Human Gene HTR5A (ENST00000287907.3_5) from GENCODE V47lift37
  Description: 5-hydroxytryptamine receptor 5A (from RefSeq NM_024012.4)
Gencode Transcript: ENST00000287907.3_5
Gencode Gene: ENSG00000157219.5_12
Transcript (Including UTRs)
   Position: hg19 chr7:154,862,034-154,879,102 Size: 17,069 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr7:154,862,610-154,876,197 Size: 13,588 Coding Exon Count: 2 

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 (chr7:154,862,034-154,879,102)mRNA (may differ from genome)Protein (357 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: 5HT5A_HUMAN
DESCRIPTION: RecName: Full=5-hydroxytryptamine receptor 5A; Short=5-HT-5; Short=5-HT-5A; Short=5-HT5A; AltName: Full=Serotonin receptor 5A;
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.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein.
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: HTR5A
Diseases sorted by gene-association score: holoprosencephaly 3 (7), autistic disorder (2)

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

+  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: 18.41 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 87.49 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 -250.30576-0.435 Picture PostScript Text
3' UTR -731.102905-0.252 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
IPR001397 - 5HT5A_rcpt
IPR002231 - 5HT_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 P47898
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    
 RGDEnsembl   
      
      

-  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:0030594 neurotransmitter receptor activity
GO:0051378 serotonin binding

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:0007198 adenylate cyclase-inhibiting serotonin receptor signaling pathway
GO:0007420 brain development
GO:0019933 cAMP-mediated signaling
GO:0021766 hippocampus development
GO:0032355 response to estradiol

Cellular Component:
GO:0005791 rough endoplasmic reticulum
GO:0005794 Golgi apparatus
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030425 dendrite
GO:0043204 perikaryon


-  Descriptions from all associated GenBank mRNAs
  AK094255 - Homo sapiens cDNA FLJ36936 fis, clone BRACE2005395, highly similar to 5-HYDROXYTRYPTAMINE 5A RECEPTOR.
BC112021 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 5A, mRNA (cDNA clone MGC:138226 IMAGE:8327489), complete cds.
BC113468 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 5A, mRNA (cDNA clone MGC:142028 IMAGE:8322520), complete cds.
AB464445 - Synthetic construct DNA, clone: pF1KB8999, Homo sapiens HTR5A gene for 5-hydroxytryptamine (serotonin) receptor 5A, without stop codon, in Flexi system.
HQ258207 - Synthetic construct Homo sapiens clone IMAGE:100072516 5-hydroxytryptamine (serotonin) receptor 5A (HTR5A) gene, encodes complete protein.
KJ891412 - Synthetic construct Homo sapiens clone ccsbBroadEn_00806 HTR5A gene, encodes complete protein.
KJ897025 - Synthetic construct Homo sapiens clone ccsbBroadEn_06419 HTR5A gene, encodes complete protein.
KR712179 - Synthetic construct Homo sapiens clone CCSBHm_00036631 HTR5A (HTR5A) mRNA, encodes complete protein.
AF498985 - Homo sapiens 5-hydroxytryptamine receptor 5A (HTR5A) mRNA, complete cds.
AK310284 - Homo sapiens cDNA, FLJ17326.
LQ406438 - Sequence 10 from Patent WO2016146455.
BX538209 - Homo sapiens mRNA; cDNA DKFZp686C18272 (from clone DKFZp686C18272).

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

Protein P47898 (Reactome details) participates in the following event(s):

R-HSA-390929 5-HT1 and 5A receptors can bind serotonin
R-HSA-749454 The Ligand:GPCR:Gi complex dissociates
R-HSA-749456 Liganded Gi-activating GPCRs bind inactive heterotrimeric G-protein Gi
R-HSA-380073 Liganded Gi-activating GPCR acts as a GEF for Gi
R-HSA-390666 Serotonin receptors
R-HSA-418594 G alpha (i) 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: 5HT5A_HUMAN, ENST00000287907.1, ENST00000287907.2, NM_024012, P47898, Q2M2D2, uc317kog.1, uc317kog.2
UCSC ID: ENST00000287907.3_5
RefSeq Accession: NM_024012.4
Protein: P47898 (aka 5HT5A_HUMAN or 5H5A_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.