Human Gene HTR1A (ENST00000323865.5_6) from GENCODE V47lift37
  Description: 5-hydroxytryptamine receptor 1A (from RefSeq NM_000524.4)
Gencode Transcript: ENST00000323865.5_6
Gencode Gene: ENSG00000178394.5_14
Transcript (Including UTRs)
   Position: hg19 chr5:63,253,701-63,258,272 Size: 4,572 Total Exon Count: 1 Strand: -
Coding Region
   Position: hg19 chr5:63,256,278-63,257,546 Size: 1,269 Coding Exon Count: 1 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:63,253,701-63,258,272)mRNA (may differ from genome)Protein (422 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: Q5ZGX3_HUMAN
DESCRIPTION: SubName: Full=5-hydroxytryptamine (Serotonin) receptor 1A; SubName: Full=5-hydroxytryptamine receptor 1A;
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein (By similarity).
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: HTR1A
Diseases sorted by gene-association score: periodic fever, menstrual cycle dependent* (919), generalized anxiety disorder (36), agoraphobia (26), anxiety disorder (24), mood disorder (20), serotonin syndrome (17), premature ejaculation (17), motion sickness (17), drug-induced mental disorder (16), drug psychosis (16), panic disorder (14), psychosexual disorder (12), hypoactive sexual desire disorder (12), substance-induced psychosis (11), neuroleptic malignant syndrome (11), schizoid personality disorder (11), obsessive-compulsive disorder (11), rumination disorder (10), chronic fatigue syndrome (10), bipolar i disorder (9), phobic disorder (9), borderline personality disorder (9), amnestic disorder (9), sudden infant death syndrome (8), machado-joseph disease (8), major depressive disorder and accelerated response to antidepressant drug treatment (8), alexithymia (8), ganglioneuroblastoma (8), temporal lobe epilepsy (7), mental depression (7), endogenous depression (7), neurotic disorder (7), anterograde amnesia (7), dissociative amnesia (7), personality disorder (6), periodic limb movement disorder (6), kleptomania (6), dyspepsia (6), sexual disorder (6), postpartum depression (6), schizoaffective disorder (5), bipolar disorder (5), intermittent explosive disorder (5), disease of mental health (5), brunner syndrome (4), schizophrenia (3), migraine with or without aura 1 (3), alcohol dependence (2), attention deficit-hyperactivity disorder (2), psychotic disorder (2), parkinson disease, late-onset (1), autistic disorder (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D005473 Fluoxetine
  • C058895 1-(2-methoxyphenyl)-4-(4-(2-phthalimido)butyl)piperazine
  • D017371 8-Hydroxy-2-(di-n-propylamino)tetralin
  • C090413 N-(2-(4-(2-methoxyphenyl)-1-piperazinyl)ethyl)-N-(2-pyridinyl)cyclohexanecarboxamide
  • D012701 Serotonin
  • D002065 Buspirone
  • D014196 Trazodone
  • C443959 sarizotan
  • C092824 1-((4-fluorobenzoylamino)ethyl)-4-(7-methoxy-1-naphthyl)piperazine hydrochloride
  • C087205 4-(2'-methoxyphenyl)-1-(2'-(N-(2''-pyridinyl)-4-iodobenzamido)ethyl)piperazine
          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: 1.42 RPKM in Brain - Frontal Cortex (BA9)
Total median expression: 5.43 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 -270.50726-0.373 Picture PostScript Text
3' UTR -823.002577-0.319 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
IPR000610 - 5HT1A_rcpt
IPR002231 - 5HT_rcpt
IPR000276 - 7TM_GPCR_Rhodpsn
IPR017452 - GPCR_Rhodpsn_supfam

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)
PF10320 - Serpentine type 7TM GPCR chemoreceptor Srsx

SCOP Domains:
81321 - Family A G protein-coupled receptor-like
103473 - MFS general substrate transporter

ModBase Predicted Comparative 3D Structure on Q5ZGX3
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  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

Biological Process:
GO:0001662 behavioral fear response
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007210 serotonin receptor signaling pathway
GO:0008283 cell proliferation
GO:0014062 regulation of serotonin secretion
GO:0035640 exploration behavior
GO:0042053 regulation of dopamine metabolic process
GO:0042310 vasoconstriction
GO:0042428 serotonin metabolic process
GO:0046883 regulation of hormone secretion
GO:0050795 regulation of behavior

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
  HW799986 - JP 2014530803-A/47: MICRO-RNAS AND COMPOSITIONS COMPRISING SAME FOR THE TREATMENT AND DIAGNOSIS OF SEROTONIN-, ADRENALIN-, NORADRENALIN-, GLUTAMATE-, AND CORTICOTROPIN-RELEASING HORMONE-ASSOCIATED MEDICAL CONDITIONS.
JE971996 - Sequence 47 from Patent WO2015118537.
LP883638 - Sequence 47 from Patent EP3208338.
LX145670 - JP 2017506228-A/47: MICRO-RNAS AND COMPOSITIONS COMPRISING SAME FOR THE TREATMENT AND DIAGNOSIS OF SEROTONIN-, ADRENALIN-, NORADRENALIN-, GLUTAMATE-, AND CORTICOTROPIN-RELEASING HORMONE-ASSOCIATED MEDICAL CONDITIONS.
LX245227 - JP 2017095482-A/47: MICRO-RNAS AND COMPOSITIONS COMPRISING SAME FOR THE TREATMENT AND DIAGNOSIS OF SEROTONIN-, ADRENALIN-, NORADRENALIN-, GLUTAMATE-, AND CORTICOTROPIN-RELEASING HORMONE-ASSOCIATED MEDICAL CONDITIONS.
AK311460 - Homo sapiens cDNA, FLJ18502.
AK291429 - Homo sapiens cDNA FLJ75939 complete cds, highly similar to Homo sapiens 5-hydroxytryptamine (serotonin) receptor 1A (HTR1A), mRNA.
BC136263 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 1A, mRNA (cDNA clone MGC:167873 IMAGE:9020250), complete cds.
AF498978 - Homo sapiens 5-hydroxytryptamine receptor 1A (HTR1A) mRNA, complete cds.
BC069159 - Homo sapiens 5-hydroxytryptamine (serotonin) receptor 1A, mRNA (cDNA clone MGC:95445 IMAGE:7217020), complete cds.
AK314187 - Homo sapiens cDNA, FLJ94910.
AB464441 - Synthetic construct DNA, clone: pF1KB9864, Homo sapiens HTR1A gene for 5-hydroxytryptamine (serotonin) receptor 1A, without stop codon, in Flexi system.
S64045 - 5HT1a=5-hydroxytryptamine receptor {transmembrane regions 5 and 6} [human, T cells, mRNA Partial, 503 nt].
MP262543 - Sequence 47 from Patent EP3524679.
MB471130 - JP 2019172696-A/47: MICRO-RNAS AND COMPOSITIONS COMPRISING SAME FOR THE TREATMENT AND DIAGNOSIS OF SEROTONIN-, ADRENALIN-, NORADRENALIN-, GLUTAMATE-, AND CORTICOTROPIN-RELEASING HORMONE-ASSOCIATED MEDICAL CONDITIONS.

-  Other Names for This Gene
  Alternate Gene Symbols: 5HT1A , ENST00000323865.1, ENST00000323865.2, ENST00000323865.3, ENST00000323865.4, hCG_16836 , HTR1A , NM_000524, Q5ZGX3, Q5ZGX3_HUMAN, uc317rny.1, uc317rny.2
UCSC ID: ENST00000323865.5_6
RefSeq Accession: NM_000524.4
Protein: Q5ZGX3

-  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.