Kcnq1 (potassium voltage-gated channel subfamily Q member 1) - Rat Genome Database

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Gene: Kcnq1 (potassium voltage-gated channel subfamily Q member 1) Rattus norvegicus
Analyze
Symbol: Kcnq1
Name: potassium voltage-gated channel subfamily Q member 1
RGD ID: 621503
Description: Exhibits delayed rectifier potassium channel activity; identical protein binding activity; and outward rectifier potassium channel activity. Involved in several processes, including male gonad development; regulation of secretion; and response to anesthetic. Localizes to several cellular components, including basolateral plasma membrane; sarcolemma; and zymogen granule membrane. Predicted to colocalize with early endosome. Used to study hypertension and long QT syndrome. Human ortholog(s) of this gene implicated in heart conduction disease (multiple) and long QT syndrome (multiple). Orthologous to human KCNQ1 (potassium voltage-gated channel subfamily Q member 1); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: IKs producing slow voltage-gated potassium channel subunit alpha KvLQT1; KQT-like 1; Kvlqt1; potassium channel, voltage-gated KQT-like subfamily Q, member 1; potassium voltage-gated channel subfamily KQT member 1; potassium voltage-gated channel, KQT-like subfamily, member 1; potassium voltage-gated channel, subfamily Q, member 1; voltage-gated potassium channel subunit Kv7.1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Kcnq1em9Mcwi   Kcnq1em14Mcwi   Kcnq1dfk   Kcnq1em5Mcwi  
Genetic Models: WTC-Kcnq1dfkKyo SS-Kcnq1em5Mcwi SS-Kcnq1em14Mcwi SS-Kcnq1em9Mcwi
Is Marker For: Strains:   WTC-Kcnq1dfkKyo  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21198,291,711 - 198,624,683 (+)NCBI
Rnor_6.0 Ensembl1216,293,087 - 216,630,339 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01216,293,087 - 216,630,339 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01223,154,713 - 223,490,458 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41203,383,401 - 203,803,687 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11203,536,853 - 203,957,140 (+)NCBI
Celera1195,860,199 - 196,193,008 (+)NCBICelera
Cytogenetic Map1q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-ropivacaine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-(hydroxymethyl)cytosine  (ISO)
8-Br-cAMP  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aprindine  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atenolol  (ISO)
barium chloride  (ISO)
barium(0)  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bupivacaine  (ISO)
butanal  (ISO)
C60 fullerene  (EXP)
carbon nanotube  (ISO)
Chromanol 293B  (ISO)
clofibrate  (ISO)
daunorubicin  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
folic acid  (ISO)
glycidol  (EXP)
isoprenaline  (ISO)
lipopolysaccharide  (ISO)
manganese(II) chloride  (EXP)
mepivacaine  (ISO)
methapyrilene  (ISO)
mitoxantrone  (ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
naphthalene  (ISO)
pentanal  (ISO)
phenylmercury acetate  (ISO)
piperonyl butoxide  (ISO)
potassium atom  (ISO)
propranolol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
Terfenadine  (ISO)
testosterone  (EXP)
tributylstannane  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vanadium atom  (EXP)
vanadium(0)  (EXP)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc sulfate  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
atrial cardiac muscle cell action potential  (ISO)
auditory receptor cell development  (ISO)
cardiac conduction  (ISO)
cardiac muscle contraction  (ISO)
cellular chloride ion homeostasis  (ISO)
cellular response to cAMP  (IEA,ISO)
cellular response to drug  (IEA,ISO)
circulatory system development  (IEA,ISO)
gastric acid secretion  (ISO)
gene silencing  (IEA,ISO)
glucose metabolic process  (ISO)
heart development  (ISO)
inner ear development  (IEA,ISO,ISS)
inner ear morphogenesis  (ISO)
intestinal absorption  (IMP)
iodide transport  (ISO)
male gonad development  (IEP)
membrane repolarization  (ISO,ISS)
membrane repolarization during action potential  (ISO)
membrane repolarization during atrial cardiac muscle cell action potential  (IEA,ISO)
membrane repolarization during cardiac muscle cell action potential  (ISO)
membrane repolarization during ventricular cardiac muscle cell action potential  (IBA,IEA,ISO)
negative regulation of delayed rectifier potassium channel activity  (ISO)
negative regulation of insulin secretion  (IDA)
negative regulation of voltage-gated potassium channel activity  (ISO)
neuromuscular process  (ISO)
non-motile cilium assembly  (ISO)
positive regulation of cardiac muscle contraction  (IEA,ISO)
positive regulation of gastric acid secretion  (IMP)
positive regulation of heart rate  (IEA,ISO)
positive regulation of potassium ion transmembrane transport  (IEA,ISO)
potassium ion export across plasma membrane  (IBA,IEA,ISO)
potassium ion import across plasma membrane  (ISO)
potassium ion transmembrane transport  (IBA,IEA,ISO)
potassium ion transport  (IDA)
regulation of atrial cardiac muscle cell membrane repolarization  (IEA,ISO)
regulation of gastric acid secretion  (IEA,ISO,ISS)
regulation of gene expression by genetic imprinting  (IEA,ISO)
regulation of heart rate  (ISO)
regulation of heart rate by cardiac conduction  (IEA,ISO)
regulation of ion transmembrane transport  (IEA)
regulation of membrane potential  (IDA)
regulation of membrane repolarization  (ISO)
regulation of transporter activity  (ISO)
regulation of ventricular cardiac muscle cell membrane repolarization  (IEA,ISO)
regulation of voltage-gated sodium channel activity  (ISO)
renal absorption  (IEA,ISO,ISS)
response to anesthetic  (IDA)
response to epinephrine  (ISO)
response to insulin  (ISO)
response to nicotine  (ISO)
sensory perception of sound  (ISO)
social behavior  (ISO)
sodium ion transport  (ISO)
ventricular cardiac muscle cell action potential  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
acebutolol pharmacodynamics pathway  (ISO)
adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway  (ISO)
amiodarone pharmacodynamics pathway  (ISO)
amlodipine pharmacodynamics pathway  (ISO)
atenolol pharmacodynamics pathway  (ISO)
betaxolol pharmacodynamics pathway  (ISO)
bisoprolol pharmacodynamics pathway  (ISO)
bupranolol drug pathway  (ISO)
bupranolol pharmacodynamics pathway  (ISO)
carvedilol pharmacodynamics pathway  (ISO)
diltiazem pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
flecainde pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
ibutilide pharmacodynamics pathway  (ISO)
isoprenaline pharmacodynamics pathway  (ISO)
isradipine pharmacodynamics pathway  (ISO)
levobunolol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
metoprolol pharmacodynamics pathway  (ISO)
mexiletine pharmacodynamics pathway  (ISO)
nadolol pharmacodynamics pathway  (ISO)
nebivolol pharmacodynamics pathway  (ISO)
nifedipine pharmacodynamics pathway  (ISO)
nimodipine pharmacodynamics pathway  (ISO)
nisoldipine pharmacodynamics pathway  (ISO)
nitrendipine pharmacodynamics pathway  (ISO)
penbutolol pharmacodynamics pathway  (ISO)
phenytoin pharmacodynamics pathway  (ISO)
pindolol pharmacodynamics pathway  (ISO)
procainamide pharmacodynamics pathway  (ISO)
propranolol pharmacodynamics pathway  (ISO)
quinidine pharmacodynamics pathway  (ISO)
sotalol pharmacodynamics pathway  (ISO)
timolol pharmacodynamics pathway  (ISO)
verapamil pharmacodynamics pathway  (ISO)

References

References - curated
1. Alzamora R, etal., J Physiol. 2011 Nov 1;589(Pt 21):5091-107. doi: 10.1113/jphysiol.2011.215772. Epub 2011 Sep 12.
2. Amin AS, etal., Eur Heart J. 2012 Mar;33(6):714-23. doi: 10.1093/eurheartj/ehr473. Epub 2011 Dec 23.
3. Chen X, etal., Vascul Pharmacol. 2002 Jul;39(1-2):33-8.
4. Chen YH, etal., Science. 2003 Jan 10;299(5604):251-4.
5. Chouabe C, etal., EMBO J. 1997 Sep 1;16(17):5472-9.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Gohma H, etal., Physiol Genomics. 2006 Feb 14;24(3):198-206. Epub 2005 Dec 20.
8. Grahammer F, etal., Gastroenterology. 2001 May;120(6):1363-71.
9. Kaufhold MA, etal., Gastroenterology. 2008 Apr;134(4):1058-69. Epub 2008 Jan 18.
10. Kunzelmann K, etal., J Membr Biol 2001 Jan 15,;179(2):155-64.
11. Kuwamura M, etal., Vet Pathol. 2008 Jul;45(4):586-91.
12. Lee WK, etal., Am J Physiol Cell Physiol. 2008 Apr;294(4):C879-92. Epub 2008 Jan 23.
13. Liao T, etal., Am J Physiol Cell Physiol. 2005 Sep;289(3):C564-75. Epub 2005 Apr 20.
14. MGD data from the GO Consortium
15. Nakajo K, etal., Proc Natl Acad Sci U S A. 2010 Nov 2;107(44):18862-7. doi: 10.1073/pnas.1010354107. Epub 2010 Oct 20.
16. NCBI rat LocusLink and RefSeq merged data July 26, 2002
17. Ohya S, etal., Am J Physiol Gastrointest Liver Physiol 2002 Feb;282(2):G277-87.
18. OMIM Disease Annotation Pipeline
19. Pipeline to import SMPDB annotations from SMPDB into RGD
20. Rapetti-Mauss R, etal., J Physiol. 2013 Jun 1;591(Pt 11):2813-31. doi: 10.1113/jphysiol.2013.251678. Epub 2013 Mar 25.
21. Rasmussen HB, etal., Am J Physiol Heart Circ Physiol 2004 Apr;286(4):H1300-9. Epub 2003 Dec 11.
22. RGD automated data pipeline
23. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
24. RGD automated import pipeline for gene-chemical interactions
25. Tester DJ, etal., Heart Rhythm. 2005 May;2(5):507-17.
26. Tsevi I, etal., J Cell Physiol. 2005 Feb;202(2):400-10.2: id: 27199802 Error occurred: Document retrieval error: document does notexist
27. Ullrich S, etal., Pflugers Arch. 2005 Dec;451(3):428-36. Epub 2005 Aug 30.
28. Vallon V, etal., Proc Natl Acad Sci U S A. 2005 Dec 6;102(49):17864-9. Epub 2005 Nov 28.
29. Wang Z, etal., Mol Genet Metab. 2002 Apr;75(4):308-16.
30. Yamada Y, etal., Biochem Biophys Res Commun 2002 Jun 7;294(2):199-204.
Additional References at PubMed
PMID:8528244   PMID:8900282   PMID:8900283   PMID:9108097   PMID:9305853   PMID:9314834   PMID:9354802   PMID:10400998   PMID:10646604   PMID:11101505   PMID:11120752   PMID:11299204  
PMID:11799244   PMID:12324418   PMID:12410230   PMID:15004216   PMID:15340049   PMID:16002409   PMID:16452155   PMID:16476578   PMID:17289006   PMID:17556370   PMID:17631610   PMID:18093912  
PMID:18165683   PMID:18331828   PMID:19006182   PMID:19372749   PMID:19491250   PMID:19646991   PMID:20196769   PMID:20533308   PMID:20861072   PMID:21228319   PMID:21957902   PMID:22024150  
PMID:22251082   PMID:22348007   PMID:24184248   PMID:24269949   PMID:24855057   PMID:25037568   PMID:25616413   PMID:25705178   PMID:25786344   PMID:25856227   PMID:27413020   PMID:28059450  
PMID:28189443   PMID:28611207   PMID:32248813  


Genomics

Comparative Map Data
Kcnq1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21198,291,711 - 198,624,683 (+)NCBI
Rnor_6.0 Ensembl1216,293,087 - 216,630,339 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01216,293,087 - 216,630,339 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01223,154,713 - 223,490,458 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41203,383,401 - 203,803,687 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11203,536,853 - 203,957,140 (+)NCBI
Celera1195,860,199 - 196,193,008 (+)NCBICelera
Cytogenetic Map1q42NCBI
KCNQ1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl112,444,684 - 2,848,991 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl112,444,684 - 2,849,105 (+)EnsemblGRCh38hg38GRCh38
GRCh38112,445,008 - 2,849,110 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37112,466,238 - 2,870,340 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36112,422,797 - 2,826,916 (+)NCBINCBI36hg18NCBI36
Build 34112,439,259 - 2,826,915NCBI
Celera112,501,049 - 2,905,069 (+)NCBI
Cytogenetic Map11p15.5-p15.4NCBI
HuRef112,256,184 - 2,658,673 (+)NCBIHuRef
CHM1_1112,465,155 - 2,869,215 (+)NCBICHM1_1
Kcnq1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397142,660,614 - 142,980,787 (+)NCBIGRCm39mm39
GRCm39 Ensembl7142,660,099 - 142,980,779 (+)Ensembl
GRCm387143,106,877 - 143,427,050 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7143,106,362 - 143,427,042 (+)EnsemblGRCm38mm10GRCm38
MGSCv377150,293,159 - 150,612,947 (+)NCBIGRCm37mm9NCBIm37
MGSCv367142,916,644 - 143,236,432 (+)NCBImm8
Celera7142,862,859 - 143,182,707 (+)NCBICelera
Cytogenetic Map7F5NCBI
cM Map788.12NCBI
Kcnq1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542214,212,553 - 14,544,556 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542214,212,563 - 14,544,556 (+)NCBIChiLan1.0ChiLan1.0
KCNQ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1112,498,001 - 2,902,198 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0112,469,750 - 2,874,467 (+)NCBIMhudiblu_PPA_v0panPan3
KCNQ1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11846,554,390 - 46,830,533 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1846,518,908 - 46,830,043 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1845,116,523 - 45,440,309 (+)NCBI
ROS_Cfam_1.01847,186,461 - 47,510,762 (+)NCBI
UMICH_Zoey_3.11846,634,218 - 46,955,821 (+)NCBI
UNSW_CanFamBas_1.01846,214,974 - 46,538,652 (+)NCBI
UU_Cfam_GSD_1.01846,962,029 - 47,285,048 (+)NCBI
Kcnq1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049472,763,921 - 3,051,025 (+)NCBI
SpeTri2.0NW_004936794707,122 - 994,206 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCNQ1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl21,675,360 - 1,989,111 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.121,675,323 - 1,989,110 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
KCNQ1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112,261,448 - 2,661,840 (+)NCBI
ChlSab1.1 Ensembl12,261,845 - 2,661,863 (+)Ensembl
Kcnq1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476715,252,961 - 15,613,373 (+)NCBI

Position Markers
D1Wox9  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,325,697 - 216,325,819NCBIRnor6.0
Rnor_5.01223,187,127 - 223,187,249UniSTSRnor5.0
RGSC_v3.41203,416,020 - 203,416,143RGDRGSC3.4
RGSC_v3.41203,416,021 - 203,416,143UniSTSRGSC3.4
RGSC_v3.11203,569,473 - 203,569,596RGD
Celera1195,892,798 - 195,892,916UniSTS
RH 2.0 Map11090.4RGD
Cytogenetic Map1q41UniSTS
BF389163  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,433,507 - 216,433,629NCBIRnor6.0
Rnor_5.01223,294,687 - 223,294,809UniSTSRnor5.0
Celera1196,001,646 - 196,001,768UniSTS
RH 3.4 Map11562.8UniSTS
Cytogenetic Map1q41UniSTS
AA964210  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,440,655 - 216,440,807NCBIRnor6.0
Rnor_5.01223,302,427 - 223,302,579UniSTSRnor5.0
Celera1196,009,173 - 196,009,325UniSTS
Cytogenetic Map1q41UniSTS
Kcnq1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,378,790 - 216,379,969NCBIRnor6.0
Rnor_5.01223,238,047 - 223,239,226UniSTSRnor5.0
RGSC_v3.41203,468,249 - 203,469,428UniSTSRGSC3.4
Celera1195,944,729 - 195,945,908UniSTS
Cytogenetic Map1q41UniSTS
RH134033  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,630,124 - 216,630,336NCBIRnor6.0
Rnor_5.01223,490,243 - 223,490,455UniSTSRnor5.0
RGSC_v3.41203,803,472 - 203,803,684UniSTSRGSC3.4
Celera1196,192,793 - 196,193,005UniSTS
Cytogenetic Map1q41UniSTS
BE120633  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera1196,055,838 - 196,056,016UniSTS
RH 3.4 Map11521.6UniSTS
Cytogenetic Map1q41UniSTS
AU047567  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,407,652 - 216,407,907NCBIRnor6.0
Rnor_5.01223,266,918 - 223,267,173UniSTSRnor5.0
Celera1195,974,267 - 195,974,522UniSTS
Cytogenetic Map1q41UniSTS
AU047338  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,555,699 - 216,555,832NCBIRnor6.0
Celera1196,118,406 - 196,118,539UniSTS
Cytogenetic Map1q41UniSTS
AU049425  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,460,860 - 216,460,988NCBIRnor6.0
Rnor_5.01223,322,674 - 223,322,802UniSTSRnor5.0
Celera1196,028,682 - 196,028,810UniSTS
Cytogenetic Map1q41UniSTS
UniSTS:465396  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,473,690 - 216,473,986NCBIRnor6.0
Rnor_6.01216,480,009 - 216,480,305NCBIRnor6.0
Rnor_5.01223,335,504 - 223,335,800UniSTSRnor5.0
Rnor_5.01223,341,181 - 223,341,477UniSTSRnor5.0
Celera1196,041,145 - 196,041,441UniSTS
Cytogenetic Map1q41UniSTS
Kcnq1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,293,482 - 216,293,521NCBIRnor6.0
Rnor_5.01223,155,108 - 223,155,147UniSTSRnor5.0
RGSC_v3.41203,383,796 - 203,383,835UniSTSRGSC3.4
Celera1195,860,594 - 195,860,633UniSTS
Cytogenetic Map1q41UniSTS
Kcnq1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,370,232 - 216,370,271NCBIRnor6.0
Rnor_5.01223,229,489 - 223,229,528UniSTSRnor5.0
RGSC_v3.41203,459,643 - 203,459,682UniSTSRGSC3.4
Celera1195,936,161 - 195,936,200UniSTS
Cytogenetic Map1q41UniSTS
Kcnq1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,335,834 - 216,335,873NCBIRnor6.0
Rnor_5.01223,197,264 - 223,197,303UniSTSRnor5.0
RGSC_v3.41203,426,076 - 203,426,115UniSTSRGSC3.4
Celera1195,902,856 - 195,902,895UniSTS
Cytogenetic Map1q41UniSTS
Kcnq1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01216,629,197 - 216,629,340NCBIRnor6.0
Rnor_5.01223,489,316 - 223,489,459UniSTSRnor5.0
RGSC_v3.41203,802,545 - 203,802,688UniSTSRGSC3.4
Celera1196,191,866 - 196,192,009UniSTS
Cytogenetic Map1q41UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)199983293216325819Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1126240667217054291Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1193220385238220385Rat
2302375Bw83Body weight QTL 834.870.0002body mass (VT:0001259)body weight (CMO:0000012)1215711860260711860Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
631260Tcas2Tongue tumor susceptibility QTL 24.93tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1210019247217054418Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1189514504234514504Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1198585664236763415Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
1298084Thym4Thymus enlargement QTL 410.68thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1215828102260828102Rat
631658Cm7Cardiac mass QTL 75.320.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)1216324817261324817Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1197963658242963658Rat
1331790Bp201Blood pressure QTL 2013.127arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1216213318245529710Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1205603081244401301Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1197187728230420772Rat
1641926Teswt2Testicular weight QTL 22.82testis mass (VT:1000644)both testes wet weight (CMO:0000175)1215711860258765521Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1189170900234170900Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1189170900234170900Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1189170900234170900Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1189170900234170900Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1189170900234170900Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1189170900234170900Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198446729240017341Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1210960636236763528Rat
1357335Bw39Body weight QTL 393.3body mass (VT:0001259)body weight (CMO:0000012)1215828102260828102Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1600374Mcs17Mammary carcinoma susceptibility QTL 173mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1215684498260684498Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1194554354239554354Rat
1600388Niddm67Non-insulin dependent diabetes mellitus QTL 675.840.000004blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1600395Niddm69Non-insulin dependent diabetes mellitus QTL 694.140.0002blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1213476630278978026Rat
1600396Niddm68Non-insulin dependent diabetes mellitus QTL 684.970.0003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1213476630278978026Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1201146802241482368Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1192639698278228889Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1185390068230390068Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1201358068221983732Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1196738546241738546Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1210360774264802828Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1198655722244992610Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1190282646235282646Rat
1358292Cm37Cardiac mass QTL 376.20.00000081heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1216324817261324817Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1188850303233850303Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
61376Bp42Blood pressure QTL 4223.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1215828102260828102Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1206950905218614387Rat
6480783Insul19Insulin level QTL 194.33blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1215494321218614387Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1197187728238220385Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1202571665264802994Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1210652654255652654Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1194872362239872362Rat


Related Rat Strains
The following Strains have been annotated to Kcnq1


Genetic Models
This gene Kcnq1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:458
Count of miRNA genes:224
Interacting mature miRNAs:257
Transcripts:ENSRNOT00000027875
Prediction methods:Microtar, Miranda, Rnahybrid
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 3 33 1 18 1 11
Low 10 21 9 15 9 8 10 17 17 34 8
Below cutoff 35 32 4 32 1 55 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027875   ⟹   ENSRNOP00000027875
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1216,293,087 - 216,630,339 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075927   ⟹   ENSRNOP00000068229
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1216,381,579 - 216,514,739 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076526
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1216,295,010 - 216,335,869 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076661
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1216,371,824 - 216,394,321 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087153   ⟹   ENSRNOP00000074437
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1216,293,109 - 216,575,599 (+)Ensembl
RefSeq Acc Id: NM_032073   ⟹   NP_114462
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,291,766 - 198,624,666 (+)NCBI
Rnor_6.01216,293,087 - 216,630,339 (+)NCBI
Rnor_5.01223,154,713 - 223,490,458 (+)NCBI
RGSC_v3.41203,383,401 - 203,803,687 (+)RGD
Celera1195,860,199 - 196,193,008 (+)RGD
Sequence:
RefSeq Acc Id: XM_039092702   ⟹   XP_038948630
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,291,712 - 198,570,863 (+)NCBI
RefSeq Acc Id: XM_039092705   ⟹   XP_038948633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,291,713 - 198,624,683 (+)NCBI
RefSeq Acc Id: XM_039092713   ⟹   XP_038948641
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,291,711 - 198,434,452 (+)NCBI
RefSeq Acc Id: XM_039092720   ⟹   XP_038948648
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,291,711 - 198,395,481 (+)NCBI
RefSeq Acc Id: XM_039092725   ⟹   XP_038948653
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,291,712 - 198,395,481 (+)NCBI
RefSeq Acc Id: XM_039092732   ⟹   XP_038948660
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21198,377,101 - 198,624,683 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_114462   ⟸   NM_032073
- Sequence:
RefSeq Acc Id: ENSRNOP00000068229   ⟸   ENSRNOT00000075927
RefSeq Acc Id: ENSRNOP00000074437   ⟸   ENSRNOT00000087153
RefSeq Acc Id: ENSRNOP00000027875   ⟸   ENSRNOT00000027875
RefSeq Acc Id: XP_038948641   ⟸   XM_039092713
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038948648   ⟸   XM_039092720
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038948630   ⟸   XM_039092702
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038948653   ⟸   XM_039092725
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038948633   ⟸   XM_039092705
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038948660   ⟸   XM_039092732
- Peptide Label: isoform X6
Protein Domains
Ion_trans   KCNQ_channel

Transcriptome

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

Promoters
RGD ID:13690571
Promoter ID:EPDNEW_R1096
Type:initiation region
Name:Kcnq1_1
Description:potassium voltage-gated channel subfamily Q member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01216,293,084 - 216,293,144EPDNEW

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)
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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)
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