Htr3a (5-hydroxytryptamine receptor 3A) - Rat Genome Database

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Gene: Htr3a (5-hydroxytryptamine receptor 3A) Rattus norvegicus
Analyze
Symbol: Htr3a
Name: 5-hydroxytryptamine receptor 3A
RGD ID: 61818
Description: Enables serotonin-gated monoatomic cation channel activity. Involved in behavioral response to ethanol; cellular response to growth factor stimulus; and response to cocaine. Located in axon and neuronal cell body. Is active in glutamatergic synapse; postsynaptic membrane; and presynaptic membrane. Biomarker of alcohol dependence. Human ortholog(s) of this gene implicated in alcohol dependence; cocaine dependence; heroin dependence; irritable bowel syndrome; and nicotine dependence. Orthologous to human HTR3A (5-hydroxytryptamine receptor 3A); INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 1-bromopropane; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 5-HT-3; 5-HT3; 5-HT3 receptor; 5-HT3-A; 5-HT3A; 5-HT3R; 5-hydroxytryptamine (serotonin) receptor 3a; 5-hydroxytryptamine (serotonin) receptor 3A, ionotropic; 5-hydroxytryptamine receptor 3; 5HT3; 5HT3 receptor; Htr3; serotonin receptor 3A; serotonin-gated ion channel receptor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8858,138,514 - 58,150,960 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl858,138,226 - 58,150,884 (-)EnsemblGRCr8
mRatBN7.2849,242,018 - 49,254,475 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl849,242,020 - 49,254,389 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx854,747,862 - 54,760,233 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0853,026,735 - 53,039,101 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0850,890,989 - 50,903,355 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0853,211,436 - 53,223,878 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl853,211,438 - 53,223,804 (-)Ensemblrn6Rnor6.0
Rnor_5.0851,803,895 - 51,816,278 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4852,161,147 - 52,173,514 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera848,799,808 - 48,812,052 (-)NCBICelera
RGSC_v3.1852,180,200 - 52,192,425 (-)NCBI
Cytogenetic Map8q23NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1,1-trichloroethane  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1-bromopropane  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-methylserotonin  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
6alpha-methylprednisolone  (ISO)
acrylamide  (EXP)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
alfentanil  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
amphotericin B  (ISO)
atrazine  (ISO)
benzamides  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
butan-1-ol  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
capsaicin  (ISO)
carvacrol  (ISO)
CGP 52608  (ISO)
cisplatin  (ISO)
citronellol  (ISO)
clozapine  (ISO)
cocaine  (EXP,ISO)
Cuprizon  (EXP)
dexamethasone  (ISO)
diazinon  (EXP)
dieldrin  (EXP)
dopamine  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
fipronil  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
gamma-aminobutyric acid  (EXP)
Geniposide  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
gingerol  (ISO)
GR 65630  (ISO)
hydromorphone  (ISO)
lead diacetate  (EXP)
lipopolysaccharide  (ISO)
m-Chlorophenylbiguanide  (EXP)
methamphetamine  (ISO)
methimazole  (EXP)
metoclopramide  (EXP,ISO)
morphine  (ISO)
N,N-diethyl-m-toluamide  (ISO)
nickel atom  (EXP)
nitrates  (EXP)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
Ondansetron  (EXP,ISO)
paracetamol  (EXP)
Polygodial  (ISO)
potassium dichromate  (ISO)
propan-1-ol  (ISO)
pyridines  (EXP)
raloxifene  (ISO)
Ramosetron hydrochloride  (EXP,ISO)
remifentanil  (ISO)
SB 431542  (ISO)
serotonin  (EXP,ISO)
sodium arsenite  (ISO)
sufentanil  (ISO)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP)
thymol  (ISO)
thymol sulfate(1-)  (ISO)
toluene  (ISO)
trichloroethene  (EXP,ISO)
valproic acid  (ISO)
vortioxetine  (EXP,ISO)
wogonin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Induction by cocaine of the serotonergic 5-HT3 receptor in rat cerebellum. Arpin-Bott MP, etal., Ann N Y Acad Sci. 2006 Aug;1074:382-9.
2. Ethanol-induced Htr3a promoter methylation changes in mouse blood and brain. Barker JM, etal., Alcohol Clin Exp Res. 2013 Jan;37 Suppl 1(Suppl 1):E101-7. doi: 10.1111/j.1530-0277.2012.01906.x. Epub 2012 Jul 26.
3. Central 5-HT3 receptor stimulation by m-CPBG increases blood glucose in rats. Carvalho F, etal., Horm Metab Res 2002 Feb;34(2):55-61.
4. Immunolabelling of the 5-HT 3B receptor subunit in the central and peripheral nervous systems in rodents. Doucet E, etal., Eur J Neurosci. 2007 Jul;26(2):355-66.
5. 5-HT3 receptors mediate serotonergic fast synaptic excitation of neocortical vasoactive intestinal peptide/cholecystokinin interneurons. Ferezou I, etal., J Neurosci 2002 Sep 1;22(17):7389-97.
6. Ligand-induced 5-HT3 receptor internalization in enteric neurons in rat ileum. Freeman SL, etal., Gastroenterology. 2006 Jul;131(1):97-107.
7. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Localization of 5-HT2A, 5-HT3, 5-HT5A and 5-HT7 receptor-like immunoreactivity in the rat cerebellum. Geurts FJ, etal., J Chem Neuroanat 2002 Jun;24(1):65-74.
9. Association and cis-mQTL analysis of variants in serotonergic genes associated with nicotine dependence in Chinese Han smokers. Han H, etal., Transl Psychiatry. 2018 Nov 7;8(1):243. doi: 10.1038/s41398-018-0290-8.
10. Evidence for expression of heteromeric serotonin 5-HT(3) receptors in rodents. Hanna MC, etal., J Neurochem 2000 Jul;75(1):240-7.
11. Determination of genotype combinations that can predict the outcome of the treatment of alcohol dependence using the 5-HT(3) antagonist ondansetron. Johnson BA, etal., Am J Psychiatry. 2013 Sep;170(9):1020-31. doi: 10.1176/appi.ajp.2013.12091163.
12. The HTR3A polymorphism c. -42C>T is associated with amygdala responsiveness in patients with irritable bowel syndrome. Kilpatrick LA, etal., Gastroenterology. 2011 Jun;140(7):1943-51. Epub 2011 Mar 21.
13. Heroin addiction in African Americans: a hypothesis-driven association study. Levran O, etal., Genes Brain Behav. 2009 Jul;8(5):531-40. Epub 2009 Jun 20.
14. Susceptibility loci for heroin and cocaine addiction in the serotonergic and adrenergic pathways in populations of different ancestry. Levran O, etal., Pharmacogenomics. 2015;16(12):1329-42. doi: 10.2217/pgs.15.86. Epub 2015 Jul 31.
15. Altered gene expression in the spleen of adolescent rats following high ethanol concentration binge drinking. Liu X, etal., Int J Clin Exp Med. 2011;4(4):252-7. Epub 2011 Oct 11.
16. Characterisation of axon terminals in the rat dorsal horn that are immunoreactive for serotonin 5-HT3A receptor subunits. Maxwell DJ, etal., Exp Brain Res. 2003 Mar;149(1):114-24. doi: 10.1007/s00221-002-1339-7. Epub 2003 Jan 11.
17. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
18. Differential subcellular localization of the 5-HT3-As receptor subunit in the rat central nervous system. Miquel MC, etal., Eur J Neurosci. 2002 Feb;15(3):449-57.
19. Molecular cloning of human 5-hydroxytryptamine3 receptor: heterogeneity in distribution and function among species. Miyake A, etal., Mol Pharmacol 1995 Sep;48(3):407-16.
20. Differential composition of 5-hydroxytryptamine3 receptors synthesized in the rat CNS and peripheral nervous system. Morales M and Wang SD, J Neurosci 2002 Aug 1;22(15):6732-41.
21. Serotonin receptor 3A polymorphism c.-42C > T is associated with severe dyspepsia. Mujakovic S, etal., BMC Med Genet. 2011 Oct 20;12:140. doi: 10.1186/1471-2350-12-140.
22. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Identification of neurotransmitter receptor genes involved in alcohol self-administration in the rat prefrontal cortex, hippocampus and amygdala. Pickering C, etal., Prog Neuropsychopharmacol Biol Psychiatry. 2007 Jan 30;31(1):53-64. Epub 2006 Jul 28.
24. GOA pipeline RGD automated data pipeline
25. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
26. Association, interaction, and replication analysis of genes encoding serotonin transporter and 5-HT3 receptor subunits A and B in alcohol dependence. Seneviratne C, etal., Hum Genet. 2013 Oct;132(10):1165-76. doi: 10.1007/s00439-013-1319-y. Epub 2013 Jun 12.
27. Serotonin Receptor HTR3A Gene Polymorphisms rs1985242 and rs1062613, E-Cigarette Use and Personality. Suchanecka A, etal., Int J Environ Res Public Health. 2022 Apr 14;19(8):4746. doi: 10.3390/ijerph19084746.
28. Identification of critical residues in loop E in the 5-HT3ASR binding site. Venkataraman P, etal., BMC Biochem 2002 Jun 13;3(1):15.
29. Histone acetylation of the htr3a gene in the prefrontal cortex of Wistar rats regulates ethanol-seeking behavior. Xu Y, etal., Neural Regen Res. 2012 May 5;7(13):1021-8. doi: 10.3969/j.issn.1673-5374.2012.13.009.
30. The association of HTR3A mRNA expression and craving in Han Chinese alcohol-dependent patients: a preliminary study. Xu YH, etal., Am J Drug Alcohol Abuse. 2016 May;42(3):316-24. doi: 10.3109/00952990.2016.1160098. Epub 2016 May 4.
31. Association and interaction analyses of 5-HT3 receptor and serotonin transporter genes with alcohol, cocaine, and nicotine dependence using the SAGE data. Yang J and Li MD, Hum Genet. 2014 Jul;133(7):905-18. doi: 10.1007/s00439-014-1431-7. Epub 2014 Mar 4.
32. Serotonin transporter and receptor genes significantly impact nicotine dependence through genetic interactions in both European American and African American smokers. Yang Z, etal., Drug Alcohol Depend. 2013 May 1;129(3):217-25. doi: 10.1016/j.drugalcdep.2012.12.007. Epub 2013 Jan 4.
Additional References at PubMed
PMID:7509203   PMID:7616200   PMID:9950429   PMID:12411518   PMID:12411529   PMID:12611954   PMID:12617944   PMID:12937671   PMID:14499437   PMID:14648680   PMID:15135935   PMID:15905216  
PMID:15975728   PMID:16407231   PMID:17150309   PMID:17161536   PMID:17467903   PMID:18063656   PMID:18313044   PMID:18357529   PMID:18931259   PMID:19026634   PMID:19077442   PMID:19154775  
PMID:19247214   PMID:19556691   PMID:19558425   PMID:19799413   PMID:19944698   PMID:20023641   PMID:20359130   PMID:20682192   PMID:20691988   PMID:20817619   PMID:21186576   PMID:21291881  
PMID:21514668   PMID:22289689   PMID:22358093   PMID:22528232   PMID:22845622   PMID:23035083   PMID:23399761   PMID:24949809   PMID:25119048   PMID:25913635   PMID:26724993   PMID:27904941  
PMID:28115218   PMID:28761086   PMID:28795477   PMID:32537854   PMID:33160048   PMID:38285939  


Genomics

Comparative Map Data
Htr3a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8858,138,514 - 58,150,960 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl858,138,226 - 58,150,884 (-)EnsemblGRCr8
mRatBN7.2849,242,018 - 49,254,475 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl849,242,020 - 49,254,389 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx854,747,862 - 54,760,233 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0853,026,735 - 53,039,101 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0850,890,989 - 50,903,355 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0853,211,436 - 53,223,878 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl853,211,438 - 53,223,804 (-)Ensemblrn6Rnor6.0
Rnor_5.0851,803,895 - 51,816,278 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4852,161,147 - 52,173,514 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera848,799,808 - 48,812,052 (-)NCBICelera
RGSC_v3.1852,180,200 - 52,192,425 (-)NCBI
Cytogenetic Map8q23NCBI
HTR3A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811113,975,108 - 113,990,313 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11113,975,075 - 113,990,313 (+)Ensemblhg38GRCh38
GRCh3711113,845,830 - 113,861,035 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611113,351,120 - 113,366,245 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3411113,351,119 - 113,366,242NCBI
Celera11110,998,666 - 111,013,897 (+)NCBICelera
Cytogenetic Map11q23.2NCBI
HuRef11109,774,553 - 109,789,782 (+)NCBIHuRef
CHM1_111113,729,890 - 113,745,126 (+)NCBICHM1_1
T2T-CHM13v2.011113,985,458 - 114,000,652 (+)NCBIT2T-CHM13v2.0
Htr3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39948,810,513 - 48,822,451 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl948,810,513 - 48,822,399 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38948,899,213 - 48,911,152 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl948,899,213 - 48,911,099 (-)Ensemblmm10GRCm38
MGSCv37948,707,318 - 48,719,204 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36948,651,146 - 48,662,968 (-)NCBIMGSCv36mm8
Celera946,196,535 - 46,208,676 (-)NCBICelera
Cytogenetic Map9A5.3NCBI
cM Map926.53NCBI
Htr3a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541215,589,117 - 15,602,211 (+)Ensembl
ChiLan1.0NW_00495541215,589,117 - 15,602,211 (+)NCBIChiLan1.0ChiLan1.0
HTR3A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29114,713,868 - 114,733,616 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111115,808,270 - 115,827,858 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011108,851,954 - 108,869,119 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111112,696,271 - 112,711,507 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11112,695,891 - 112,711,695 (+)EnsemblpanPan2panpan1.1
HTR3A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1519,324,087 - 19,338,250 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl519,324,444 - 19,338,294 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha519,248,270 - 19,261,807 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0519,345,236 - 19,358,844 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl519,345,236 - 19,359,053 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1519,409,269 - 19,422,833 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0519,311,211 - 19,324,318 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0519,357,640 - 19,371,211 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
HTR3A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl941,576,796 - 41,589,538 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1941,575,085 - 41,589,083 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2946,389,414 - 46,403,415 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HTR3A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11105,359,139 - 105,375,217 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1105,359,730 - 105,374,664 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604320,649,879 - 20,665,225 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Htr3a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247849,470,344 - 9,483,595 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247849,470,440 - 9,483,132 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Htr3a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1843,389,669 - 43,401,573 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Htr3a
69 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:206
Count of miRNA genes:134
Interacting mature miRNAs:154
Transcripts:ENSRNOT00000008965
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83975280384752803Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83910625891341052Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83910625891341052Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)839106363103375781Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)85076395195763951Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83910625884106258Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)85158969999045312Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)839106363103375781Rat
5684993Bmd84Bone mineral density QTL 844.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)85158969958991895Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)84447792689477926Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)839106258103375958Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83910625891341052Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)835464071107982864Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)84754141992541419Rat
2302278Gluco36Glucose level QTL 364.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)83776085958991895Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)83776085961459705Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)83546407171842899Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)855428416107963099Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83910625884106258Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84961020468373388Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)83154366176543661Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)850763951107970527Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625884106258Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84961020494610204Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84444783789447837Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)835464071107982864Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625867378345Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83910625891341052Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)84924517894245178Rat
724540Uae8Urinary albumin excretion QTL 85urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)839106258103375958Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)835464071107982864Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)85076395167219641Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)84924517894245178Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)84447504389475043Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
10 41 135 36 27 8 11 8 1 120 68 120 34 56 19 25 25

Sequence


Ensembl Acc Id: ENSRNOT00000008965   ⟹   ENSRNOP00000008965
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl858,138,226 - 58,150,884 (-)Ensembl
mRatBN7.2 Ensembl849,242,033 - 49,254,389 (-)Ensembl
Rnor_6.0 Ensembl853,211,438 - 53,223,804 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000105962   ⟹   ENSRNOP00000092870
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl858,138,516 - 58,150,026 (-)Ensembl
mRatBN7.2 Ensembl849,242,020 - 49,252,411 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114957   ⟹   ENSRNOP00000091167
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl858,138,516 - 58,149,500 (-)Ensembl
mRatBN7.2 Ensembl849,242,020 - 49,253,005 (-)Ensembl
RefSeq Acc Id: NM_024394   ⟹   NP_077370
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,516 - 58,150,884 (-)NCBI
mRatBN7.2849,242,020 - 49,254,389 (-)NCBI
Rnor_6.0853,211,438 - 53,223,804 (-)NCBI
Rnor_5.0851,803,895 - 51,816,278 (-)NCBI
RGSC_v3.4852,161,147 - 52,173,514 (-)RGD
Celera848,799,808 - 48,812,052 (-)RGD
Sequence:
RefSeq Acc Id: XM_006243021   ⟹   XP_006243083
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,514 - 58,150,957 (-)NCBI
mRatBN7.2849,242,018 - 49,254,471 (-)NCBI
Rnor_6.0853,211,436 - 53,223,877 (-)NCBI
Rnor_5.0851,803,895 - 51,816,278 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017595928   ⟹   XP_017451417
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,514 - 58,150,960 (-)NCBI
mRatBN7.2849,242,018 - 49,254,475 (-)NCBI
Rnor_6.0853,211,436 - 53,223,878 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039082195   ⟹   XP_038938123
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,514 - 58,146,170 (-)NCBI
mRatBN7.2849,242,018 - 49,249,675 (-)NCBI
RefSeq Acc Id: XM_039082196   ⟹   XP_038938124
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,514 - 58,148,442 (-)NCBI
mRatBN7.2849,242,018 - 49,251,949 (-)NCBI
RefSeq Acc Id: XM_039082197   ⟹   XP_038938125
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,514 - 58,148,435 (-)NCBI
mRatBN7.2849,242,018 - 49,251,946 (-)NCBI
RefSeq Acc Id: XM_063266201   ⟹   XP_063122271
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8858,138,514 - 58,150,955 (-)NCBI
RefSeq Acc Id: NP_077370   ⟸   NM_024394
- Peptide Label: precursor
- UniProtKB: P35563 (UniProtKB/Swiss-Prot),   Q62999 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243083   ⟸   XM_006243021
- Peptide Label: isoform X1
- UniProtKB: A0A8L2Q4R5 (UniProtKB/TrEMBL),   A6J4A7 (UniProtKB/TrEMBL),   Q62999 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017451417   ⟸   XM_017595928
- Peptide Label: isoform X2
- UniProtKB: Q62999 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000008965   ⟸   ENSRNOT00000008965
RefSeq Acc Id: XP_038938124   ⟸   XM_039082196
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038938125   ⟸   XM_039082197
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038938123   ⟸   XM_039082195
- Peptide Label: isoform X4
Ensembl Acc Id: ENSRNOP00000092870   ⟸   ENSRNOT00000105962
Ensembl Acc Id: ENSRNOP00000091167   ⟸   ENSRNOT00000114957
RefSeq Acc Id: XP_063122271   ⟸   XM_063266201
- Peptide Label: isoform X3
- UniProtKB: Q62999 (UniProtKB/TrEMBL)
Protein Domains
Neurotransmitter-gated ion-channel ligand-binding   Neurotransmitter-gated ion-channel transmembrane

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P35563-F1-model_v2 AlphaFold P35563 1-483 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61818 AgrOrtholog
BioCyc Gene G2FUF-30594 BioCyc
Ensembl Genes ENSRNOG00000006595 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000008965 ENTREZGENE
  ENSRNOT00000105962 ENTREZGENE
Gene3D-CATH 1.20.58.390 UniProtKB/Swiss-Prot
  2.70.170.10 UniProtKB/Swiss-Prot
InterPro 5HT3_rcpt UniProtKB/Swiss-Prot
  5HT3_rcpt_A UniProtKB/Swiss-Prot
  LGIC_TM_5-HT3 UniProtKB/Swiss-Prot
  Neur_chan_lig-bd UniProtKB/Swiss-Prot
  Neur_chan_lig-bd_sf UniProtKB/Swiss-Prot
  Neur_channel UniProtKB/Swiss-Prot
  Neuro-gated_channel_TM_sf UniProtKB/Swiss-Prot
  Neuro_actylchol_rec UniProtKB/Swiss-Prot
  Neurotrans-gated_channel_TM UniProtKB/Swiss-Prot
  Neurotransmitter_ion_chnl_CS UniProtKB/Swiss-Prot
KEGG Report rno:79246 UniProtKB/Swiss-Prot
NCBI Gene 79246 ENTREZGENE
PANTHER PTHR18945 UniProtKB/Swiss-Prot
Pfam Neur_chan_LBD UniProtKB/Swiss-Prot
  Neur_chan_memb UniProtKB/Swiss-Prot
PharmGKB HTR3A RGD
PhenoGen Htr3a PhenoGen
PRINTS 5HT3ARECEPTR UniProtKB/Swiss-Prot
  5HT3RECEPTOR UniProtKB/Swiss-Prot
  NRIONCHANNEL UniProtKB/Swiss-Prot
PROSITE NEUROTR_ION_CHANNEL UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000006595 RatGTEx
Superfamily-SCOP SSF63712 UniProtKB/Swiss-Prot
  SSF90112 UniProtKB/Swiss-Prot
UniProt 5HT3A_RAT UniProtKB/Swiss-Prot
  A0A8I6AD80_RAT UniProtKB/TrEMBL
  A0A8I6AHF0_RAT UniProtKB/TrEMBL
  A0A8L2Q4R5 ENTREZGENE, UniProtKB/TrEMBL
  A6J4A7 ENTREZGENE, UniProtKB/TrEMBL
  P35563 ENTREZGENE
  Q62999 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Htr3a  5-hydroxytryptamine receptor 3A  Htr3a  5-hydroxytryptamine (serotonin) receptor 3A, ionotropic  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-17 Htr3a  5-hydroxytryptamine (serotonin) receptor 3A, ionotropic  Htr3a  5-hydroxytryptamine (serotonin) receptor 3a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Htr3a  5-hydroxytryptamine (serotonin) receptor 3a      Name updated 70584 APPROVED
2001-05-08 Htr3  5-Hydroxytryptamine (serotonin) receptor 3A      Symbol inconsistent with Human and Mouse 62408 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_drugs HT3R antagonist tropisetron blocks fast membrane potential depolarizations induced by serotonin 625727
gene_expression expressed in central and peripheral neurons 625727
gene_expression expressed in the cerebellum 727384
gene_expression expressed in a subset of GABAergic interneurons 625727
gene_function ligand-gated ion channel receptor for serotonin 625727
gene_function cation-selective ligand-gated ion channel 625614
gene_other dendrites and somata of 5HT3R secreting neurons placed in close apposition of serotonergic fibres indicating possible synaptic contacts 625727
gene_other dendrites and somata of 5HT3R secreting neurons are placed in close apposition of serotonergic fibres indicating possible synaptic contacts 625727
gene_process may play an important role in synaptic activation in neocortical VIP/CCK in GABAergic interneurons by serotonergic afferent fibres from brainstem raphe nuclei 625727
gene_process may be involved in mediating fast synaptic transmission in neocortex region of brain 625614
gene_process mediates visceral afferent information and visceral reflexes, nociception and cognition 625727