Tnnt2 (troponin T2, cardiac type) - Rat Genome Database

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Gene: Tnnt2 (troponin T2, cardiac type) Rattus norvegicus
Analyze
Symbol: Tnnt2
Name: troponin T2, cardiac type
RGD ID: 3882
Description: Enables protein-macromolecule adaptor activity and troponin I binding activity. Involved in actin crosslink formation; cardiac muscle contraction; and regulation of muscle filament sliding speed. Located in myofibril. Part of troponin complex. Human ortholog(s) of this gene implicated in intrinsic cardiomyopathy (multiple). Orthologous to human TNNT2 (troponin T2, cardiac type); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH (E)-thiamethoxam; 1-naphthyl isothiocyanate; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cardiac muscle troponin T; cardiac troponin T2; cTnT; Ctt; CTTG; RATCTTG; Tnnt3; tnTc; Troponin T cardiac; troponin T type 2 (cardiac); Troponin T, cardiac; troponin T, cardiac muscle; troponin T2; troponin T2 cardiac; troponin T2, cardiac
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
mRatBN7.21347,267,325 - 47,285,390 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1347,267,204 - 47,285,388 (+)Ensembl
Rnor_6.01352,662,974 - 52,680,992 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1352,662,996 - 52,680,990 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01357,711,369 - 57,729,182 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41348,872,972 - 48,885,815 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11348,887,014 - 48,899,858 (+)NCBI
Celera1347,589,409 - 47,602,135 (+)NCBICelera
Cytogenetic Map13q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
(E)-thiamethoxam  (EXP)
1,2-dimethylhydrazine  (ISO)
1,3-benzothiazole-2-thiol  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4-diaminotoluene  (ISO)
3-methyladenine  (EXP)
3-phenylprop-2-enal  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-azacytidine  (EXP)
6-propyl-2-thiouracil  (EXP)
7beta-aminocephalosporanic acid  (ISO)
7H-xanthine  (EXP)
8-Br-cAMP  (ISO)
9H-xanthine  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
aflatoxin B2  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
ammonium hexachloroplatinate  (ISO)
amphetamine  (EXP)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
carbofuran  (EXP)
carbon nanotube  (ISO)
celastrol  (EXP)
chelerythrine  (ISO)
chloropicrin  (ISO)
choline  (ISO)
Citreoviridin  (EXP,ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
crocin-1  (EXP)
cytarabine  (ISO)
D-glucose  (ISO)
daunorubicin  (EXP)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
disodium selenite  (EXP,ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
ellagic acid  (EXP)
endosulfan  (EXP)
epichlorohydrin  (ISO)
fenvalerate  (EXP)
ferruginol  (EXP)
folic acid  (ISO)
fonofos  (ISO)
gallic acid  (EXP)
glucose  (ISO)
graphite  (EXP)
hexamethylene diisocyanate  (ISO)
hydrogen peroxide  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
isoprenaline  (EXP)
L-methionine  (ISO)
maraviroc  (ISO)
metaproterenol  (EXP)
methimazole  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
naringin  (EXP)
nebivolol  (EXP)
nickel subsulfide  (EXP)
nitrofen  (EXP)
orciprenaline  (EXP)
paraquat  (EXP)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pravastatin  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
pyridaben  (ISO)
quercetin  (EXP)
resveratrol  (ISO)
ribavirin  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
serpentine asbestos  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
thiamethoxam  (EXP)
thiamine(1+) chloride  (EXP,ISO)
thiram  (ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
triclosan  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (EXP)
zaragozic acid A  (EXP,ISO)
zinc atom  (ISO)
zinc(0)  (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)
dilated cardiomyopathy pathway  (IEA)
diltiazem pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
flecainde pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
hypertrophic cardiomyopathy pathway  (IEA)
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)

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Chandra M, etal., Biophys J. 2006 Apr 15;90(8):2867-76. Epub 2006 Jan 27.
2. Frey N, etal., Cardiovasc Res. 2000 Aug;47(2):254-64.
3. Garcia-Castro M, etal., Clin Chem. 2003 Aug;49(8):1279-85.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Heller WT, etal., Biochemistry. 2002 Dec 31;41(52):15654-63.
6. Hojs R, etal., Arch Med Res. 2005 Jul-Aug;36(4):367-71.
7. Homsher E, etal., J Physiol. 2000 Apr 1;524 Pt 1:233-43.
8. Jin JP and Lin JJ, J Biol Chem 1989 Aug 25;264(24):14471-7.
9. Jin JP, etal., J Mol Biol 1992 Oct 20;227(4):1269-76.
10. Li D, etal., Circulation. 2001 Oct 30;104(18):2188-93.
11. Liu Y, etal., Viral Immunol. 2020 Apr 10. doi: 10.1089/vim.2020.0062.
12. MGD data from the GO Consortium
13. NCBI rat LocusLink and RefSeq merged data July 26, 2002
14. OMIM Disease Annotation Pipeline
15. Peddy SB, etal., Pediatrics. 2006 May;117(5):1830-3.
16. Pipeline to import KEGG annotations from KEGG into RGD
17. Pipeline to import SMPDB annotations from SMPDB into RGD
18. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. RGD automated import pipeline for gene-chemical interactions
20. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
21. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
22. Tschirgi ML, etal., J Physiol. 2006 Jul 1;574(Pt 1):263-73. Epub 2006 Apr 27.
23. Watkins H, etal., N Engl J Med 1995 Apr 20;332(16):1058-64.
24. Wu LL, etal., Am J Physiol Regul Integr Comp Physiol. 2001 Aug;281(2):R408-16.
25. Yamamoto M, etal., Circ J. 2004 Jul;68(7):639-44.
Additional References at PubMed
PMID:2530435   PMID:8205619   PMID:9637714   PMID:10449439   PMID:10850966   PMID:11158969   PMID:12093807   PMID:12186860   PMID:12477932   PMID:12738802   PMID:12832403   PMID:15542288  
PMID:15830381   PMID:15923195   PMID:16326803   PMID:16754800   PMID:16981728   PMID:18397962   PMID:18721805   PMID:18781631   PMID:19189074   PMID:19801490   PMID:20014345   PMID:20537565  
PMID:20711602   PMID:21056973   PMID:22364878   PMID:22865385   PMID:23012479   PMID:23357173   PMID:24364879   PMID:25771144   PMID:32322013   PMID:32429250  


Genomics

Comparative Map Data
Tnnt2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21347,267,325 - 47,285,390 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1347,267,204 - 47,285,388 (+)Ensembl
Rnor_6.01352,662,974 - 52,680,992 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1352,662,996 - 52,680,990 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01357,711,369 - 57,729,182 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41348,872,972 - 48,885,815 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11348,887,014 - 48,899,858 (+)NCBI
Celera1347,589,409 - 47,602,135 (+)NCBICelera
Cytogenetic Map13q13NCBI
TNNT2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1201,359,008 - 201,377,764 (-)EnsemblGRCh38hg38GRCh38
GRCh381201,359,014 - 201,377,828 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371201,328,142 - 201,346,808 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361199,594,765 - 199,613,428 (-)NCBINCBI36hg18NCBI36
Build 341198,059,798 - 198,078,462NCBI
Celera1174,451,992 - 174,470,656 (-)NCBI
Cytogenetic Map1q32.1NCBI
HuRef1172,494,387 - 172,513,074 (-)NCBIHuRef
CHM1_11202,750,309 - 202,768,995 (-)NCBICHM1_1
Tnnt2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391135,763,933 - 135,780,006 (+)NCBIGRCm39mm39
GRCm39 Ensembl1135,764,092 - 135,779,998 (+)Ensembl
GRCm381135,836,315 - 135,852,268 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1135,836,354 - 135,852,260 (+)EnsemblGRCm38mm10GRCm38
MGSCv371137,732,963 - 137,748,838 (+)NCBIGRCm37mm9NCBIm37
MGSCv361137,652,816 - 137,668,671 (+)NCBImm8
Celera1138,471,192 - 138,487,068 (+)NCBICelera
Cytogenetic Map1E4NCBI
cM Map159.32NCBI
Tnnt2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540637,487,154 - 37,507,639 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540637,491,462 - 37,507,360 (-)NCBIChiLan1.0ChiLan1.0
TNNT2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11181,258,314 - 181,277,048 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01176,957,298 - 176,976,033 (-)NCBIMhudiblu_PPA_v0panPan3
TNNT2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.171,598,306 - 1,620,531 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl71,598,306 - 1,613,741 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha71,565,151 - 1,580,081 (+)NCBI
ROS_Cfam_1.071,523,217 - 1,537,269 (+)NCBI
UMICH_Zoey_3.171,510,291 - 1,525,219 (+)NCBI
UNSW_CanFamBas_1.071,618,096 - 1,633,001 (+)NCBI
UU_Cfam_GSD_1.071,642,705 - 1,657,644 (+)NCBI
Tnnt2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934473,817,529 - 73,834,405 (+)NCBI
SpeTri2.0NW_0049365673,052,167 - 3,069,077 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNNT2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1023,749,335 - 23,763,396 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11023,749,528 - 23,759,696 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21028,159,010 - 28,173,145 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNNT2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12528,035,563 - 28,054,322 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2528,040,087 - 28,054,120 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605528,830,239 - 28,851,566 (+)NCBIVero_WHO_p1.0
Tnnt2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248079,332,202 - 9,348,610 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D13Wox9  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01357,714,346 - 57,714,528NCBIRnor5.0
RGSC_v3.41348,870,982 - 48,871,163RGDRGSC3.4
RGSC_v3.11348,885,025 - 48,885,206RGD
RH 3.4 Map13148.3UniSTS
RH 3.4 Map13148.3RGD
RH 2.0 Map13389.6RGD
Cytogenetic Map13q13UniSTS
D13Arb9  
Rat AssemblyChrPosition (strand)SourceJBrowse
SHRSP x BN Map1316.2498RGD
D13Mgh15  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21347,282,698 - 47,283,224 (+)MAPPERmRatBN7.2
Rnor_6.01352,678,302 - 52,678,826NCBIRnor6.0
Rnor_5.01357,726,492 - 57,727,016UniSTSRnor5.0
RGSC_v3.41348,883,127 - 48,883,651UniSTSRGSC3.4
RGSC_v3.11348,897,169 - 48,897,694RGD
Celera1347,599,447 - 47,599,971UniSTS
Cytogenetic Map13q13UniSTS
RH131106  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21347,284,494 - 47,285,225 (+)MAPPERmRatBN7.2
Rnor_6.01352,680,097 - 52,680,827NCBIRnor6.0
Rnor_5.01357,728,287 - 57,729,017UniSTSRnor5.0
RGSC_v3.41348,884,922 - 48,885,652UniSTSRGSC3.4
Celera1347,601,242 - 47,601,972UniSTS
RH 3.4 Map13149.6UniSTS
Cytogenetic Map13q13UniSTS
RH143263  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21347,275,549 - 47,275,782 (+)MAPPERmRatBN7.2
Rnor_6.01352,671,196 - 52,671,428NCBIRnor6.0
Rnor_5.01357,719,564 - 57,719,796UniSTSRnor5.0
RGSC_v3.41348,876,199 - 48,876,431UniSTSRGSC3.4
Celera1347,592,636 - 47,592,868UniSTS
RH 3.4 Map13149.8UniSTS
Cytogenetic Map13q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133124133158363171Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
4145117Mcs27Mammary carcinoma susceptibility QTL 270.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)134343790447841255Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134372077062022792Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879472Bp399Blood pressure QTL 399arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134522835847841255Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:212
Count of miRNA genes:87
Interacting mature miRNAs:91
Transcripts:ENSRNOT00000047682, ENSRNOT00000050284
Prediction methods:Microtar, 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 49
Medium 8 6 2 6 2 2 23 18 30 10 2
Low 3 44 30 17 30 6 9 51 17 11 1 6
Below cutoff 5 5 5

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249825 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006249842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598670 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090356 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090358 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039090366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC096932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC161855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EU295527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000242 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M26051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M26052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M80829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000047682   ⟹   ENSRNOP00000049297
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,267,204 - 47,285,388 (+)Ensembl
Rnor_6.0 Ensembl1352,662,996 - 52,680,990 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000050284   ⟹   ENSRNOP00000041541
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,267,204 - 47,285,388 (+)Ensembl
Rnor_6.0 Ensembl1352,667,969 - 52,680,794 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084986   ⟹   ENSRNOP00000069434
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,267,204 - 47,285,388 (+)Ensembl
Rnor_6.0 Ensembl1352,667,969 - 52,680,794 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000108522   ⟹   ENSRNOP00000077671
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1347,270,616 - 47,285,388 (+)Ensembl
RefSeq Acc Id: NM_012676   ⟹   NP_036808
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,323 - 47,285,388 (+)NCBI
Rnor_6.01352,667,969 - 52,680,990 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
RGSC_v3.41348,872,972 - 48,885,815 (+)RGD
Celera1347,589,409 - 47,602,135 (+)RGD
Sequence:
RefSeq Acc Id: XM_006249823   ⟹   XP_006249885
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
Rnor_6.01352,662,975 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249829   ⟹   XP_006249891
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
Rnor_6.01352,662,976 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249833   ⟹   XP_006249895
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
Rnor_6.01352,662,975 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249835   ⟹   XP_006249897
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,349 - 47,285,390 (+)NCBI
Rnor_6.01352,662,976 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249836   ⟹   XP_006249898
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
Rnor_6.01352,662,976 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249838   ⟹   XP_006249900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
Rnor_6.01352,662,977 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249840   ⟹   XP_006249902
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,349 - 47,285,390 (+)NCBI
Rnor_6.01352,662,974 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006249842   ⟹   XP_006249904
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,349 - 47,285,390 (+)NCBI
Rnor_6.01352,662,975 - 52,680,992 (+)NCBI
Rnor_5.01357,711,369 - 57,729,182 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598669   ⟹   XP_017454158
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
Rnor_6.01352,662,976 - 52,680,992 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598670   ⟹   XP_017454159
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,356 - 47,285,390 (+)NCBI
Rnor_6.01352,662,976 - 52,680,992 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598671   ⟹   XP_017454160
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
Rnor_6.01352,663,074 - 52,680,992 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598673   ⟹   XP_017454162
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,349 - 47,285,390 (+)NCBI
Rnor_6.01352,662,975 - 52,680,992 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039090351   ⟹   XP_038946279
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090353   ⟹   XP_038946281
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090354   ⟹   XP_038946282
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090355   ⟹   XP_038946283
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090356   ⟹   XP_038946284
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090357   ⟹   XP_038946285
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090358   ⟹   XP_038946286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090359   ⟹   XP_038946287
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090361   ⟹   XP_038946289
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,325 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090362   ⟹   XP_038946290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,352 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090363   ⟹   XP_038946291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,267,349 - 47,285,390 (+)NCBI
RefSeq Acc Id: XM_039090364   ⟹   XP_038946292
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,283,491 (+)NCBI
RefSeq Acc Id: XM_039090366   ⟹   XP_038946294
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21347,272,308 - 47,285,390 (+)NCBI
Protein Sequences
Protein RefSeqs NP_036808 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249885 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249891 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249895 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249897 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249898 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249900 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249902 (Get FASTA)   NCBI Sequence Viewer  
  XP_006249904 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454158 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454159 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454160 (Get FASTA)   NCBI Sequence Viewer  
  XP_017454162 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946279 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946281 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946282 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946283 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946284 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946285 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946286 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946287 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946289 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946290 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946291 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946292 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946294 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA42296 (Get FASTA)   NCBI Sequence Viewer  
  AAA42297 (Get FASTA)   NCBI Sequence Viewer  
  AAB07676 (Get FASTA)   NCBI Sequence Viewer  
  AAI61855 (Get FASTA)   NCBI Sequence Viewer  
  ABX90058 (Get FASTA)   NCBI Sequence Viewer  
  EDM09675 (Get FASTA)   NCBI Sequence Viewer  
  EDM09676 (Get FASTA)   NCBI Sequence Viewer  
  EDM09677 (Get FASTA)   NCBI Sequence Viewer  
  EDM09678 (Get FASTA)   NCBI Sequence Viewer  
  EDM09679 (Get FASTA)   NCBI Sequence Viewer  
  P50753 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_036808   ⟸   NM_012676
- UniProtKB: P50753 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006249895   ⟸   XM_006249833
- Peptide Label: isoform X10
- UniProtKB: B1WBR4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249885   ⟸   XM_006249823
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006249891   ⟸   XM_006249829
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_006249898   ⟸   XM_006249836
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_006249900   ⟸   XM_006249838
- Peptide Label: isoform X13
- UniProtKB: P50753 (UniProtKB/Swiss-Prot),   A9YUA5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006249897   ⟸   XM_006249835
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: XP_006249902   ⟸   XM_006249840
- Peptide Label: isoform X18
- Sequence:
RefSeq Acc Id: XP_006249904   ⟸   XM_006249842
- Peptide Label: isoform X20
- Sequence:
RefSeq Acc Id: XP_017454162   ⟸   XM_017598673
- Peptide Label: isoform X19
- Sequence:
RefSeq Acc Id: XP_017454159   ⟸   XM_017598670
- Peptide Label: isoform X13
- UniProtKB: P50753 (UniProtKB/Swiss-Prot),   A9YUA5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017454158   ⟸   XM_017598669
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017454160   ⟸   XM_017598671
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: ENSRNOP00000049297   ⟸   ENSRNOT00000047682
RefSeq Acc Id: ENSRNOP00000069434   ⟸   ENSRNOT00000084986
RefSeq Acc Id: ENSRNOP00000041541   ⟸   ENSRNOT00000050284
RefSeq Acc Id: XP_038946281   ⟸   XM_039090353
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946289   ⟸   XM_039090361
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038946291   ⟸   XM_039090363
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038946290   ⟸   XM_039090362
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038946279   ⟸   XM_039090351
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038946282   ⟸   XM_039090354
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038946285   ⟸   XM_039090357
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038946283   ⟸   XM_039090355
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038946284   ⟸   XM_039090356
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038946286   ⟸   XM_039090358
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038946294   ⟸   XM_039090366
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038946287   ⟸   XM_039090359
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038946292   ⟸   XM_039090364
- Peptide Label: isoform X17
RefSeq Acc Id: ENSRNOP00000077671   ⟸   ENSRNOT00000108522

Transcriptome

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

Promoters
RGD ID:13698855
Promoter ID:EPDNEW_R9374
Type:single initiation site
Name:Tnnt2_1
Description:troponin T2, cardiac type
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_6.01352,663,033 - 52,663,093EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
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
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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
Sequenced By: MCW
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/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 (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
Buf/N (MCW)
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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)
DA/OlaHsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/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)
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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
F344/Stm (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
FHH/EurMcwi (MCW)
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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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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)
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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
FXLE16/Stm (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
GH/OmrMcwi (MCW)
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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/FarMcwi (2019)
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Sequenced By: MCW
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
GK/Ox (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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
LE/Stm (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
LEW/Crl (2019)
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Sequenced By: MCW
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
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)
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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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/MavRrrc (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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
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/MavRrrc (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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
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/MavRrrc (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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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/N (MCW)
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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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
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
MHS/Gib (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
MNS/Gib (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
MR/N (2020)
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Sequenced By: MCW
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
MR/N (MCW)
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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
MWF/Hsd (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
SBH/Ygl (MCW)
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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)
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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)
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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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
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)
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Sequenced By: MCW
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
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 (2020)
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Sequenced By: MCW
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
SR/JrHsd (MCW)
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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)
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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
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
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
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