Human Gene HTR4 (ENST00000377888.8_12) from GENCODE V47lift37
  Description: 5-hydroxytryptamine receptor 4, transcript variant b (from RefSeq NM_000870.7)
Gencode Transcript: ENST00000377888.8_12
Gencode Gene: ENSG00000164270.19_15
Transcript (Including UTRs)
   Position: hg19 chr5:147,861,110-148,034,090 Size: 172,981 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr5:147,862,766-148,016,577 Size: 153,812 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:147,861,110-148,034,090)mRNA (may differ from genome)Protein (388 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: 5HT4R_HUMAN
DESCRIPTION: RecName: Full=5-hydroxytryptamine receptor 4; Short=5-HT-4; Short=5-HT4; AltName: Full=Serotonin receptor 4;
FUNCTION: This is one of the several different receptors for 5- hydroxytryptamine (serotonin), a biogenic hormone that functions as a neurotransmitter, a hormone, and a mitogen. The activity of this receptor is mediated by G proteins that stimulate adenylate cyclase.
SUBUNIT: Isoform 5-HT4(A) interacts with MAGI2, MPP3, SLC9A3R1 and SNX27 isoforms 1 and 2. Isoform 5-HT4(E) interacts with INADL, NOS1 and SEC23A. Isoform 5-HT4(A) forms a complex including SLC9A3R1 and EZR (By similarity). Interacts (via C-terminus 330- 346 AA) with GRK5; this interaction is promoted by 5-HT (serotonin).
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein. Endosome. Note=Interaction with SNX27 mediates recruitment to early endosomes, while interaction with SLC9A3R1 and EZR might target the protein to specialized subcellular regions, such as microvilli (By similarity).
TISSUE SPECIFICITY: Isoform 5-HT4(A) is expressed in ileum, brain, and atrium, but not in the ventricle.
SIMILARITY: Belongs to the G-protein coupled receptor 1 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: HTR4
Diseases sorted by gene-association score: constipation (4), irritable bowel syndrome (4), gastrointestinal system disease (4), colonic pseudo-obstruction (3), pylorospasm (2), stomach disease (2), functional colonic disease (1), intestinal disease (1), phototoxic dermatitis (1), functional diarrhea (1), pituitary-dependent cushing's disease (1)

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

+  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: 1.86 RPKM in Small Intestine - Terminal Ileum
Total median expression: 7.63 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 -285.40513-0.556 Picture PostScript Text
3' UTR -508.001656-0.307 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
IPR001520 - 5HT4_rcpt
IPR000276 - 7TM_GPCR_Rhodpsn
IPR017452 - GPCR_Rhodpsn_supfam

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)

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

ModBase Predicted Comparative 3D Structure on Q13639
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004930 G-protein coupled receptor activity
GO:0004993 G-protein coupled serotonin receptor activity
GO:0001594 trace-amine receptor activity

Biological Process:
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007187 G-protein coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger
GO:0007214 gamma-aminobutyric acid signaling pathway
GO:0007268 chemical synaptic transmission
GO:0032098 regulation of appetite

Cellular Component:
GO:0005737 cytoplasm
GO:0005768 endosome
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
  Y08756 - H.sapiens mRNA for serotonin receptor 5-HT4.
AJ278979 - Homo sapiens mRNA for 5-hydroxytryptamine4 receptor (HTR4 gene), splice variant h5-HT4(a).
AJ278981 - Homo sapiens mRNA for 5-hydroxytryptamine4 receptor (HTR4 gene), splice variant h5-HT4(g).
AJ633645 - Homo sapiens mRNA for 5-hydroxytryptamine 4 receptor isoform g2 (HTR4 gene).
AJ131725 - Homo sapiens mRNA for serotonin receptor 5-HT4 (splice variant h5-HT4(g).
Y13584 - Homo sapiens mRNA for serotin receptor 4, short splice variant.
AJ011371 - Homo sapiens mRNA for serotonin 4 receptor, splice variant h5-HT4(e).
Y09586 - Homo sapiens mRNA for serotonin 4 receptor (h5-HT4(a)), splice variant.
Y12507 - H.sapiens mRNA for serotonin receptor 5-HT4D, splice variant.
AM712912 - Homo sapiens mRNA for 5-hydroxytryptamine (serotonin) receptor 4 (HTR4 gene), isoform C.
AJ131724 - Homo sapiens mRNA for serotonin receptor 5-HT4 (splice variant h5-HT4(b)).
MF775735 - Homo sapiens 5-hydroxytryptamine receptor 4 transcript variant b2 (HTR4) mRNA, complete cds, alternatively spliced.
MF775736 - Homo sapiens 5-hydroxytryptamine receptor 4 transcript variant b3 (HTR4) mRNA, complete cds, alternatively spliced.
Y12506 - H.sapiens mRNA for serotonin receptor 5-HT4C, splice variant.
AK308471 - Homo sapiens cDNA, FLJ98512.
AJ131726 - Homo sapiens mRNA for serotonin receptor 5-HT4 (splice variant h5-HT4(i)).
Y12505 - H.sapiens mRNA for serotonin receptor 5-HT4B, splice variant.
AJ278980 - Homo sapiens mRNA for 5-hydroxytryptamine4 receptor (HTR4 gene), splice variant h5-HT4(b).
AJ519673 - Homo sapiens mRNA for 5-hydroxytryptamine 4 receptor subunit b (HTR4B gene).
BC074755 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 4, mRNA (cDNA clone MGC:103832 IMAGE:30915214), complete cds.
BC095497 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 4, mRNA (cDNA clone MGC:111700 IMAGE:6971934), complete cds.
Y10437 - H.sapiens mRNA for serotonin receptor 4.
AJ278982 - Homo sapiens mRNA for 5-hydroxytryptamine4 receptor (HTR4 gene), splice variant h5-HT4(n).
AB070620 - Homo sapiens HTR4 mRNA for 5-hydroxytryptamine 4 receptor, partial cds.
JD436236 - Sequence 417260 from Patent EP1572962.
JD469220 - Sequence 450244 from Patent EP1572962.
JD526680 - Sequence 507704 from Patent EP1572962.
JD439678 - Sequence 420702 from Patent EP1572962.
JD111725 - Sequence 92749 from Patent EP1572962.
JD436857 - Sequence 417881 from Patent EP1572962.
JD289482 - Sequence 270506 from Patent EP1572962.
JD284870 - Sequence 265894 from Patent EP1572962.
JD123513 - Sequence 104537 from Patent EP1572962.
JD320564 - Sequence 301588 from Patent EP1572962.
JD123102 - Sequence 104126 from Patent EP1572962.
JD214221 - Sequence 195245 from Patent EP1572962.
JD512904 - Sequence 493928 from Patent EP1572962.
JD512223 - Sequence 493247 from Patent EP1572962.
JD294378 - Sequence 275402 from Patent EP1572962.
JD483383 - Sequence 464407 from Patent EP1572962.
JD548345 - Sequence 529369 from Patent EP1572962.
JD525096 - Sequence 506120 from Patent EP1572962.
JD098651 - Sequence 79675 from Patent EP1572962.
JD245417 - Sequence 226441 from Patent EP1572962.
JD339079 - Sequence 320103 from Patent EP1572962.
JD086483 - Sequence 67507 from Patent EP1572962.
JD111714 - Sequence 92738 from Patent EP1572962.
JD039553 - Sequence 20577 from Patent EP1572962.
JD192995 - Sequence 174019 from Patent EP1572962.
JD193489 - Sequence 174513 from Patent EP1572962.
JD510366 - Sequence 491390 from Patent EP1572962.
JD146851 - Sequence 127875 from Patent EP1572962.
JD304493 - Sequence 285517 from Patent EP1572962.
JD492261 - Sequence 473285 from Patent EP1572962.
JD126108 - Sequence 107132 from Patent EP1572962.
JD553703 - Sequence 534727 from Patent EP1572962.
LQ406436 - Sequence 8 from Patent WO2016146455.
JD520325 - Sequence 501349 from Patent EP1572962.
JD134267 - Sequence 115291 from Patent EP1572962.
JD374025 - Sequence 355049 from Patent EP1572962.
JD335538 - Sequence 316562 from Patent EP1572962.
Z48150 - H.sapiens 5-HT4 mRNA for serotonin 4 receptor (5-HT4).
AK095223 - Homo sapiens cDNA FLJ37904 fis, clone COLON2000557.

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

Protein Q13639 (Reactome details) participates in the following event(s):

R-HSA-390931 5-HT4, 6 and 7 receptors can bind serotonin
R-HSA-744886 The Ligand:GPCR:Gs complex dissociates
R-HSA-744887 Liganded Gs-activating GPCRs bind inactive heterotrimeric Gs
R-HSA-379044 Liganded Gs-activating GPCR acts as a GEF for Gs
R-HSA-390666 Serotonin receptors
R-HSA-418555 G alpha (s) signalling events
R-HSA-375280 Amine ligand-binding receptors
R-HSA-388396 GPCR downstream signalling
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-372790 Signaling by GPCR
R-HSA-500792 GPCR ligand binding
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: 5HT4R_HUMAN, C4WYH4, ENST00000377888.1, ENST00000377888.2, ENST00000377888.3, ENST00000377888.4, ENST00000377888.5, ENST00000377888.6, ENST00000377888.7, NM_000870, Q13639, Q546Q1, Q684M0, Q712M9, Q96KH9, Q96KI0, Q9H199, Q9NY73, Q9UBM6, Q9UBT4, Q9UE22, Q9UE23, Q9UQR6, uc318nxr.1, uc318nxr.2
UCSC ID: ENST00000377888.8_12
RefSeq Accession: NM_000870.7
Protein: Q13639 (aka 5HT4R_HUMAN or 5H4_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.