Gabra1 (gamma-aminobutyric acid type A receptor subunit alpha 1) - Rat Genome Database

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Gene: Gabra1 (gamma-aminobutyric acid type A receptor subunit alpha 1) Rattus norvegicus
Analyze
Symbol: Gabra1
Name: gamma-aminobutyric acid type A receptor subunit alpha 1
RGD ID: 61855
Description: Enables diazepam binding activity. Contributes to GABA receptor activity. Involved in GABAergic synaptic transmission and cellular response to histamine. Located in membrane. Is integral component of plasma membrane. Part of GABA receptor complex. Is active in GABA-ergic synapse. Is integral component of postsynaptic specialization membrane. Biomarker of hepatic encephalopathy. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 19 and idiopathic generalized epilepsy 13. Orthologous to human GABRA1 (gamma-aminobutyric acid type A receptor subunit alpha1); INTERACTS WITH (+)-pilocarpine; 1-bromopropane; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: GABA(A) receptor subunit alpha-1; gamma-aminobutyric acid (GABA) A receptor, alpha 1; gamma-aminobutyric acid (GABA-A) receptor subunit alpha 1; gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 1; gamma-aminobutyric acid A receptor, alpha 1; gamma-aminobutyric acid receptor subunit alpha-1; gamma-aminobutyric acid type A receptor alpha1 subunit
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21026,595,151 - 26,650,611 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1026,595,160 - 26,650,864 (-)Ensembl
Rnor_6.01027,310,718 - 27,371,802 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1027,310,725 - 27,366,665 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01027,154,354 - 27,209,873 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41027,258,813 - 27,313,725 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11027,261,880 - 27,312,049 (-)NCBI
Celera1026,109,305 - 26,164,180 (-)NCBICelera
Cytogenetic Map10q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-beta-thujone  (ISO)
(+)-isoborneol  (ISO)
(+)-pilocarpine  (EXP)
(R)-camphor  (ISO)
1,1,1-trichloroethane  (ISO)
1-(2-methoxyphenyl)piperazine  (ISO)
1-(3-(trifluoromethyl)phenyl)piperazine  (ISO)
1-(3-chlorophenyl)piperazine  (ISO)
1-benzylpiperazine  (ISO)
1-bromopropane  (EXP)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-tetrachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,6-Dimethylphenol  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-Methylenedioxyamphetamine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3alpha-hydroxy-5beta-pregnan-20-one  (ISO)
4-ethyl-4-methylpiperidine-2,6-dione  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
alpha-hexachlorocyclohexane  (EXP,ISO)
Alphaxolone  (EXP)
amitriptyline  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP,ISO)
anthracenes  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
Bacoside a  (EXP)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bicuculline  (EXP,ISO)
bisphenol A  (EXP,ISO)
bromoform  (ISO)
butan-1-ol  (ISO)
camphor  (ISO)
cannabidiol  (ISO)
carbamazepine  (EXP)
carisoprodol  (ISO)
carvone  (ISO)
CGP 52608  (ISO)
clozapine  (ISO)
cocaine  (EXP,ISO)
colforsin daropate hydrochloride  (EXP)
Cuprizon  (EXP)
curcumin  (EXP)
cypermethrin  (EXP)
delta-hexachlorocyclohexane  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazepam  (EXP,ISO)
dieldrin  (EXP,ISO)
endosulfan  (EXP)
enflurane  (ISO)
ethanol  (EXP,ISO)
etomidate  (EXP,ISO)
famotidine  (EXP)
felbamate  (ISO)
fipronil  (ISO)
flumazenil  (EXP)
flunitrazepam  (EXP,ISO)
flurazepam  (ISO)
flurotyl  (EXP)
gamma-aminobutyric acid  (EXP,ISO)
gamma-hexachlorocyclohexane  (EXP,ISO)
gentamycin  (EXP)
haloperidol  (ISO)
hexachlorophene  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
isoflurane  (ISO)
lanthanum atom  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
Lorazepam  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (EXP,ISO)
menthone  (ISO)
methamphetamine  (ISO)
methapyrilene  (ISO)
methyl tert-butyl ether  (EXP)
methylmercury chloride  (EXP,ISO)
Methylone  (ISO)
morphine  (EXP)
muscimol  (ISO)
Niflumic acid  (EXP)
o-cresol  (EXP)
oxcarbazepine  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (EXP)
paraquat  (EXP)
pentetrazol  (ISO)
pentobarbital  (EXP,ISO)
phencyclidine  (ISO)
picrotoxin  (EXP,ISO)
picrotoxinin  (ISO)
poly(I:C)  (EXP)
pregnenolone sulfate  (EXP)
propofol  (EXP,ISO)
testosterone  (EXP)
Testosterone propionate  (ISO)
theophylline  (ISO)
thimerosal  (ISO)
thymol  (EXP)
thymol sulfate(1-)  (EXP)
toluene  (EXP,ISO)
topiramate  (EXP)
trichloroethene  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
urethane  (ISO)
valproic acid  (ISO)
zaleplon  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)
zolpidem  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Slow phases of GABA(A) receptor desensitization: structural determinants and possible relevance for synaptic function. Bianchi MT and Macdonald RL, J Physiol 2002 Oct 1;544(Pt 1):3-18.
2. Neonatal development of the rat visual cortex: synaptic function of GABAA receptor alpha subunits. Bosman LW, etal., J Physiol 2002 Nov 15;545(Pt 1):169-81.
3. Early phylogenetic value of the major GABA(A) receptor subunit mRNAs in the telencephalon. Facciolo RM, etal., Exp Brain Res 2002 Feb;142(4):504-11.
4. Proton modulation of alpha 1 beta 3 delta GABAA receptor channel gating and desensitization. Feng HJ and Macdonald RL, J Neurophysiol 2004 Sep;92(3):1577-85. Epub 2004 May 19.
5. Functional excitatory synapses in HEK293 cells expressing neuroligin and glutamate receptors. Fu Z, etal., J Neurophysiol. 2003 Dec;90(6):3950-7. Epub 2003 Aug 20.
6. 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.
7. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
8. The GABA(A) receptor alpha1 subtype in the ventral pallidum regulates alcohol-seeking behaviors. Harvey SC, etal., J Neurosci 2002 May 1;22(9):3765-75.
9. Quantitative localisation of synaptic and extrasynaptic GABAA receptor subunits on hippocampal pyramidal cells by freeze-fracture replica immunolabelling. Kasugai Y, etal., Eur J Neurosci. 2010 Dec;32(11):1868-88. doi: 10.1111/j.1460-9568.2010.07473.x. Epub 2010 Nov 14.
10. Cell type- and input-specific differences in the number and subtypes of synaptic GABA(A) receptors in the hippocampus. Klausberger T, etal., J Neurosci 2002 Apr 1;22(7):2513-21.
11. Cryo-EM structure of the human α1β3γ2 GABAA receptor in a lipid bilayer. Laverty D, etal., Nature. 2019 Jan;565(7740):516-520. doi: 10.1038/s41586-018-0833-4. Epub 2019 Jan 2.
12. Expression of gamma-aminobutyric acid A receptor subunits alpha1, beta1, gamma2 mRNA in rats with hepatic encephalopathy. Li XQ, etal., World J Gastroenterol. 2005 Jun 7;11(21):3319-22.
13. Cerebellar GABAA receptor selective for a behavioural alcohol antagonist. Luddens H, etal., Nature 1990 Aug 16;346(6285):648-51.
14. Divergent GABA(A) receptor-mediated synaptic transmission in genetically seizure-prone and seizure-resistant rats. McIntyre DC, etal., J Neurosci 2002 Nov 15;22(22):9922-31.
15. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
16. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. The alpha 6 subunit of the GABAA receptor is concentrated in both inhibitory and excitatory synapses on cerebellar granule cells. Nusser Z, etal., J Neurosci. 1996 Jan;16(1):103-14.
18. Differential synaptic localization of two major gamma-aminobutyric acid type A receptor alpha subunits on hippocampal pyramidal cells. Nusser Z, etal., Proc Natl Acad Sci U S A. 1996 Oct 15;93(21):11939-44.
19. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
20. Online Mendelian Inheritance in Man, OMIM (TM). Online Mendelian Inheritance in Man, OMIM (TM).
21. GOA pipeline RGD automated data pipeline
22. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
23. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
24. Gamma-aminobutyric acid receptor (GABA(A)) subunits in rat nucleus tractus solitarii (NTS) revealed by polymerase chain reaction (PCR) and immunohistochemistry.PG - 241-57 Saha S, etal., Mol Cell Neurosci 2001 Jan;17(1):241-57.
25. Histamine action on vertebrate GABAA receptors: direct channel gating and potentiation of GABA responses. Saras A, etal., J Biol Chem. 2008 Apr 18;283(16):10470-5. doi: 10.1074/jbc.M709993200. Epub 2008 Feb 15.
26. The GABAA receptor family: molecular and functional diversity. Seeburg PH, etal., Cold Spring Harb Symp Quant Biol 1990;55(48):29-40.
27. Comparative surface accessibility of a pore-lining threonine residue (T6') in the glycine and GABA(A) receptors. Shan Q, etal., J Biol Chem 2002 Nov 22;277(47):44845-53.
28. GABAA receptor-associated phosphoinositide 3-kinase is required for insulin-induced recruitment of postsynaptic GABAA receptors. Vetiska SM, etal., Neuropharmacology. 2007 Jan;52(1):146-55. Epub 2006 Aug 4.
29. A single histidine in GABAA receptors is essential for benzodiazepine agonist binding. Wieland HA, etal., J Biol Chem 1992 Jan 25;267(3):1426-9.
30. GARLH Family Proteins Stabilize GABAA Receptors at Synapses. Yamasaki T, etal., Neuron. 2017 Mar 8;93(5):1138-1152.e6. doi: 10.1016/j.neuron.2017.02.023.
31. Structure of a human synaptic GABAA receptor. Zhu S, etal., Nature. 2018 Jul;559(7712):67-72. doi: 10.1038/s41586-018-0255-3. Epub 2018 Jun 27.
Additional References at PubMed
PMID:1312131   PMID:1312132   PMID:1376242   PMID:1379501   PMID:1702644   PMID:1977069   PMID:2540033   PMID:2561977   PMID:9039914   PMID:11528422   PMID:11918349   PMID:12457249  
PMID:12466441   PMID:12477932   PMID:12556472   PMID:12763608   PMID:12850057   PMID:14663191   PMID:14729731   PMID:14757527   PMID:15067724   PMID:15282269   PMID:15364406   PMID:15522868  
PMID:15579538   PMID:16272886   PMID:16294320   PMID:16398052   PMID:16567807   PMID:16754670   PMID:17054688   PMID:17079662   PMID:17122364   PMID:17208003   PMID:17227918   PMID:17619448  
PMID:17916335   PMID:18003823   PMID:18085588   PMID:18180303   PMID:18360306   PMID:18387955   PMID:18407248   PMID:18544665   PMID:18706488   PMID:18922788   PMID:18973578   PMID:19105974  
PMID:19261879   PMID:19265570   PMID:19531372   PMID:20083184   PMID:20133704   PMID:20159950   PMID:20191118   PMID:20851161   PMID:20937799   PMID:21118679   PMID:21152393   PMID:21209355  
PMID:21219474   PMID:21272959   PMID:21439793   PMID:21474657   PMID:21982918   PMID:21994384   PMID:22006921   PMID:22018691   PMID:22044189   PMID:22044924   PMID:22389504   PMID:22479591  
PMID:22539847   PMID:22546338   PMID:22563490   PMID:22572883   PMID:22608069   PMID:22806324   PMID:22871113   PMID:23164617   PMID:23273104   PMID:23413887   PMID:23450652   PMID:23531839  
PMID:23909897   PMID:24103391   PMID:24154851   PMID:24456563   PMID:24704426   PMID:24912155   PMID:25114295   PMID:25419570   PMID:25489750   PMID:25579817   PMID:26093381   PMID:26469128  
PMID:26600553   PMID:26685896   PMID:27129275   PMID:28109827   PMID:28630256   PMID:28834708   PMID:29162430   PMID:29667127   PMID:30118718   PMID:30266951   PMID:30353348   PMID:30878320  
PMID:31251980   PMID:32579917   PMID:32875348   PMID:33636639   PMID:33958479   PMID:34029007   PMID:34064454  


Genomics

Comparative Map Data
Gabra1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21026,595,151 - 26,650,611 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1026,595,160 - 26,650,864 (-)Ensembl
Rnor_6.01027,310,718 - 27,371,802 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1027,310,725 - 27,366,665 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01027,154,354 - 27,209,873 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41027,258,813 - 27,313,725 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11027,261,880 - 27,312,049 (-)NCBI
Celera1026,109,305 - 26,164,180 (-)NCBICelera
Cytogenetic Map10q21NCBI
GABRA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385161,847,191 - 161,899,971 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl5161,847,063 - 161,899,981 (+)EnsemblGRCh38hg38GRCh38
GRCh375161,274,197 - 161,326,977 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365161,206,983 - 161,258,992 (+)NCBINCBI36hg18NCBI36
Build 345161,206,982 - 161,258,990NCBI
Celera5157,305,487 - 157,357,959 (+)NCBI
Cytogenetic Map5q34NCBI
HuRef5156,366,532 - 156,419,379 (+)NCBIHuRef
CHM1_15160,706,630 - 160,759,375 (+)NCBICHM1_1
T2T-CHM13v2.05162,376,027 - 162,428,794 (+)NCBI
Gabra1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391142,021,766 - 42,073,893 (-)NCBIGRCm39mm39
GRCm39 Ensembl1142,021,766 - 42,073,757 (-)Ensembl
GRCm381142,130,939 - 42,183,066 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1142,130,939 - 42,182,930 (-)EnsemblGRCm38mm10GRCm38
MGSCv371141,944,982 - 41,996,432 (-)NCBIGRCm37mm9NCBIm37
MGSCv361141,974,903 - 42,026,353 (-)NCBImm8
Celera1145,953,528 - 46,009,149 (-)NCBICelera
Cytogenetic Map11A5NCBI
cM Map1124.97NCBI
Gabra1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540815,608,984 - 15,662,597 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540815,608,984 - 15,662,309 (+)NCBIChiLan1.0ChiLan1.0
GABRA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15163,928,392 - 163,981,127 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5163,928,392 - 163,981,117 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05157,234,725 - 157,287,475 (+)NCBIMhudiblu_PPA_v0panPan3
GABRA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1449,006,981 - 49,065,205 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl449,009,495 - 49,062,581 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha448,898,592 - 48,956,801 (-)NCBI
ROS_Cfam_1.0449,439,269 - 49,497,701 (-)NCBI
ROS_Cfam_1.0 Ensembl449,421,345 - 49,497,509 (-)Ensembl
UMICH_Zoey_3.1449,246,182 - 49,304,589 (-)NCBI
UNSW_CanFamBas_1.0449,379,685 - 49,437,823 (-)NCBI
UU_Cfam_GSD_1.0449,902,613 - 49,960,850 (-)NCBI
Gabra1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213103,356,153 - 103,409,858 (-)NCBI
SpeTri2.0NW_0049365151,806,721 - 1,859,227 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GABRA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1661,656,590 - 61,723,448 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11661,656,583 - 61,723,428 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21666,816,724 - 66,883,547 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GABRA1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12364,199,372 - 64,255,996 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2364,200,752 - 64,255,996 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603413,304,237 - 13,354,528 (-)NCBIVero_WHO_p1.0
Gabra1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473327,708,271 - 27,763,523 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462473327,708,364 - 27,763,824 (-)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum total immunoglobulin E level (CMO:0001542)102291826836400810Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:415
Count of miRNA genes:221
Interacting mature miRNAs:301
Transcripts:ENSRNOT00000004725
Prediction methods:Microtar, Miranda, 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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 2 2 50
Low 12 23 21 3 21 2 2 22 30 28 11 2
Below cutoff 23 24 10 15 10 6 6 2 5 11 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_183326 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246123 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597178 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597179 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC136540 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY574250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC100061 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213379 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214348 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L08490 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000004725   ⟹   ENSRNOP00000004725
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1026,595,160 - 26,650,864 (-)Ensembl
Rnor_6.0 Ensembl1027,310,725 - 27,366,665 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104024   ⟹   ENSRNOP00000087043
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1026,595,160 - 26,648,523 (-)Ensembl
RefSeq Acc Id: NM_183326   ⟹   NP_899155
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21026,595,697 - 26,650,611 (-)NCBI
Rnor_6.01027,311,264 - 27,366,241 (-)NCBI
Rnor_5.01027,154,354 - 27,209,873 (-)NCBI
RGSC_v3.41027,258,813 - 27,313,725 (-)RGD
Celera1026,109,305 - 26,164,180 (-)RGD
Sequence:
RefSeq Acc Id: XM_006246123   ⟹   XP_006246185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21026,595,151 - 26,649,962 (-)NCBI
Rnor_6.01027,310,718 - 27,365,666 (-)NCBI
Rnor_5.01027,154,354 - 27,209,873 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006246124   ⟹   XP_006246186
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21026,595,151 - 26,650,315 (-)NCBI
Rnor_6.01027,310,718 - 27,366,004 (-)NCBI
Rnor_5.01027,154,354 - 27,209,873 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_899155   ⟸   NM_183326
- Peptide Label: precursor
- UniProtKB: Q53YK4 (UniProtKB/Swiss-Prot),   P62813 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006246186   ⟸   XM_006246124
- Peptide Label: isoform X1
- UniProtKB: Q53YK4 (UniProtKB/Swiss-Prot),   P62813 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006246185   ⟸   XM_006246123
- Peptide Label: isoform X1
- UniProtKB: Q53YK4 (UniProtKB/Swiss-Prot),   P62813 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004725   ⟸   ENSRNOT00000004725
RefSeq Acc Id: ENSRNOP00000087043   ⟸   ENSRNOT00000104024
Protein Domains
Neur_chan_LBD   Neur_chan_memb

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P62813-F1-model_v2 AlphaFold P62813 1-455 view protein structure

Transcriptome

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


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61855 AgrOrtholog
BioCyc Gene G2FUF-25474 BioCyc
Ensembl Genes ENSRNOG00000003512 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004725 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000087043 ENTREZGENE
  ENSRNOP00000087043.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004725 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000104024 ENTREZGENE
  ENSRNOT00000104024.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.390 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.70.170.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7122007 IMAGE-MGC_LOAD
InterPro GABAA/Glycine_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GABAAa_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GABBAa1_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_chan_lig-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_chan_lig-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_channel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neuro-gated_channel_TM_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neuro_actylchol_rec UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurotrans-gated_channel_TM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neurotransmitter_ion_chnl_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29705 UniProtKB/Swiss-Prot
MGC_CLONE MGC:112581 IMAGE-MGC_LOAD
NCBI Gene 29705 ENTREZGENE
PANTHER PTHR18945 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Neur_chan_LBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Neur_chan_memb UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB GABRA1 RGD
PhenoGen Gabra1 PhenoGen
PRINTS GABAARALPHA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GABAARALPHA1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GABAARECEPTR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NRIONCHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NEUROTR_ION_CHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF63712 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF90112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs LIC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A7P4_RAT UniProtKB/TrEMBL
  GBRA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q53YK4 ENTREZGENE
UniProt Secondary P18504 UniProtKB/Swiss-Prot
  Q53YK4 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-12-06 Gabra1  gamma-aminobutyric acid type A receptor subunit alpha 1  Gabra1  gamma-aminobutyric acid type A receptor alpha1 subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-11 Gabra1  gamma-aminobutyric acid type A receptor alpha1 subunit  Gabra1  gamma-aminobutyric acid (GABA) A receptor, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-02-11 Gabra1  gamma-aminobutyric acid type A receptor alpha1 subunit  Gabra1  gamma-aminobutyric acid type A receptor alpha1 subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-04 Gabra1  gamma-aminobutyric acid (GABA) A receptor, alpha 1  Gabra1  gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-11 Gabra1  gamma-aminobutyric acid (GABA-A) receptor, subunit alpha 1  Gabra1  gamma-aminobutyric acid (GABA) A receptor, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-18 Gabra1  gamma-aminobutyric acid (GABA) A receptor, alpha 1  Gabra1  gamma-aminobutyric acid A receptor, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Gabra1  gamma-aminobutyric acid A receptor, alpha 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to both cytoplasmic and subsynaptic sites of NTS neurons 625528
gene_cellular_localization localized to synapses made by PV-positive and PV-negative boutons 625672
gene_cellular_localization localized to synapses made by PV-positive and PV-negative boutons 628376
gene_expression mRNA highly expressed in nucleus tractus solitarii and protein expression was seen in many neurons throughout most areas of the medulla 625528
gene_expression expressed in pyramidal cell somata 625672
gene_expression amygdala kindling models of temporal lobe epilepsy (TLE) differential kindling rates are correlated with differences in Gabra1 subunit expression 628376
gene_other inhibitory synaptic signals differ considerably in strains of rats that have different profiles of GABAA receptor subunit expression and concomitant genetic predispositions for or against kindling 628376
gene_process may mediate inhibitory GABA responses in nucleus tractus solitarii (NTS) in brain 625528
gene_process plays a role in regulating the reinforcing properties of alcohol in the ventral pallidum (VP) 625694
gene_process may mediate the rhythmicity of neural networks 628376