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
Analyze
Symbol: Htr1a
Name: 5-hydroxytryptamine receptor 1A
RGD ID: 2845
Description: Exhibits 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 regulation of secretion. Localizes to GABA-ergic synapse; axon hillock; and integral component of presynaptic membrane. Used to study Parkinson's disease and panic disorder. Human ortholog(s) of this gene implicated in anxiety disorder; mental depression; 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: PROVISIONAL
Also 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
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Htr1am1Mcwi   Htr1am2Mcwi  
Genetic Models: FHH-Htr1am1Mcwi SS-Htr1am2Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2236,694,174 - 36,695,442 (+)NCBI
Rnor_6.0 Ensembl236,246,628 - 36,247,896 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0236,246,628 - 36,247,896 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0255,362,662 - 55,363,930 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4236,434,518 - 36,435,786 (+)NCBIRGSC3.4rn4RGSC3.4
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)
Model


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-bromo-N-[[(2S)-1-ethyl-2-pyrrolidinyl]methyl]-2,6-dimethoxybenzamide  (EXP)
4,4'-sulfonyldiphenol  (EXP)
4-fluoro-N-\{2-[4-(7-methoxynaphthalen-1-yl)piperazin-1-yl]ethyl\}benzamide hydrochloride  (EXP)
5-carboxamidotryptamine  (EXP,ISO)
8-OH-DPAT  (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)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
bucladesine  (ISO)
buspirone  (EXP,ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
cannabidiolic acid  (ISO)
chlorprothixene  (ISO)
chlorpyrifos  (EXP,ISO)
clofibrate  (ISO)
clozapine  (EXP,ISO)
cocaine  (EXP)
colforsin daropate hydrochloride  (ISO)
compound 48/80  (EXP)
curcumin  (EXP)
DDT  (ISO)
desipramine  (EXP,ISO)
dexamethasone  (EXP)
diazinon  (EXP)
dieldrin  (EXP)
doxepin  (EXP)
ethanol  (EXP,ISO)
etoperidone  (ISO)
fluoxetine  (EXP,ISO)
GDP  (EXP)
GTP  (EXP)
imipramine  (EXP)
lipopolysaccharide  (EXP)
loxapine  (EXP)
lurasidone hydrochloride  (ISO)
magnesium atom  (EXP)
manganese atom  (EXP)
manganese(0)  (EXP)
medroxyprogesterone acetate  (ISO)
melittin  (ISO)
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)
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)
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

References - curated
1. Blaya C, etal., Neurosci Lett. 2010 Nov 12;485(1):11-5. Epub 2010 Sep 15.
2. Borroto-Escuela DO, etal., ACS Omega. 2017 Aug 31;2(8):4779-4789. doi: 10.1021/acsomega.7b00629. Epub 2017 Aug 22.
3. 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. 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. Borroto-Escuela DO, etal., J Neurosci. 2012 May 2;32(18):6295-303. doi: 10.1523/JNEUROSCI.4203-11.2012.
6. Cai X, etal., J Biol Chem 2002 Sep 27;277(39):36553-62.
7. Carrel D, etal., J Neurosci. 2008 Aug 6;28(32):8063-73. doi: 10.1523/JNEUROSCI.4487-07.2008.
8. Collin M, etal., Neuroreport 2002 May 24;13(7):945-51.
9. 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. Dalpiaz A, etal., Eur J Pharmacol. 1996 Sep 19;312(1):107-14.
11. Del-Bel EA, etal., Neurosci Lett 2002 Oct 31;332(2):123-6.
12. Deng AY, etal., Mamm Genome 1997 Oct;8(10):731-5.
13. Drevets WC, etal., Biol Psychiatry. 1999 Nov 15;46(10):1375-87.
14. Dupre KB, etal., Exp Neurol. 2011 Jun;229(2):288-99. Epub 2011 Feb 22.
15. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
16. GOA data from the GO Consortium
17. Heisler LK, etal., Proc Natl Acad Sci U S A 1998 Dec 8;95(25):15049-54.
18. Hensler JG Neuropsychopharmacology. 2002 May;26(5):565-73.
19. Koyama S, etal., J Physiol. 1999 Jul 15;518 ( Pt 2):525-38.
20. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
21. Mannoury la Cour C, etal., Mol Pharmacol. 2006 Sep;70(3):1013-21. Epub 2006 Jun 13.
22. MGD data from the GO Consortium
23. Molina E, etal., Psychiatr Genet. 2011 Aug;21(4):195-201.
24. Nayebi AM, etal., Pharmacol Rep. 2010 Mar-Apr;62(2):258-64.
25. NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. OMIM Disease Annotation Pipeline
27. Penington NJ, etal., J Physiol. 1993 Sep;469:387-405.
28. Pipeline to import SMPDB annotations from SMPDB into RGD
29. Ramboz S, etal., Proc Natl Acad Sci U S A 1998 Nov 24;95(24):14476-81.
30. RGD automated data pipeline
31. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. RGD automated import pipeline for gene-chemical interactions
33. Sela VR, etal., Neurosci Lett. 2011 May 9;495(1):63-6. Epub 2011 Mar 21.
34. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
35. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
36. Valdez M, etal., Brain Res 2002 Dec 6;957(1):174-82.
37. Verge D, etal., J Neurosci. 1986 Dec;6(12):3474-82.
38. Voigt JP, etal., Pharmacol Biochem Behav. 2002 May;72(1-2):403-9.
39. Wedzony K, etal., J Physiol Pharmacol. 2008 Jun;59(2):229-38.
40. Yeung LY, etal., Age (Dordr). 2010 Dec;32(4):483-95. Epub 2010 May 28.
41. Yoshino T, etal., Neurochem Int 2002 Apr;40(4):355-60.
42. Yuen EY, etal., J Biol Chem. 2008 Jun 20;283(25):17194-204. doi: 10.1074/jbc.M801713200. Epub 2008 Apr 28.
43. 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:33024202  


Genomics

Candidate Gene Status
Htr1a is a candidate Gene for QTL Bp115
Comparative Map Data
Htr1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2236,694,174 - 36,695,442 (+)NCBI
Rnor_6.0 Ensembl236,246,628 - 36,247,896 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0236,246,628 - 36,247,896 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0255,362,662 - 55,363,930 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4236,434,518 - 36,435,786 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1236,354,886 - 36,356,155 (+)NCBI
Celera232,636,756 - 32,638,024 (+)NCBICelera
RH 3.4 Map2156.5RGD
Cytogenetic Map2q13NCBI
HTR1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl563,957,874 - 63,962,507 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl563,960,356 - 63,962,507 (-)EnsemblGRCh38hg38GRCh38
GRCh38563,957,874 - 63,962,445 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37563,253,701 - 63,258,272 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36563,292,034 - 63,293,302 (-)NCBINCBI36hg18NCBI36
Build 34563,292,033 - 63,293,302NCBI
Celera560,253,209 - 60,254,477 (-)NCBI
Cytogenetic Map5q12.3NCBI
HuRef560,210,553 - 60,212,797 (-)NCBIHuRef
CHM1_1563,255,560 - 63,257,804 (-)NCBICHM1_1
Htr1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913105,580,201 - 105,584,641 (+)NCBIGRCm39mm39
GRCm39 Ensembl13105,580,147 - 105,584,630 (+)Ensembl
GRCm3813105,443,693 - 105,448,133 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13105,443,639 - 105,448,122 (+)EnsemblGRCm38mm10GRCm38
MGSCv3713106,233,773 - 106,238,213 (+)NCBIGRCm37mm9NCBIm37
MGSCv3613106,564,148 - 106,568,501 (+)NCBImm8
Celera13109,835,550 - 109,839,989 (+)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1356.92NCBI
Htr1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554464,913,884 - 4,915,146 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554464,913,181 - 4,917,726 (+)NCBIChiLan1.0ChiLan1.0
HTR1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1551,691,853 - 51,696,257 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl551,692,416 - 51,693,684 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0550,045,266 - 50,049,636 (+)NCBIMhudiblu_PPA_v0panPan3
HTR1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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 (-)NCBI
ROS_Cfam_1.0250,490,014 - 50,491,285 (-)NCBI
UMICH_Zoey_3.1247,550,689 - 47,551,960 (-)NCBI
UNSW_CanFamBas_1.0248,341,999 - 48,343,270 (-)NCBI
UU_Cfam_GSD_1.0249,236,031 - 49,237,302 (-)NCBI
Htr1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213196,105,986 - 196,110,702 (+)NCBI
SpeTri2.0NW_0049364805,042,531 - 5,047,157 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HTR1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11642,479,812 - 42,484,365 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21645,547,917 - 45,550,733 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HTR1A
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1460,159,542 - 60,162,947 (-)NCBI
ChlSab1.1 Ensembl460,159,944 - 60,161,212 (-)Ensembl
Vero_WHO_p1.0NW_0236660498,232,890 - 8,758,394 (-)NCBI
Htr1a
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248155,817,196 - 5,821,197 (+)NCBI

Position Markers
D2Wox11  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map2 RGD
D2Mit31  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2236,695,414 - 36,695,579 (+)MAPPER
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
D2Rat114  
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
D2Wox65  
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
D2Wox63  
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


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141179397Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)23127638105149020Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2368630848686308Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2541733642777046Rat
738012Anxrr3Anxiety related response QTL 33.8exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)2789360052893600Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)2944467949615930Rat
1578671Bmd10Bone mineral density QTL 105.4femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)2944467968866454Rat
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21055527555555275Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21423783059237830Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
1357990Ael1Aortic elastin QTL 13.10.00091aorta elastin amount (VT:0003905)aortic elastin21901646564016465Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22027698165276981Rat
2300168Bmd47Bone mineral density QTL 476.60.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)22064137165641371Rat
7387318Stl32Serum triglyceride level QTL 323.20.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)22261295267612952Rat
10402051Gdil2Gastrointestinal dilation QTL 2enteric ganglion morphology trait (VT:0001045)length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)22328064775687607Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)223837491149614623Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491169852800Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)223837491169852800Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)223837719169852670Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22618609783819822Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22618609783819822Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)226186097135654963Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)226186097142053534Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)22626799543133606Rat
1643006Pain1Pain QTL 13.630.005mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)22626799548676716Rat
12879841Cm87Cardiac mass QTL 870.026heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)227161361148295267Rat
12879842Cm88Cardiac mass QTL 880.042heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)227161361148295267Rat
12879843Am3Aortic mass QTL 30.016aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)227161361148295267Rat
12879844Kidm62Kidney mass QTL 620.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227161361148295267Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22776030172760301Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)22872786752507805Rat
731179Mamtr3Mammary tumor resistance QTL 30.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)23122461243643900Rat
10755434Coatc7Coat color QTL 70.04794coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23127237976272379Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23408817591101903Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23513320280133202Rat
2306903Bp336Blood pressure QTL 3360.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)236245223112175725Rat


Genetic Models
This gene Htr1a is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:26
Interacting mature miRNAs:28
Transcripts:ENSRNOT00000013618
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 (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


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
High
Medium 5
Low 2 51 1
Below cutoff 1 1 3 3 8 12 6 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013618   ⟹   ENSRNOP00000013618
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl236,246,628 - 36,247,896 (+)Ensembl
RefSeq Acc Id: NM_012585   ⟹   NP_036717
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2236,694,174 - 36,695,442 (+)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
Sequence:
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  
  P19327 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_036717   ⟸   NM_012585
- UniProtKB: P19327 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013618   ⟸   ENSRNOT00000013618
Protein Domains
G_PROTEIN_RECEP_F1_2

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2845 AgrOrtholog
Ensembl Genes ENSRNOG00000010254 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013618 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013618 ENTREZGENE, 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
NCBI Gene 24473 ENTREZGENE
PANTHER PTHR24247:SF20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam 7tm_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB HTR1A RGD
PhenoGen Htr1a PhenoGen
PRINTS 5HT1ARECEPTR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  5HTRECEPTOR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GPCRRHODOPSN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART 7TM_GPCR_Srsx UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC225939
UniProt 5HT1A_RAT UniProtKB/Swiss-Prot
  G3V7B9_RAT UniProtKB/TrEMBL
  P19327 ENTREZGENE


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