Human Gene BPIFB3 (ENST00000375494.4) from GENCODE V44
  Description: Homo sapiens BPI fold containing family B member 3 (BPIFB3), transcript variant 1, mRNA. (from RefSeq NM_182658)
Gencode Transcript: ENST00000375494.4
Gencode Gene: ENSG00000186190.8
Transcript (Including UTRs)
   Position: hg38 chr20:33,053,903-33,073,847 Size: 19,945 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg38 chr20:33,055,436-33,073,605 Size: 18,170 Coding Exon Count: 15 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:33,053,903-33,073,847)mRNA (may differ from genome)Protein (472 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
HPRDMalacardsMGIneXtProtOMIMPubMed
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BPIB3_HUMAN
DESCRIPTION: RecName: Full=BPI fold-containing family B member 3; AltName: Full=Ligand-binding protein RYA3; AltName: Full=Long palate, lung and nasal epithelium carcinoma-associated protein 3; Flags: Precursor;
FUNCTION: May have the capacity to recognize and bind specific classes of odorants. May act as a carrier molecule, transporting odorants across the mucus layer to access receptor sites. May serve as a primary defense mechanism by recognizing and removing potentially harmful odorants or pathogenic microorganisms from the mucosa or clearing excess odorant from mucus to enable new odorant stimuli to be received (By similarity).
SUBCELLULAR LOCATION: Secreted (By similarity). Cytoplasm. Note=According to PubMed:12837268, it is cytoplasmic.
TISSUE SPECIFICITY: Detected in nasal septal epithelium.
SIMILARITY: Belongs to the BPI/LBP/Plunc superfamily. BPI/LBP 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


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 0.73 RPKM in Testis
Total median expression: 1.29 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -23.1077-0.300 Picture PostScript Text
3' UTR -67.40242-0.279 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
IPR017943 - Bactericidal_perm-incr_a/b_dom
IPR001124 - Lipid-bd_serum_glycop_C
IPR017942 - Lipid-bd_serum_glycop_N

Pfam Domains:
PF01273 - LBP / BPI / CETP family, N-terminal domain
PF02886 - LBP / BPI / CETP family, C-terminal domain

ModBase Predicted Comparative 3D Structure on P59826
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0008289 lipid binding

Biological Process:
GO:0045087 innate immune response

Cellular Component:
GO:0005576 extracellular region
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC113398 - Homo sapiens chromosome 20 open reading frame 185, mRNA (cDNA clone MGC:141958 IMAGE:8322450), complete cds.
BC113400 - Homo sapiens chromosome 20 open reading frame 185, mRNA (cDNA clone MGC:141960 IMAGE:8322452), complete cds.
HQ258440 - Synthetic construct Homo sapiens clone IMAGE:100072869 chromosome 20 open reading frame 185 (C20orf185) gene, encodes complete protein.
KJ900669 - Synthetic construct Homo sapiens clone ccsbBroadEn_10063 BPIFB3 gene, encodes complete protein.
AF549189 - Homo sapiens RYA3 (RYA3) mRNA, complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: BPIB3_HUMAN, C20orf185, ENST00000375494.1, ENST00000375494.2, ENST00000375494.3, LPLUNC3, NM_182658, P59826, Q5TDX7, uc002wym.1, uc002wym.2
UCSC ID: ENST00000375494.4
RefSeq Accession: NM_001376932
Protein: P59826 (aka BPIB3_HUMAN)

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