Human Gene BPIFB4 (uc010zue.2)
  Description: Homo sapiens BPI fold containing family B, member 4 (BPIFB4), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr20:31,669,318-31,699,557 Size: 30,240 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr20:31,669,333-31,699,243 Size: 29,911 Coding Exon Count: 16 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:31,669,318-31,699,557)mRNA (may differ from genome)Protein (614 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkHGNC
HPRDLynxMGIneXtProtOMIMPubMed
ReactomeTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BPIB4_HUMAN
DESCRIPTION: RecName: Full=BPI fold-containing family B member 4; AltName: Full=Ligand-binding protein RY2G5; AltName: Full=Long palate, lung and nasal epithelium carcinoma-associated protein 4; 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.
TISSUE SPECIFICITY: Expressed in nasal tissue.
SIMILARITY: Belongs to the BPI/LBP/Plunc superfamily. BPI/LBP family.
SEQUENCE CAUTION: Sequence=CAI22532.1; Type=Erroneous gene model prediction;

-  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


+  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: 3.12 RPKM in Pituitary
Total median expression: 4.05 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
3' UTR -106.81314-0.340 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

SCOP Domains:
55394 - Bactericidal permeability-increasing protein, BPI

ModBase Predicted Comparative 3D Structure on P59827
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

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

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


-  Descriptions from all associated GenBank mRNAs
  AB463515 - Synthetic construct DNA, clone: pF1KB7206, Homo sapiens C20orf186 gene for chromosome 20 open reading frame 186, without stop codon, in Flexi system.
BC140293 - Synthetic construct Homo sapiens clone IMAGE:100014255, MGC:173214 chromosome 20 open reading frame 186 (C20orf186) mRNA, encodes complete protein.
BC146505 - Synthetic construct Homo sapiens clone IMAGE:100015034, MGC:180182 chromosome 20 open reading frame 186 (C20orf186) mRNA, encodes complete protein.
AF549190 - Homo sapiens RY2G5 (RY2G5) mRNA, complete cds.
JD541489 - Sequence 522513 from Patent EP1572962.
JD221015 - Sequence 202039 from Patent EP1572962.
JD199334 - Sequence 180358 from Patent EP1572962.

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

Protein P59827 (Reactome details) participates in the following event(s):

R-HSA-6809521 BPIF binds bacteria
R-HSA-6803157 Antimicrobial peptides
R-HSA-168249 Innate Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: BPIB4_HUMAN, C20orf186, LPLUNC4, NM_182519, NP_872325, P59827, Q5TDX6
UCSC ID: uc010zue.2
RefSeq Accession: NM_182519
Protein: P59827 (aka BPIB4_HUMAN)
CCDS: CCDS13213.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_182519.2
exon count: 16CDS single in 3' UTR: no RNA size: 2174
ORF size: 1845CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3635.00frame 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.