Human Gene OTOP3 (ENST00000328801.6) from GENCODE V44
  Description: Homo sapiens otopetrin 3 (OTOP3), transcript variant 1, mRNA. (from RefSeq NM_178233)
Gencode Transcript: ENST00000328801.6
Gencode Gene: ENSG00000182938.7
Transcript (Including UTRs)
   Position: hg38 chr17:74,935,898-74,949,992 Size: 14,095 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg38 chr17:74,935,922-74,949,416 Size: 13,495 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureOther SpeciesmRNA DescriptionsOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:74,935,898-74,949,992)mRNA (may differ from genome)Protein (578 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGencodeGeneCardsHGNC
HPRDLynxMGImyGene2OMIMPubMed
UniProtKBBioGrid 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


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.21 RPKM in Esophagus - Mucosa
Total median expression: 11.39 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 -6.9024-0.287 Picture PostScript Text
3' UTR -243.60576-0.423 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.

-  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    

-  Descriptions from all associated GenBank mRNAs
  BC143799 - Homo sapiens cDNA clone IMAGE:9052313.
AB463989 - Synthetic construct DNA, clone: pF1KB7247, Homo sapiens OTOP3 gene for otopetrin 3, without stop codon, in Flexi system.
BC140366 - Synthetic construct Homo sapiens clone IMAGE:100014313, MGC:173190 otopetrin 3 (OTOP3) mRNA, encodes complete protein.
AB593153 - Homo sapiens OTOP3 mRNA, complete sequence, clone: HP09106-RBdS104E07.
JD059124 - Sequence 40148 from Patent EP1572962.
JD484716 - Sequence 465740 from Patent EP1572962.
JD216811 - Sequence 197835 from Patent EP1572962.
JD152499 - Sequence 133523 from Patent EP1572962.
JD485052 - Sequence 466076 from Patent EP1572962.
JD255944 - Sequence 236968 from Patent EP1572962.
JD227115 - Sequence 208139 from Patent EP1572962.
JD396801 - Sequence 377825 from Patent EP1572962.
JD198704 - Sequence 179728 from Patent EP1572962.
JD153979 - Sequence 135003 from Patent EP1572962.
JD422529 - Sequence 403553 from Patent EP1572962.
JD548583 - Sequence 529607 from Patent EP1572962.
JD323156 - Sequence 304180 from Patent EP1572962.
JD400992 - Sequence 382016 from Patent EP1572962.
JD088087 - Sequence 69111 from Patent EP1572962.
JD328921 - Sequence 309945 from Patent EP1572962.
JD230584 - Sequence 211608 from Patent EP1572962.
JD202086 - Sequence 183110 from Patent EP1572962.
JD205090 - Sequence 186114 from Patent EP1572962.
JD248550 - Sequence 229574 from Patent EP1572962.
JD422111 - Sequence 403135 from Patent EP1572962.
JD250272 - Sequence 231296 from Patent EP1572962.
JD384886 - Sequence 365910 from Patent EP1572962.
JD055617 - Sequence 36641 from Patent EP1572962.
JD266790 - Sequence 247814 from Patent EP1572962.
JD526836 - Sequence 507860 from Patent EP1572962.
JD196881 - Sequence 177905 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A2U3TZI1, ENST00000328801.1, ENST00000328801.2, ENST00000328801.3, ENST00000328801.4, ENST00000328801.5, NM_178233, uc010wrq.1, uc010wrq.2, uc010wrq.3, uc010wrq.4, uc010wrq.5, uc010wrq.6
UCSC ID: ENST00000328801.6
RefSeq Accession: NM_001272005

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