQ653) mRNA, complete cds.
AJ251026 - Homo sapiens mRNA for putative odorant binding protein b-a (OBPIIb gene).
AJ251027 - Homo sapiens mRNA for putative odorant binding protein bb (OBPIIb gene).
AJ251028 - Homo sapiens mRNA for putative odorant binding protein bg (OBPIIb gene).
JD402359 - Sequence 383383 from Patent EP1572962.
JD464251 - Sequence 445275 from Patent EP1572962.
JD394023 - Sequence 375047 from Patent EP1572962.
BC096717 - Homo sapiens odorant binding protein 2B, mRNA (cDNA clone MGC:119025 IMAGE:40003080), complete cds.
BC098125 - Homo sapiens odorant binding protein 2B, mRNA (cDNA clone MGC:119023 IMAGE:40003075), complete cds.
BC098151 - Homo sapiens odorant binding protein 2B, mRNA (cDNA clone MGC:119024 IMAGE:40003079), complete cds.
BC098340 - Homo sapiens odorant binding protein 2B, mRNA (cDNA clone MGC:119022 IMAGE:40003073), complete cds.
JD121779 - Sequence 102803 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_014581, NP_055396, OBP2B_HUMAN, Q5VSP6, Q9NPH6, Q9NY51, Q9NY52, UNQ653/PRO1283
UCSC ID: uc004ccz.3
RefSeq Accession: NM_014581
Protein: Q9NPH6 (aka OBP2B_HUMAN or OBPB_HUMAN)
CCDS: CCDS6961.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_014581.2
exon count: 7CDS single in 3' UTR: no RNA size: 689
ORF size: 513CDS single in intron: no Alignment % ID: 99.71
txCdsPredict score: 1140.00frame 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.