Htr1a (5-hydroxytryptamine receptor 1A) - Rat Genome Database

Send us a Message

Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Htr1a (5-hydroxytryptamine receptor 1A) Rattus norvegicus
Symbol: Htr1a
Name: 5-hydroxytryptamine receptor 1A
RGD ID: 2845
Description: Enables several functions, including G protein-coupled serotonin receptor activity; G-protein alpha-subunit binding activity; and serotonin binding activity. Involved in several processes, including NMDA glutamate receptor clustering; adenylate cyclase-inhibiting serotonin receptor signaling pathway; and negative regulation of gamma-aminobutyric acid secretion. Located in axon hillock. Is active in GABA-ergic synapse and presynaptic membrane. Used to study Parkinson's disease and panic disorder. Human ortholog(s) of this gene implicated in anxiety disorder; depressive disorder; and panic disorder. Orthologous to human HTR1A (5-hydroxytryptamine receptor 1A); PARTICIPATES IN alfentanil pharmacodynamics pathway; bupivacaine pharmacodynamics pathway; buprenorphine pharmacodynamics pathway; INTERACTS WITH (+)-pilocarpine; (S)-nicotine; 1-(3-chlorophenyl)piperazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5-HT-1A; 5-HT1A; 5-hydroxytryptamine (serotonin) receptor 1A; 5-hydroxytryptamine (serotonin) receptor 1A, G protein-coupled; 5HT1A; RAT5HT1A; serotonin 1A receptor; serotonin 5-HT1A receptor; serotonin receptor 1A
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Htr1am1Mcwi   Htr1am2Mcwi  
Genetic Models: FHH-Htr1am1Mcwi SS-Htr1am2Mcwi
Candidate Gene For: Bp115
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2236,693,462 - 36,698,026 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl236,694,174 - 36,695,442 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx243,823,087 - 43,824,355 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0241,881,727 - 41,882,995 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0236,737,009 - 36,738,277 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0236,246,628 - 36,247,896 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl236,246,628 - 36,247,896 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0255,362,662 - 55,363,930 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4236,434,518 - 36,435,786 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1236,354,886 - 36,356,155 (+)NCBI
Celera232,636,756 - 32,638,024 (+)NCBICelera
RH 3.4 Map2156.5RGD
Cytogenetic Map2q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(S)-nicotine  (EXP,ISO)
(Z)-chlorprothixene  (ISO)
1-(3-chlorophenyl)piperazine  (EXP)
1-bromopropane  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
3',5'-cyclic AMP  (ISO)
3,5,6-trichloro-2-pyridinol  (ISO)
3,5,6-trichloropyridine-2-one  (ISO)
3-bromo-N-[[(2S)-1-ethyl-2-pyrrolidinyl]methyl]-2,6-dimethoxybenzamide  (EXP)
3-phenoxybenzoic acid  (ISO)
4,4'-sulfonyldiphenol  (EXP)
4-fluoro-N-\{2-[4-(7-methoxynaphthalen-1-yl)piperazin-1-yl]ethyl\}benzamide hydrochloride  (EXP)
5-carboxamidotryptamine  (EXP,ISO)
aflatoxin B1  (ISO)
albiflorin  (EXP)
alverine  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
apocynin  (ISO)
apomorphine  (EXP)
arachidonic acid  (ISO)
aripiprazole  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (EXP,ISO)
Bifeprunox  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
bucladesine  (ISO)
buspirone  (EXP,ISO)
Butylbenzyl phthalate  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
cannabidiol  (ISO)
cannabidiolic acid  (ISO)
chlorpyrifos  (EXP,ISO)
clofibrate  (ISO)
clozapine  (EXP,ISO)
cocaine  (EXP)
colforsin daropate hydrochloride  (ISO)
compound 48/80  (EXP)
Cuprizon  (EXP)
curcumin  (EXP)
cyhalothrin  (EXP)
desipramine  (EXP,ISO)
dexamethasone  (EXP)
diazinon  (EXP)
dibutyl phthalate  (ISO)
dieldrin  (EXP)
diethyl phthalate  (ISO)
Diisodecyl phthalate  (ISO)
doxepin  (EXP)
ethanol  (EXP,ISO)
etoperidone  (ISO)
fluoxetine  (EXP,ISO)
hydroquinone  (ISO)
imipramine  (EXP)
isotretinoin  (ISO)
lipopolysaccharide  (EXP)
loxapine  (EXP)
lurasidone hydrochloride  (ISO)
magnesium atom  (EXP)
manganese atom  (EXP)
manganese(0)  (EXP)
medroxyprogesterone acetate  (ISO)
melittin  (ISO)
metformin  (EXP)
methamidophos  (ISO)
methamphetamine  (ISO)
methiothepin  (EXP,ISO)
morphine  (EXP)
N,O-dimethyltyramine  (EXP)
N-[2-[4-(2-methoxyphenyl)-1-piperazinyl]ethyl]-N-(2-pyridinyl)cyclohexanecarboxamide  (EXP,ISO)
naltrexone  (ISO)
NAN 190 hydrobromide  (EXP,ISO)
nefazodone  (ISO)
nicotine  (EXP,ISO)
nitrates  (EXP)
ochratoxin A  (EXP)
oxidopamine  (EXP)
parathion  (EXP)
physostigmine  (EXP)
pindolol  (EXP)
reserpine  (ISO)
risperidone  (EXP)
rottlerin  (ISO)
scopolamine  (EXP)
serotonin  (EXP,ISO)
sertraline  (EXP)
sodium arsenite  (EXP)
Soman  (EXP)
spiperone  (EXP,ISO)
streptozocin  (EXP)
tacrolimus hydrate  (ISO)
tertatolol  (EXP)
thapsigargin  (ISO)
trazodone  (EXP,ISO)
vortioxetine  (ISO)
ziprasidone  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
alfentanil pharmacodynamics pathway  (ISO)
bupivacaine pharmacodynamics pathway  (ISO)
buprenorphine pharmacodynamics pathway  (ISO)
chloroprocaine pharmacodynamics pathway  (ISO)
citalopram pharmacodynamics pathway  (ISO)
cocaine pharmacodynamics pathway  (ISO)
codeine and morphine pharmacodynamics pathway  (ISO)
desipramine pharmacodynamics pathway  (ISO)
diphenoxylate pharmacodynamics pathway  (ISO)
escitalopram pharmacodynamics pathway  (ISO)
ethylmorphine pharmacodynamics pathway  (ISO)
fentanyl pharmacodynamics pathway  (ISO)
fluoxetine pharmacodynamics pathway  (ISO)
heroin pharmacodynamics pathway  (ISO)
hydrocodone pharmacodynamics pathway  (ISO)
hydromorphone pharmacodynamics pathway  (ISO)
imipramine pharmacodynamics pathway  (ISO)
levacetylmethadol pharmacodynamics pathway  (ISO)
levobupivacaine phgarmacodynamics pathway  (ISO)
levorphanol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
mepivacaine pharmacodynamics pathway  (ISO)
methadone pharmacodynamics pathway  (ISO)
nalbuphine pharmacodynamics pathway  (ISO)
naloxone pharmacodynamics pathway  (ISO)
naltrexone pharmacodynamics pathway  (ISO)
nicotine pharmacodynamics pathway  (ISO)
oxybuprocaine pharmacodynamics pathway  (ISO)
oxycodone pharmacodynamics pathway  (ISO)
oxymorphone pharmacodynamics pathway  (ISO)
pentazocine pharmacodynamics pathway  (ISO)
prilocaine pharmacodynamics pathway  (ISO)
procaine pharmacodynamics pathway  (ISO)
remifentanil pharmacodynamics pathway  (ISO)
ropivacaine pharmacodynamics pathway  (ISO)
tramadol pharmacodynamics pathway  (ISO)


References - curated
# Reference Title Reference Citation
1. Panic disorder and serotonergic genes (SLC6A4, HTR1A and HTR2A): Association and interaction with childhood trauma and parenting. Blaya C, etal., Neurosci Lett. 2010 Nov 12;485(1):11-5. Epub 2010 Sep 15.
2. Existence of Brain 5-HT1A-5-HT2A Isoreceptor Complexes with Antagonistic Allosteric Receptor-Receptor Interactions Regulating 5-HT1A Receptor Recognition. Borroto-Escuela DO, etal., ACS Omega. 2017 Aug 31;2(8):4779-4789. doi: 10.1021/acsomega.7b00629. Epub 2017 Aug 22.
3. Evidence for the existence of FGFR1-5-HT1A heteroreceptor complexes in the midbrain raphe 5-HT system. Borroto-Escuela DO, etal., Biochem Biophys Res Commun. 2015 Jan 2;456(1):489-93. doi: 10.1016/j.bbrc.2014.11.112. Epub 2014 Dec 6.
4. Fibroblast growth factor receptor 1- 5-hydroxytryptamine 1A heteroreceptor complexes and their enhancement of hippocampal plasticity. Borroto-Escuela DO, etal., Biol Psychiatry. 2012 Jan 1;71(1):84-91. doi: 10.1016/j.biopsych.2011.09.012. Epub 2011 Oct 27.
5. The existence of FGFR1-5-HT1A receptor heterocomplexes in midbrain 5-HT neurons of the rat: relevance for neuroplasticity. Borroto-Escuela DO, etal., J Neurosci. 2012 May 2;32(18):6295-303. doi: 10.1523/JNEUROSCI.4203-11.2012.
6. Serotonin 5-HT1A receptors regulate AMPA receptor channels through inhibiting Ca2+/calmodulin-dependent kinase II in prefrontal cortical pyramidal neurons. Cai X, etal., J Biol Chem 2002 Sep 27;277(39):36553-62.
7. Targeting of the 5-HT1A serotonin receptor to neuronal dendrites is mediated by Yif1B. Carrel D, etal., J Neurosci. 2008 Aug 6;28(32):8063-73. doi: 10.1523/JNEUROSCI.4487-07.2008.
8. 5-HT1A receptor immunoreactivity in hypothalamic neurons involved in body weight control. Collin M, etal., Neuroreport 2002 May 24;13(7):945-51.
9. CB1 receptors in the paraventricular nucleus of the hypothalamus modulate the release of 5-HT and GABA to stimulate food intake in rats. Cruz-Martínez AM, etal., Eur Neuropsychopharmacol. 2018 Nov;28(11):1247-1259. doi: 10.1016/j.euroneuro.2018.08.002. Epub 2018 Sep 11.
10. Binding thermodynamics of 5-HT1A receptor ligands. Dalpiaz A, etal., Eur J Pharmacol. 1996 Sep 19;312(1):107-14.
11. Effects of isolation-rearing on serotonin-1A and M1-muscarinic receptor messenger RNA expression in the hipocampal formation of rats. Del-Bel EA, etal., Neurosci Lett 2002 Oct 31;332(2):123-6.
12. Mapping of rat chromosome 2 markers generated from chromosome-sorted DNA. Deng AY, etal., Mamm Genome 1997 Oct;8(10):731-5.
13. PET imaging of serotonin 1A receptor binding in depression. Drevets WC, etal., Biol Psychiatry. 1999 Nov 15;46(10):1375-87.
14. Local modulation of striatal glutamate efflux by serotonin 1A receptor stimulation in dyskinetic, hemiparkinsonian rats. Dupre KB, etal., Exp Neurol. 2011 Jun;229(2):288-99. Epub 2011 Feb 22.
15. 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.
16. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
17. Elevated anxiety and antidepressant-like responses in serotonin 5-HT1A receptor mutant mice. Heisler LK, etal., Proc Natl Acad Sci U S A 1998 Dec 8;95(25):15049-54.
18. Differential regulation of 5-HT1A receptor-G protein interactions in brain following chronic antidepressant administration. Hensler JG Neuropsychopharmacology. 2002 May;26(5):565-73.
19. Presynaptic serotonergic inhibition of GABAergic synaptic transmission in mechanically dissociated rat basolateral amygdala neurons. Koyama S, etal., J Physiol. 1999 Jul 15;518 ( Pt 2):525-38.
20. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
21. Clinical manifestation of alcohol withdrawal symptoms related to genetic polymorphisms of two serotonin receptors and serotonin transporter. Lee YS, etal., Eur Addict Res. 2009;15(1):39-46. doi: 10.1159/000173008. Epub 2008 Dec 2.
22. Regional differences in the coupling of 5-hydroxytryptamine-1A receptors to G proteins in the rat brain. Mannoury la Cour C, etal., Mol Pharmacol. 2006 Sep;70(3):1013-21. Epub 2006 Jun 13.
23. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
24. Polymorphic variation at the serotonin 1-A receptor gene is associated with comorbid depression and generalized anxiety. Molina E, etal., Psychiatr Genet. 2011 Aug;21(4):195-201.
25. Buspirone improves 6-hydroxydopamine-induced catalepsy through stimulation of nigral 5-HT(1A) receptors in rats. Nayebi AM, etal., Pharmacol Rep. 2010 Mar-Apr;62(2):258-64.
26. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
27. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
28. Whole-cell recordings of inwardly rectifying K+ currents activated by 5-HT1A receptors on dorsal raphe neurones of the adult rat. Penington NJ, etal., J Physiol. 1993 Sep;469:387-405.
29. Downregulation of 5-HT1A receptors in rat hypothalamus and dentate gyrus after "binge" pattern cocaine administration. Perret G, etal., Synapse. 1998 Oct;30(2):166-71. doi: 10.1002/(SICI)1098-2396(199810)30:2<166::AID-SYN6>3.0.CO;2-A.
30. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
31. Serotonin receptor 1A knockout: an animal model of anxiety-related disorder. Ramboz S, etal., Proc Natl Acad Sci U S A 1998 Nov 24;95(24):14476-81.
32. GOA pipeline RGD automated data pipeline
33. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
34. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
35. Effects of amperozide, 8-OH-DPAT, and FG 5974 on operant responding for ethanol. Roberts AJ, etal., Psychopharmacology (Berl). 1998 May;137(1):25-32. doi: 10.1007/s002130050589.
36. Serotonin-1A receptors in the dorsal periaqueductal gray matter mediate the panicolytic-like effect of pindolol and paroxetine combination in the elevated T-maze. Sela VR, etal., Neurosci Lett. 2011 May 9;495(1):63-6. Epub 2011 Mar 21.
37. Gene-based anchoring of the rat genetic linkage and cytogenetic maps: new regional localizations, orientation of the linkage groups, and insights into mammalian chromosome evolution. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
38. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
39. Serotonin receptor, SERT mRNA and correlations with symptoms in males with alcohol dependence and suicide. Thompson PM, etal., Acta Psychiatr Scand. 2012 Sep;126(3):165-74. doi: 10.1111/j.1600-0447.2011.01816.x. Epub 2011 Dec 19.
40. Selective heterologous regulation of 5-HT1A receptor-stimulated 35S GTPgammaS binding in the anterior cingulate cortex as a result of 5-HT2 receptor activation. Valdez M, etal., Brain Res 2002 Dec 6;957(1):174-82.
41. Quantitative autoradiography of multiple 5-HT1 receptor subtypes in the brain of control or 5,7-dihydroxytryptamine-treated rats. Verge D, etal., J Neurosci. 1986 Dec;6(12):3474-82.
42. Role of 5-HT1A receptors in the control of food intake in obese Zucker rats of different ages. Voigt JP, etal., Pharmacol Biochem Behav. 2002 May;72(1-2):403-9.
43. A search for colocalization of serotonin 5-HT2A and 5-HT1A receptors in the rat medial prefrontal and entorhinal cortices--immunohistochemical studies. Wedzony K, etal., J Physiol Pharmacol. 2008 Jun;59(2):229-38.
44. Localization of 5-HT1A and 5-HT2A positive cells in the brainstems of control age-matched and Alzheimer individuals. Yeung LY, etal., Age (Dordr). 2010 Dec;32(4):483-95. Epub 2010 May 28.
45. Tandospirone potentiates the fluoxetine-induced increases in extracellular dopamine via 5-HT(1A) receptors in the rat medial frontal cortex. Yoshino T, etal., Neurochem Int 2002 Apr;40(4):355-60.
46. Activation of 5-HT2A/C receptors counteracts 5-HT1A regulation of n-methyl-D-aspartate receptor channels in pyramidal neurons of prefrontal cortex. Yuen EY, etal., J Biol Chem. 2008 Jun 20;283(25):17194-204. doi: 10.1074/jbc.M801713200. Epub 2008 Apr 28.
47. Curcumin exerts antinociceptive effects in a mouse model of neuropathic pain: Descending monoamine system and opioid receptors are differentially involved. Zhao X, etal., Neuropharmacology. 2011 Sep 19.
Additional References at PubMed
PMID:2156831   PMID:8254366   PMID:8393041   PMID:11080193   PMID:11792461   PMID:12127030   PMID:12566941   PMID:12566942   PMID:12865163   PMID:14515335   PMID:14519510   PMID:14557612  
PMID:14581120   PMID:14742306   PMID:14752100   PMID:15115744   PMID:15174080   PMID:15194873   PMID:15316241   PMID:15378508   PMID:15521063   PMID:15652697   PMID:15713268   PMID:15726642  
PMID:15756929   PMID:15939084   PMID:15939808   PMID:16306396   PMID:16310183   PMID:16410407   PMID:16438111   PMID:16438112   PMID:16533571   PMID:16677634   PMID:16759802   PMID:17088403  
PMID:17204596   PMID:17320854   PMID:17356576   PMID:17526557   PMID:17579783   PMID:17602794   PMID:17609739   PMID:17853773   PMID:17959705   PMID:18064060   PMID:18320717   PMID:18410179  
PMID:18441384   PMID:18513318   PMID:18556076   PMID:18579305   PMID:18581099   PMID:18606402   PMID:18667366   PMID:18672336   PMID:18801389   PMID:18930864   PMID:19121358   PMID:19244581  
PMID:19260781   PMID:19274431   PMID:19309036   PMID:19328786   PMID:19447286   PMID:19500572   PMID:19556691   PMID:19629447   PMID:19647046   PMID:19675243   PMID:20026183   PMID:20042459  
PMID:20071609   PMID:20138435   PMID:20144658   PMID:20147548   PMID:20226766   PMID:20423724   PMID:20438810   PMID:20521383   PMID:20649591   PMID:20714708   PMID:20813144   PMID:20959966  
PMID:21107539   PMID:21126535   PMID:21148020   PMID:21223556   PMID:21346733   PMID:21403818   PMID:21446059   PMID:21468566   PMID:21501256   PMID:21538661   PMID:21556842   PMID:21598629  
PMID:21681557   PMID:21720713   PMID:21753144   PMID:21893679   PMID:21930251   PMID:21976495   PMID:21982809   PMID:21982918   PMID:22106156   PMID:22265196   PMID:22302804   PMID:22880045  
PMID:22922122   PMID:22930314   PMID:22957663   PMID:22997067   PMID:23055492   PMID:23299041   PMID:23598399   PMID:23787365   PMID:23823694   PMID:24032709   PMID:24049146   PMID:24157794  
PMID:24162801   PMID:24211235   PMID:24381289   PMID:24563117   PMID:24595007   PMID:24599137   PMID:24771590   PMID:24946016   PMID:24949809   PMID:25208083   PMID:25315826   PMID:25486578  
PMID:25957476   PMID:25980022   PMID:26460748   PMID:26659645   PMID:26777281   PMID:27235743   PMID:27904941   PMID:30541912   PMID:31098953   PMID:31121088   PMID:32537854   PMID:32886342  
PMID:33024202   PMID:34454977   PMID:35338110   PMID:36343695   PMID:37762636  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2236,693,462 - 36,698,026 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl236,694,174 - 36,695,442 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx243,823,087 - 43,824,355 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0241,881,727 - 41,882,995 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0236,737,009 - 36,738,277 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0236,246,628 - 36,247,896 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl236,246,628 - 36,247,896 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0255,362,662 - 55,363,930 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4236,434,518 - 36,435,786 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1236,354,886 - 36,356,155 (+)NCBI
Celera232,636,756 - 32,638,024 (+)NCBICelera
RH 3.4 Map2156.5RGD
Cytogenetic Map2q13NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh38563,957,874 - 63,962,445 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl563,957,874 - 63,962,507 (-)EnsemblGRCh38hg38GRCh38
GRCh37563,253,701 - 63,258,272 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36563,292,034 - 63,293,302 (-)NCBINCBI36Build 36hg18NCBI36
Build 34563,292,033 - 63,293,302NCBI
Celera560,253,209 - 60,254,477 (-)NCBICelera
Cytogenetic Map5q12.3NCBI
HuRef560,210,553 - 60,212,797 (-)NCBIHuRef
CHM1_1563,255,560 - 63,257,804 (-)NCBICHM1_1
T2T-CHM13v2.0564,778,009 - 64,782,580 (-)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm3913105,580,040 - 105,584,630 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13105,580,147 - 105,584,630 (+)EnsemblGRCm39 Ensembl
GRCm3813105,443,693 - 105,448,133 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13105,443,639 - 105,448,122 (+)EnsemblGRCm38mm10GRCm38
MGSCv3713106,233,773 - 106,238,213 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3613106,564,148 - 106,568,501 (+)NCBIMGSCv36mm8
Celera13109,835,550 - 109,839,989 (+)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1356.92NCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0 EnsemblNW_0049554464,913,884 - 4,915,146 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554464,913,181 - 4,917,726 (+)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
NHGRI_mPanPan1548,114,114 - 48,118,414 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0550,045,266 - 50,049,636 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1551,691,853 - 51,696,257 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl551,692,416 - 51,693,684 (+)Ensemblpanpan1.1panPan2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
CanFam3.1250,005,277 - 50,006,548 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl250,002,740 - 50,006,548 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha246,962,303 - 46,963,574 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0250,490,014 - 50,491,285 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1247,550,689 - 47,551,960 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0248,341,999 - 48,343,270 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0249,236,031 - 49,237,302 (-)NCBIUU_Cfam_GSD_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_024407213196,105,986 - 196,110,702 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364805,043,204 - 5,044,472 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364805,042,531 - 5,047,157 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl1642,478,923 - 42,484,304 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11642,479,812 - 42,484,365 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21645,547,917 - 45,550,733 (-)NCBISscrofa10.2Sscrofa10.2susScr3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.1460,159,542 - 60,162,947 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl460,159,944 - 60,161,212 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660498,232,890 - 8,758,394 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla_female_1.0 EnsemblNW_0046248155,816,601 - 5,820,864 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248155,817,196 - 5,821,197 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Htr1a
19 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:26
Interacting mature miRNAs:28
Prediction methods: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 (
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)25873687102844969Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2788777242804738Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2902351954023519Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21159110056591100Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)21185206249003364Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21649174061491740Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21907682564076825Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22030467265304672Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22066244865662448Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22490385374786777Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)225413423143657569Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423157142209Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)225413423157142209Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)225413423203928301Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)225413652157142078Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22691781781754745Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22691781781754745Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226917817127469484Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226917817136917119Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22699957143154682Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22699957148268661Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22715716072157160Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)22997159351729300Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23064806575648065Rat
731179Mamtr3Mammary tumor resistance QTL 30.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)23237377043665178Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23502311780023117Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23513484188029593Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map2 RGD
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2236,695,414 - 36,695,579 (+)MAPPERmRatBN7.2
Rnor_6.0236,247,869 - 36,248,033NCBIRnor6.0
Rnor_5.0255,363,903 - 55,364,067UniSTSRnor5.0
RGSC_v3.4236,435,758 - 36,435,923RGDRGSC3.4
RGSC_v3.4236,435,759 - 36,435,923UniSTSRGSC3.4
RGSC_v3.1236,356,127 - 36,356,292RGD
Celera232,637,997 - 32,638,161UniSTS
Cytogenetic Map2q16UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0236,245,223 - 36,245,442NCBIRnor6.0
Rnor_5.0255,361,257 - 55,361,476UniSTSRnor5.0
RGSC_v3.4236,433,087 - 36,433,332UniSTSRGSC3.4
RGSC_v3.4236,432,989 - 36,433,341RGDRGSC3.4
RGSC_v3.1236,353,456 - 36,353,701RGD
Celera232,635,324 - 32,635,569UniSTS
RH 3.4 Map2161.1RGD
RH 3.4 Map2161.1UniSTS
RH 2.0 Map245.8RGD
SHRSP x BN Map216.1298RGD
Cytogenetic Map2q16UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0236,245,313 - 36,245,417NCBIRnor6.0
Rnor_5.0255,361,347 - 55,361,451UniSTSRnor5.0
RGSC_v3.4236,433,177 - 36,433,307UniSTSRGSC3.4
Celera232,635,414 - 32,635,544UniSTS
Cytogenetic Map2q16UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0236,245,313 - 36,245,519NCBIRnor6.0
Rnor_5.0255,361,347 - 55,361,553UniSTSRnor5.0
RGSC_v3.4236,433,177 - 36,433,409UniSTSRGSC3.4
Celera232,635,414 - 32,635,647UniSTS
Cytogenetic Map2q16UniSTS

Genetic Models
This gene Htr1a is modified in the following models/strains:


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system endocrine system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
Medium 5
Low 2 51 1
Below cutoff 1 1 3 3 8 12 6 1 3


RefSeq Acc Id: ENSRNOT00000013618   ⟹   ENSRNOP00000013618
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl236,694,174 - 36,695,442 (+)Ensembl
Rnor_6.0 Ensembl236,246,628 - 36,247,896 (+)Ensembl
RefSeq Acc Id: NM_012585   ⟹   NP_036717
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
mRatBN7.2236,693,462 - 36,698,026 (+)NCBI
Rnor_6.0236,246,628 - 36,247,896 (+)NCBI
Rnor_5.0255,362,662 - 55,363,930 (+)NCBI
RGSC_v3.4236,434,518 - 36,435,786 (+)RGD
Celera232,636,756 - 32,638,024 (+)RGD
Protein Sequences
Protein RefSeqs NP_036717 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40612 (Get FASTA)   NCBI Sequence Viewer  
  AAC35855 (Get FASTA)   NCBI Sequence Viewer  
  AAF33756 (Get FASTA)   NCBI Sequence Viewer  
  EDM10280 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013618
GenBank Protein P19327 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_036717   ⟸   NM_012585
- UniProtKB: P19327 (UniProtKB/Swiss-Prot),   G3V7B9 (UniProtKB/TrEMBL),   A6I5H2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013618   ⟸   ENSRNOT00000013618
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P19327-F1-model_v2 AlphaFold P19327 1-422 view protein structure


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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2845 AgrOrtholog
BioCyc Gene G2FUF-54538 BioCyc
Ensembl Genes ENSRNOG00000010254 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013618 ENTREZGENE
  ENSRNOT00000013618.3 UniProtKB/TrEMBL
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro 5HT1A_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  5HT_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24473 UniProtKB/Swiss-Prot
Pfam 7tm_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Htr1a PhenoGen
  5HTRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010254 RatGTEx
SMART 7TM_GPCR_Srsx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC225939
UniProt 5HT1A_RAT UniProtKB/Swiss-Prot

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Htr1a  5-hydroxytryptamine receptor 1A  Htr1a  5-hydroxytryptamine (serotonin) receptor 1A, G protein-coupled  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-17 Htr1a  5-hydroxytryptamine (serotonin) receptor 1A, G protein-coupled  Htr1a  5-hydroxytryptamine (serotonin) receptor 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Htr1a  5-hydroxytryptamine (serotonin) receptor 1A      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function receptor for 5- hydroxytryptamine (serotonin) 68909
gene_process functions as a neurotransmitter, a hormone, and a mitogen 68909
gene_regulation mediated by G proteins that inhibit adenylate cyclase activity 68909