Chrnb2 (cholinergic receptor nicotinic beta 2 subunit) - Rat Genome Database

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Gene: Chrnb2 (cholinergic receptor nicotinic beta 2 subunit) Rattus norvegicus
Analyze
Symbol: Chrnb2
Name: cholinergic receptor nicotinic beta 2 subunit
RGD ID: 2350
Description: Exhibits acetylcholine binding activity and acetylcholine-gated cation-selective channel activity. Involved in acetylcholine receptor signaling pathway; cholinergic synaptic transmission; and response to nicotine. Localizes to cholinergic synapse; integral component of plasma membrane; and plasma membrane raft. Human ortholog(s) of this gene implicated in autosomal dominant nocturnal frontal lobe epilepsy and autosomal dominant nocturnal frontal lobe epilepsy 3. Orthologous to human CHRNB2 (cholinergic receptor nicotinic beta 2 subunit); PARTICIPATES IN acetylcholine signaling pathway via nicotinic acetylcholine receptor; alfentanil pharmacodynamics pathway; bupivacaine pharmacodynamics pathway; INTERACTS WITH (E)-thiamethoxam; (S)-anabasine; (S)-nicotine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cholinergic receptor nicotinic beta polypeptide 2; cholinergic receptor nicotinic beta subunit 2; cholinergic receptor, nicotinic beta 2; cholinergic receptor, nicotinic, beta 2 (neuronal); cholinergic receptor, nicotinic, beta polypeptide 2; cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal); cholinergic receptor, nicotinic, beta subunit 2; N-alpha 1; neuronal acetylcholine receptor non-alpha-1 chain; neuronal acetylcholine receptor subunit beta-2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22175,181,402 - 175,189,619 (-)NCBI
Rnor_6.0 Ensembl2189,088,570 - 189,096,785 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02189,088,570 - 189,096,785 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02208,511,421 - 208,519,636 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42181,961,373 - 181,969,581 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12181,911,478 - 181,919,687 (-)NCBI
Celera2169,123,949 - 169,132,124 (-)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-lobeline  (ISO)
(E)-thiamethoxam  (EXP)
(S)-anabasine  (EXP)
(S)-nicotine  (EXP,ISO)
1,1-dimethyl-4-phenylpiperazinium iodide  (ISO)
13-desmethylspirolide C  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-nonylphenol  (ISO)
4-octylphenol  (ISO)
acetamiprid  (EXP,ISO)
acetylcholine  (EXP,ISO)
alcuronium  (ISO)
all-trans-retinoic acid  (ISO)
aluminium hydroxide  (ISO)
Amaranth  (EXP)
amitriptyline  (EXP,ISO)
ammonium chloride  (EXP)
Antimony trioxide  (ISO)
atracurium  (ISO)
atropine  (EXP,ISO)
barium(0)  (EXP)
bentonite  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
Brilliant Blue  (EXP)
butan-1-ol  (ISO)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
carbachol  (EXP,ISO)
carbamazepine  (ISO)
carbaryl  (EXP)
chlorpyrifos  (EXP)
choline  (ISO)
cisatracurium  (ISO)
Citreoviridin  (ISO)
clofibrate  (ISO)
clothianidin  (EXP,ISO)
cocaine  (EXP,ISO)
cyclosporin A  (ISO)
cytisine  (ISO)
decabromodiphenyl ether  (ISO)
decamethonium  (ISO)
diazinon  (EXP)
dichloroacetic acid  (ISO)
dichlorvos  (ISO)
diethylstilbestrol  (ISO)
dihydro-beta-erythroidine  (EXP,ISO)
dinotefuran  (EXP)
dopamine  (ISO)
endosulfan  (EXP)
epibatidine  (EXP,ISO)
EPTC  (EXP)
ethanol  (ISO)
fenoxycarb  (EXP)
folic acid  (ISO)
furan  (EXP)
galanthamine  (ISO)
galanthamine Trifluoroacetic acid  (ISO)
genistein  (EXP)
graphite  (EXP)
hexachlorophene  (EXP,ISO)
Hexamethonium  (ISO)
imidacloprid  (EXP,ISO)
indigo carmine  (EXP)
LY294002  (ISO)
magnesium dihydroxide  (ISO)
Mecamylamine  (EXP,ISO)
mercury dichloride  (EXP)
methyllycaconitine  (ISO)
Mivacurium  (ISO)
nicotine  (EXP,ISO)
nitenpyram  (EXP)
ochratoxin A  (EXP)
okadaic acid  (ISO)
pancuronium  (ISO)
paracetamol  (ISO)
paraoxon  (EXP)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
PhIP  (EXP)
physostigmine  (ISO)
progesterone  (ISO)
pyrazines  (ISO)
pyridines  (ISO)
rivastigmine  (ISO)
rocuronium  (ISO)
scopolamine  (ISO)
succinylcholine  (ISO)
Sunset Yellow FCF  (EXP)
T-2 toxin  (ISO)
tacrine  (ISO)
tamoxifen  (ISO)
tartrazine  (EXP)
tetrachloroethene  (EXP,ISO)
tetrachloromethane  (EXP)
thiacloprid  (EXP)
thiamethoxam  (EXP)
toluene  (EXP,ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (EXP,ISO)
tubocurarine  (EXP,ISO)
urethane  (EXP)
valproic acid  (EXP,ISO)
varenicline  (EXP,ISO)
vecuronium bromide  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acetylcholine receptor signaling pathway  (IGI,ISO)
action potential  (ISO)
associative learning  (ISO)
B cell activation  (ISO)
behavioral response to nicotine  (ISO)
calcium ion transport  (ISO)
central nervous system neuron axonogenesis  (ISO)
central nervous system projection neuron axonogenesis  (ISO)
chemical synaptic transmission  (IBA)
cognition  (ISO)
conditioned taste aversion  (ISO)
excitatory postsynaptic potential  (IEA)
ion transmembrane transport  (IBA)
lateral geniculate nucleus development  (ISO)
learning  (ISO)
locomotory behavior  (ISO)
membrane depolarization  (ISO)
memory  (ISO)
negative regulation of action potential  (ISO)
nervous system process  (IBA,ISO)
optic nerve morphogenesis  (ISO)
positive regulation of B cell proliferation  (ISO)
positive regulation of dopamine secretion  (ISO)
positive regulation of synaptic transmission, dopaminergic  (ISO)
regulation of circadian sleep/wake cycle, non-REM sleep  (ISO)
regulation of circadian sleep/wake cycle, REM sleep  (ISO)
regulation of dendrite morphogenesis  (ISO)
regulation of dopamine metabolic process  (ISO)
regulation of dopamine secretion  (ISO)
regulation of membrane potential  (IBA,ISO)
regulation of synapse assembly  (ISO)
regulation of synaptic transmission, dopaminergic  (ISO)
regulation of synaptic vesicle exocytosis  (ISO)
response to acetylcholine  (IGI)
response to cocaine  (ISO)
response to ethanol  (ISO)
response to hypoxia  (ISO)
response to nicotine  (IMP,ISO)
sensory perception of pain  (ISO)
sensory perception of sound  (ISO)
signal transduction  (IBA,ISO)
smooth muscle contraction  (ISO)
social behavior  (ISO)
synaptic transmission involved in micturition  (ISO)
synaptic transmission, cholinergic  (IMP)
vestibulocochlear nerve development  (ISO)
visual learning  (ISO)
visual perception  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
acetylcholine signaling pathway via nicotinic acetylcholine receptor  (ISO)
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)
nicotine pharmacokinetics 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. Albuquerque EX, etal., Physiol Rev. 2009 Jan;89(1):73-120. doi: 10.1152/physrev.00015.2008.
2. Bordia T, etal., J Pharmacol Exp Ther. 2012 Aug;342(2):327-34. doi: 10.1124/jpet.112.194852. Epub 2012 May 1.
3. Boulter J, etal., Proc Natl Acad Sci U S A 1987 Nov;84(21):7763-7.
4. Colón-Sáez JO and Yakel JL, J Physiol. 2011 Jul 1;589(Pt 13):3163-74. doi: 10.1113/jphysiol.2011.209494. Epub 2011 May 3.
5. Deneris ES, etal., Neuron 1988 Mar;1(1):45-54.
6. Di Angelantonio S, etal., Eur J Neurosci 2003 Jun;17(11):2313-22.
7. Forsayeth JR and Kobrin E, J Neurosci. 1997 Mar 1;17(5):1531-8.
8. Gahring LC and Rogers SW, J Biol Chem. 2010 Aug 20;285(34):26049-57. doi: 10.1074/jbc.M110.105346. Epub 2010 Jun 21.
9. Garção P, etal., Neurosci Lett. 2014 Apr 30;566:106-10. doi: 10.1016/j.neulet.2014.02.018. Epub 2014 Mar 4.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. GOA data from the GO Consortium
12. Khiroug SS, etal., J Physiol 2002 Apr 15;540(Pt 2):425-34.
13. Lomazzo E, etal., J Neurochem. 2010 Nov;115(3):625-34. doi: 10.1111/j.1471-4159.2010.06967.x. Epub 2010 Sep 27.
14. Loring RH, etal., Neuroscience. 1988 Mar;24(3):1071-80.
15. Marritt AM, etal., Mol Pharmacol. 2005 Dec;68(6):1656-68. Epub 2005 Aug 29.
16. Matsubayashi H, etal., Brain Res. 2004 Apr 16;1005(1-2):1-8.
17. MGD data from the GO Consortium
18. Mori T, etal., Mol Pharmacol. 2001 Apr;59(4):732-43.
19. NCBI rat LocusLink and RefSeq merged data July 26, 2002
20. OMIM Disease Annotation Pipeline
21. Online Mendelian Inheritance in Man, OMIM (TM).
22. Oshikawa J, etal., Am J Physiol Cell Physiol. 2003 Sep;285(3):C567-74. Epub 2003 May 14.
23. Phillips HA, etal., Am J Hum Genet 2001 Jan;68(1):225-31. Epub 2000 Dec 5.
24. Pipeline to import SMPDB annotations from SMPDB into RGD
25. Rezvani K, etal., J Neurosci. 2009 May 27;29(21):6883-96. doi: 10.1523/JNEUROSCI.4723-08.2009.
26. RGD automated data pipeline
27. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
28. RGD automated import pipeline for gene-chemical interactions
29. Rodrigues-Pinguet N, etal., J Physiol 2003 Jul 1;550(Pt 1):11-26. Epub 2003 May 16.
30. Sallette J, etal., J Biol Chem 2004 Apr 30;279(18):18767-75. Epub 2004 Feb 5.
31. Xiao Y and Kellar KJ, J Pharmacol Exp Ther. 2004 Jul;310(1):98-107. Epub 2004 Mar 11.
32. Zoli M, etal., EMBO J 1999 Mar 1;18(5):1235-44.
Additional References at PubMed
PMID:7870173   PMID:8906617   PMID:9428762   PMID:9614223   PMID:10235262   PMID:10531434   PMID:11027228   PMID:11044747   PMID:11145999   PMID:11222635   PMID:11282258   PMID:11344259  
PMID:11955523   PMID:12079404   PMID:12097474   PMID:12189247   PMID:12876201   PMID:12944511   PMID:14687550   PMID:15215293   PMID:15450117   PMID:15456819   PMID:15464132   PMID:15469877  
PMID:15489024   PMID:15541879   PMID:15569257   PMID:15608630   PMID:15741168   PMID:15788760   PMID:15929983   PMID:15955596   PMID:15963492   PMID:15964197   PMID:16014729   PMID:16033901  
PMID:16253349   PMID:16407231   PMID:16772172   PMID:16965547   PMID:17192655   PMID:17301182   PMID:17470777   PMID:17559419   PMID:17626178   PMID:17900292   PMID:18387948   PMID:18583454  
PMID:18602971   PMID:18818999   PMID:19095841   PMID:19187266   PMID:19567877   PMID:20238211   PMID:20616056   PMID:20633015   PMID:22064677   PMID:22253754   PMID:22323734   PMID:23056257  
PMID:23219030   PMID:23429044   PMID:23583932   PMID:23734673   PMID:23811311   PMID:23846688   PMID:24398291   PMID:25713061   PMID:26276394   PMID:26858154   PMID:27721068   PMID:28666811  


Genomics

Comparative Map Data
Chrnb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22175,181,402 - 175,189,619 (-)NCBI
Rnor_6.0 Ensembl2189,088,570 - 189,096,785 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02189,088,570 - 189,096,785 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02208,511,421 - 208,519,636 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42181,961,373 - 181,969,581 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12181,911,478 - 181,919,687 (-)NCBI
Celera2169,123,949 - 169,132,124 (-)NCBICelera
Cytogenetic Map2q34NCBI
CHRNB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1154,567,778 - 154,580,013 (+)EnsemblGRCh38hg38GRCh38
GRCh381154,567,778 - 154,584,708 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371154,540,254 - 154,552,489 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361152,806,881 - 152,818,978 (+)NCBINCBI36hg18NCBI36
Build 341151,353,329 - 151,362,156NCBI
Celera1127,611,891 - 127,623,988 (+)NCBI
Cytogenetic Map1q21.3NCBI
HuRef1125,903,718 - 125,915,813 (+)NCBIHuRef
CHM1_11155,936,657 - 155,948,754 (+)NCBICHM1_1
Chrnb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39389,660,755 - 89,671,939 (-)NCBIGRCm39mm39
GRCm39 Ensembl389,653,502 - 89,671,939 (-)Ensembl
GRCm38389,753,448 - 89,764,632 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl389,746,195 - 89,764,632 (-)EnsemblGRCm38mm10GRCm38
MGSCv37389,557,370 - 89,568,554 (-)NCBIGRCm37mm9NCBIm37
MGSCv36389,839,375 - 89,850,512 (-)NCBImm8
Celera389,790,490 - 89,801,674 (-)NCBICelera
Cytogenetic Map3F1NCBI
cM Map339.19NCBI
Chrnb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555451,065,457 - 1,077,526 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555451,065,457 - 1,077,056 (+)NCBIChiLan1.0ChiLan1.0
CHRNB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11133,535,023 - 133,547,361 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1133,535,023 - 133,547,361 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01129,922,740 - 129,931,582 (+)NCBIMhudiblu_PPA_v0panPan3
CHRNB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1742,786,505 - 42,797,976 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl742,789,600 - 42,795,722 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha742,277,266 - 42,288,752 (-)NCBI
ROS_Cfam_1.0742,656,510 - 42,668,001 (-)NCBI
UMICH_Zoey_3.1742,435,765 - 42,447,248 (-)NCBI
UNSW_CanFamBas_1.0742,489,629 - 42,501,090 (-)NCBI
UU_Cfam_GSD_1.0742,773,221 - 42,784,709 (-)NCBI
Chrnb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505825,136,236 - 25,149,726 (+)NCBI
SpeTri2.0NW_0049365804,165,255 - 4,179,285 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHRNB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl495,198,717 - 95,211,037 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1495,196,992 - 95,211,084 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24104,024,711 - 104,036,882 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CHRNB2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1209,245,803 - 9,255,430 (-)NCBI
ChlSab1.1 Ensembl209,247,231 - 9,253,795 (-)Ensembl
Chrnb2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248852,839,607 - 2,851,934 (-)NCBI

Position Markers
BF388105  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.02189,088,249 - 189,088,429NCBIRnor6.0
Rnor_5.02208,511,100 - 208,511,280UniSTSRnor5.0
RGSC_v3.42181,961,052 - 181,961,232UniSTSRGSC3.4
Celera2169,123,628 - 169,123,808UniSTS
RH 3.4 Map21155.4UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)242776916195645082Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)2157914311204022555Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2140566078217498545Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2147522550217498710Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246537589217498710Rat
61457Niddm8Non-insulin dependent diabetes mellitus QTL 84.10.01blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)2188449158189857032Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243133606217498545Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243133606217498545Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
61473Bp19Blood pressure QTL 196.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2186611811189857032Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2149114878225501939Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2181990297240020001Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256244671217498710Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141583337217498710Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828049217498710Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147122993240020001Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2147122993240020001Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2183984665228984665Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2142053350204585731Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2157914409217498545Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2116075644228737869Rat
631522Bp74Blood pressure QTL 740.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2186611811198704485Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2169852800217498545Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557254121739Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557237742948Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2161745602206745602Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2181522444226522444Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2172795683189857032Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2116075644228737869Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2175403337239166203Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2118446646227707979Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2138901276217498710Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)243149788198704485Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)275687495221880419Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2158159186217498710Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283819608239166203Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828236243550655Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283819608243901375Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2158159186217498710Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2142053350228984665Rat
1549833Bp257Blood pressure QTL 2570.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2181987080199696953Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2118446793228582621Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2177680772243901375Rat
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
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2118446646200453484Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2118446646200453484Rat
1359032Hrtrt18Heart rate QTL 18heart pumping trait (VT:2000009)heart rate (CMO:0000002)2169852670207612467Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2188838511228984665Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278321410217498710Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2159585731204585731Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2149614623198704357Rat
7488904Bp363Blood pressure QTL 3630.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2186889035189857032Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2174160958219160958Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2177339806222339806Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2169852670243026643Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283754907237610852Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2149614466205573168Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2149614466205573168Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2172795683189857032Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2172795683199696953Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2172795683199696953Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2172795683189857032Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2172795683199696953Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2172795683199696953Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2172795683189857032Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2172795683189857032Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2172795683199696953Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2172795683189857032Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:91
Count of miRNA genes:68
Interacting mature miRNAs:81
Transcripts:ENSRNOT00000028200
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 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 68
Low 1 6 10 2 2 6 8 28 2
Below cutoff 2 33 24 16 17 16 5 6 27 13 9 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000028200   ⟹   ENSRNOP00000028200
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2189,088,570 - 189,096,785 (-)Ensembl
RefSeq Acc Id: NM_019297   ⟹   NP_062170
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22175,181,402 - 175,189,619 (-)NCBI
Rnor_6.02189,088,570 - 189,096,785 (-)NCBI
Rnor_5.02208,511,421 - 208,519,636 (-)NCBI
RGSC_v3.42181,961,373 - 181,969,581 (-)RGD
Celera2169,123,949 - 169,132,124 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_062170 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC78724 (Get FASTA)   NCBI Sequence Viewer  
  AAS90354 (Get FASTA)   NCBI Sequence Viewer  
  EDM00614 (Get FASTA)   NCBI Sequence Viewer  
  P12390 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_062170   ⟸   NM_019297
- Peptide Label: precursor
- UniProtKB: P12390 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000028200   ⟸   ENSRNOT00000028200

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)
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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:2350 AgrOrtholog
Ensembl Genes ENSRNOG00000020778 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000028200 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000028200 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.70.170.10 UniProtKB/Swiss-Prot
InterPro CHRNB2 UniProtKB/Swiss-Prot
  Neur_chan_lig-bd UniProtKB/Swiss-Prot
  Neur_chan_lig-bd_sf UniProtKB/Swiss-Prot
  Neur_channel UniProtKB/Swiss-Prot
  Neuro-gated_channel_TM_sf UniProtKB/Swiss-Prot
  Neurotrans-gated_channel_TM UniProtKB/Swiss-Prot
  Neurotransmitter_ion_chnl_CS UniProtKB/Swiss-Prot
  Nicotinic_acetylcholine_rcpt UniProtKB/Swiss-Prot
KEGG Report rno:54239 UniProtKB/Swiss-Prot
NCBI Gene 54239 ENTREZGENE
PANTHER PTHR18945 UniProtKB/Swiss-Prot
  PTHR18945:SF80 UniProtKB/Swiss-Prot
Pfam Neur_chan_LBD UniProtKB/Swiss-Prot
  Neur_chan_memb UniProtKB/Swiss-Prot
PharmGKB CHRNB2 RGD
PhenoGen Chrnb2 PhenoGen
PRINTS NICOTINICR UniProtKB/Swiss-Prot
  NRIONCHANNEL UniProtKB/Swiss-Prot
PROSITE NEUROTR_ION_CHANNEL UniProtKB/Swiss-Prot
Superfamily-SCOP SSF63712 UniProtKB/Swiss-Prot
  SSF90112 UniProtKB/Swiss-Prot
TIGRFAMs LIC UniProtKB/Swiss-Prot
UniProt ACHB2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q53YK1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Chrnb2  cholinergic receptor nicotinic beta 2 subunit  Chrnb2  cholinergic receptor, nicotinic beta 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Chrnb2  cholinergic receptor, nicotinic beta 2  Chrnb2  cholinergic receptor, nicotinic, beta 2 (neuronal)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-29 Chrnb2  cholinergic receptor, nicotinic, beta 2 (neuronal)  Chrnb2  cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Chrnb2  cholinergic receptor, nicotinic, beta polypeptide 2 (neuronal)    cholinergic receptor, nicotinic, beta polypeptide 2  Name updated 1299863 APPROVED
2002-06-10 Chrnb2  cholinergic receptor, nicotinic, beta polypeptide 2      Symbol and Name status set to approved 70586 APPROVED