Human Gene RBP2 (ENST00000232217.6) from GENCODE V44
  Description: Homo sapiens retinol binding protein 2 (RBP2), mRNA. (from RefSeq NM_004164)
RefSeq Summary (NM_004164): This gene encodes an abundant protein present in the small intestinal epithelium. It is thought to participate in the uptake and/or intracellular metabolism of vitamin A. Vitamin A is a fat-soluble vitamin necessary for growth, reproduction, differentiation of epithelial tissues, and vision. This protein may also modulate the supply of retinoic acid to the nuclei of endometrial cells during the menstrual cycle. [provided by RefSeq, Aug 2015].
Gencode Transcript: ENST00000232217.6
Gencode Gene: ENSG00000114113.6
Transcript (Including UTRs)
   Position: hg38 chr3:139,452,884-139,476,516 Size: 23,633 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg38 chr3:139,453,116-139,476,459 Size: 23,344 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:139,452,884-139,476,516)mRNA (may differ from genome)Protein (134 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RET2_HUMAN
DESCRIPTION: RecName: Full=Retinol-binding protein 2; AltName: Full=Cellular retinol-binding protein II; Short=CRBP-II;
FUNCTION: Intracellular transport of retinol.
SUBCELLULAR LOCATION: Cytoplasm.
TISSUE SPECIFICITY: Higher expression in adult small intestine and to a much lesser extent in fetal kidney.
DOMAIN: Forms a beta-barrel structure that accommodates hydrophobic ligands in its interior.
SIMILARITY: Belongs to the calycin superfamily. Fatty-acid binding protein (FABP) 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


-  MalaCards Disease Associations
  MalaCards Gene Search: RBP2
Diseases sorted by gene-association score: mixed germ cell cancer (1)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 118.06 RPKM in Small Intestine - Terminal Ileum
Total median expression: 122.07 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 -4.8057-0.084 Picture PostScript Text
3' UTR -58.60232-0.253 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
IPR000463 - Fatty_acid-bd
IPR000566 - Lipocln_cytosolic_FA-bd_dom

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

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2RCQ - X-ray MuPIT 2RCT - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P50120
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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     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005501 retinoid binding
GO:0008289 lipid binding
GO:0016918 retinal binding
GO:0019841 retinol binding

Biological Process:
GO:0001523 retinoid metabolic process
GO:0006776 vitamin A metabolic process
GO:0008544 epidermis development

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AK291978 - Homo sapiens cDNA FLJ76417 complete cds, highly similar to Homo sapiens retinol binding protein 2, cellular (RBP2), mRNA.
BC069296 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97407 IMAGE:7262683), complete cds.
BC069361 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97419 IMAGE:7262695), complete cds.
BC069396 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97431 IMAGE:7262707), complete cds.
BC069424 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97443 IMAGE:7262719), complete cds.
BC069447 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97455 IMAGE:7262731), complete cds.
BC069469 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone IMAGE:7262743), partial cds.
BC069513 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97479 IMAGE:7262755), complete cds.
BC069522 - Homo sapiens retinol binding protein 2, cellular, mRNA (cDNA clone MGC:97396 IMAGE:7262672), complete cds.
U13831 - Human cellular retinol binding protein II (CRBPII) mRNA, complete cds.
AB527682 - Synthetic construct DNA, clone: pF1KB6720, Homo sapiens RBP2 gene for retinol binding protein 2, cellular, without stop codon, in Flexi system.
CU686882 - Synthetic construct Homo sapiens gateway clone IMAGE:100022541 5' read RBP2 mRNA.
HQ448397 - Synthetic construct Homo sapiens clone IMAGE:100071824; CCSB014052_01 retinol binding protein 2, cellular (RBP2) gene, encodes complete protein.
KJ897456 - Synthetic construct Homo sapiens clone ccsbBroadEn_06850 RBP2 gene, encodes complete protein.
KJ905894 - Synthetic construct Homo sapiens clone ccsbBroadEn_15564 RBP2 gene, encodes complete protein.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-6857 - retinol biosynthesis
PWY-6861 - the visual cycle I (vertebrates)

Reactome (by CSHL, EBI, and GO)

Protein P50120 (Reactome details) participates in the following event(s):

R-HSA-975633 atROL binds to RBP2
R-HSA-2399913 atRAL binds to RBP2
R-HSA-975608 LRAT esterifies RBP2:atROL and FACYLs to atREs
R-HSA-975629 RDH11 reduces RBP2:atRAL to RBP2:atROL
R-HSA-2855252 AKRs reduce RBP2:atRAL to RBP2:atROL
R-HSA-975634 Retinoid metabolism and transport
R-HSA-2187338 Visual phototransduction
R-HSA-6806667 Metabolism of fat-soluble vitamins
R-HSA-418594 G alpha (i) signalling events
R-HSA-196854 Metabolism of vitamins and cofactors
R-HSA-388396 GPCR downstream signalling
R-HSA-1430728 Metabolism
R-HSA-372790 Signaling by GPCR
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A8K7G3, CRBP2, ENST00000232217.1, ENST00000232217.2, ENST00000232217.3, ENST00000232217.4, ENST00000232217.5, NM_004164, P50120, Q6ISQ9, Q6ISS7, RET2_HUMAN, uc003eth.1, uc003eth.2, uc003eth.3, uc003eth.4
UCSC ID: ENST00000232217.6
RefSeq Accession: NM_004164
Protein: P50120 (aka RET2_HUMAN)
CCDS: CCDS3109.1

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