Human Gene GPR42 (ENST00000454971.3_9) from GENCODE V47lift37
  Description: G protein-coupled receptor 42 (from RefSeq NM_001348195.2)
Gencode Transcript: ENST00000454971.3_9
Gencode Gene: ENSG00000126251.7_12
Transcript (Including UTRs)
   Position: hg19 chr19:35,861,970-35,863,864 Size: 1,895 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr19:35,862,262-35,863,302 Size: 1,041 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:35,861,970-35,863,864)mRNA (may differ from genome)Protein (346 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GPR42_HUMAN
DESCRIPTION: RecName: Full=G-protein coupled receptor 42;
FUNCTION: May act as a receptor for short chain fatty acids, such as propionate.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein.
POLYMORPHISM: Sequence differences between GPR42 and FFAR3 are due to polymorphisms.
SIMILARITY: Belongs to the G-protein coupled receptor 1 family.
CAUTION: Was originally (PubMed:12496283) thought to be a pseudogene.

-  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: 0.39 RPKM in Whole Blood
Total median expression: 1.71 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 -20.0062-0.323 Picture PostScript Text
3' UTR -226.00562-0.402 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
IPR000276 - 7TM_GPCR_Rhodpsn
IPR017452 - GPCR_Rhodpsn_supfam
IPR013312 - GPR40-rel_recept

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)
PF10328 - Serpentine type 7TM GPCR chemoreceptor Srx

SCOP Domains:
81321 - Family A G protein-coupled receptor-like

ModBase Predicted Comparative 3D Structure on O15529
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004930 G-protein coupled receptor activity

Biological Process:
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  LP896108 - Sequence 972 from Patent EP3253886.
JD565768 - Sequence 546792 from Patent EP1572962.
BC156085 - Synthetic construct Homo sapiens clone IMAGE:100062334, MGC:190467 G protein-coupled receptor 42 pseudogene (GPR42P) mRNA, encodes complete protein.
BC156953 - Synthetic construct Homo sapiens clone IMAGE:100063572, MGC:190818 G protein-coupled receptor 42 pseudogene (GPR42P) mRNA, encodes complete protein.
JD079851 - Sequence 60875 from Patent EP1572962.
JD492716 - Sequence 473740 from Patent EP1572962.
JD065965 - Sequence 46989 from Patent EP1572962.
JD068628 - Sequence 49652 from Patent EP1572962.
JD375664 - Sequence 356688 from Patent EP1572962.
JD252365 - Sequence 233389 from Patent EP1572962.
JD190367 - Sequence 171391 from Patent EP1572962.
JD372993 - Sequence 354017 from Patent EP1572962.
JD405007 - Sequence 386031 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000454971.1, ENST00000454971.2, GPR42P, GPR42_HUMAN, NM_001348195, O15529, uc320wbi.1, uc320wbi.2
UCSC ID: ENST00000454971.3_9
RefSeq Accession: NM_001348195.2
Protein: O15529 (aka GPR42_HUMAN or GP42_HUMAN)

-  Gene Model Information
  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.