Tpm1 (tropomyosin 1) - Rat Genome Database

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Gene: Tpm1 (tropomyosin 1) Rattus norvegicus
Analyze
Symbol: Tpm1
Name: tropomyosin 1
RGD ID: 3898
Description: Enables several functions, including actin filament binding activity; disordered domain specific binding activity; and protein dimerization activity. Involved in several processes, including muscle filament sliding; positive regulation of ATPase activity; and regulation of actin filament organization. Located in actin cytoskeleton. Part of protein-containing complex. Human ortholog(s) of this gene implicated in dilated cardiomyopathy 1Y; familial hypertrophic cardiomyopathy; and hypertrophic cardiomyopathy 3. Orthologous to human TPM1 (tropomyosin 1); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH (+)-schisandrin B; 1,3-dinitrobenzene; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: alpha; Alpha-tm; hepatoma alpha tropomyosin; smooth muscle alpha-tropomyosin; striated muscle alpha-tropomyosin; Tma2; Tmsa; Tropomyosin 1 (alpha); tropomyosin 1 alpha chain; tropomyosin 1, alpha; tropomyosin 3; tropomyosin 3 alpha; tropomyosin 3, alpha; tropomyosin alpha-1 chain; tropomyosin-alpha
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Tpm1_v8   Tpm1_v4   Tpm1_v7   Tpm1_v5   Tpm1_v3   Tpm1_v2   Tpm1_v6   Tpm1_v9   Tpm1_v1  
Is Marker For: QTLs:   Inf1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2867,635,479 - 67,662,330 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl867,635,479 - 67,662,802 (-)Ensembl
Rnor_6.0872,814,737 - 72,841,496 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl872,814,740 - 72,842,228 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0877,147,580 - 77,174,392 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4871,331,304 - 71,358,063 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1871,355,970 - 71,371,766 (-)NCBI
Celera874,042,032 - 74,068,764 (+)NCBICelera
Cytogenetic Map8q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
8-Br-cAMP  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (EXP)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
bortezomib  (ISO)
bromobenzene  (EXP)
buspirone  (EXP)
butanal  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
chromium atom  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
clothianidin  (ISO)
cobalt dichloride  (ISO)
copper(II) chloride  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP,ISO)
Deoxycorticosterone acetate  (EXP)
dexamethasone  (ISO)
dibutyl phthalate  (EXP,ISO)
dihydroartemisinin  (ISO)
dioxygen  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
ethanol  (ISO)
finasteride  (EXP)
fluoxetine  (EXP)
flutamide  (EXP)
folic acid  (ISO)
fumonisin B1  (ISO)
furan  (EXP)
genistein  (ISO)
hydrogen peroxide  (EXP,ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
L-methionine  (ISO)
lithium atom  (EXP)
lithium chloride  (ISO)
lithium hydride  (EXP)
methapyrilene  (EXP)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
microcystin  (EXP)
microcystin-LR  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-acetyl-L-cysteine  (EXP)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
naphthalene  (ISO)
naphthalenes  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nicotinic acid  (ISO)
nimesulide  (EXP)
orphenadrine  (EXP)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
PCB138  (EXP)
pentanal  (ISO)
perfluorododecanoic acid  (EXP)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (EXP,ISO)
potassium chloride  (EXP)
potassium chromate  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
quercetin  (EXP,ISO)
rac-lactic acid  (ISO)
raloxifene  (EXP,ISO)
rotenone  (ISO)
sarin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
Soman  (EXP)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP,ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triphenyl phosphate  (EXP)
troglitazone  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
actin cytoskeleton  (IDA,ISO)
actin filament  (IBA)
bleb  (IEA,ISO)
cytoplasm  (ISO)
cytoskeleton  (IEA)
cytosol  (IEA,ISO)
myofibril  (ISO)
protein-containing complex  (IDA)
ruffle membrane  (IEA,ISO)
stress fiber  (IEA,ISO)

Molecular Function

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)

References

References - curated
1. Cooley BC and Bergtrom G, Arch Biochem Biophys 2001 Jun 1;390(1):71-7.
2. Garfinkel LI, etal., J Biol Chem 1982 Sep 25;257(18):11078-86.
3. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Gimona M, etal., Proc Natl Acad Sci U S A. 1995 Oct 10;92(21):9776-80.
5. GOA data from the GO Consortium
6. Goodwin LO, etal., J Biol Chem 1991 May 5;266(13):8408-15.
7. Greenfield NJ, etal., Biophys J. 2005 Jan;88(1):372-83. Epub 2004 Oct 8.
8. Gromak N and Smith CW, Nucleic Acids Res 2002 Aug 15;30(16):3548-57.
9. Hitchcock-DeGregori SE, etal., Biochemistry. 2001 Feb 20;40(7):2104-12.
10. Jaaskelainen P, etal., Ann Med. 2004;36(1):23-32.
11. Kalyva A, etal., Biochemistry. 2012 Aug 14;51(32):6388-99. Epub 2012 Aug 3.
12. Karibe A, etal., Circulation 2001 Jan 2;103(1):65-71.
13. Kostyukova AS, etal., Biochemistry. 2005 Mar 29;44(12):4905-10.
14. Kremneva E, etal., FEBS J. 2006 Feb;273(3):588-600.
15. Lees-Miller JP, etal., Mol Cell Biol 1990 Apr;10(4):1729-42.
16. Maruyama R, etal., Am J Physiol Heart Circ Physiol. 2006 Apr;290(4):H1493-502. Epub 2005 Nov 11.
17. MGD data from the GO Consortium
18. Noda Y, etal., Biochem Biophys Res Commun. 2005 May 20;330(4):1041-7.
19. OMIM Disease Annotation Pipeline
20. Pipeline to import KEGG annotations from KEGG into RGD
21. Pipeline to import SMPDB annotations from SMPDB into RGD
22. Radisic M, etal., Am J Physiol Heart Circ Physiol. 2004 Feb;286(2):H507-16. Epub 2003 Oct 9.
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. Ruiz-Opazo N and Nadal-Ginard B, J Biol Chem 1987 Apr 5;262(10):4755-65.
26. Singh A and Hitchcock-DeGregori SE, Biochemistry. 2003 Dec 9;42(48):14114-21.
27. Skorzewski R, etal., Biochim Biophys Acta. 2009 Feb;1794(2):237-43. doi: 10.1016/j.bbapap.2008.10.014. Epub 2008 Nov 11.
28. Varga AE, etal., Oncogene. 2005 Jul 28;24(32):5043-52.
29. Wieczorek DF, etal., Mol Cell Biol 1988 Feb;8(2):679-94.
30. Zheng Q, etal., Int J Cancer. 2008 Jan 1;122(1):78-90.
Additional References at PubMed
PMID:3838802   PMID:8889548   PMID:9400381   PMID:9440710   PMID:10580117   PMID:10602480   PMID:11273725   PMID:11356630   PMID:12477932   PMID:12686598   PMID:12947022   PMID:16365313  
PMID:16765662   PMID:16980359   PMID:16999976   PMID:17556658   PMID:17987659   PMID:18052203   PMID:18985725   PMID:19037011   PMID:19182904   PMID:20161772   PMID:21817107   PMID:22041451  
PMID:22206666   PMID:22364878   PMID:22433308   PMID:22871113   PMID:23091026   PMID:23420843   PMID:23609439   PMID:24362038   PMID:25002582   PMID:25369766   PMID:28002632   PMID:30361391  
PMID:30462572  


Genomics

Comparative Map Data
Tpm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2867,635,479 - 67,662,330 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl867,635,479 - 67,662,802 (-)Ensembl
Rnor_6.0872,814,737 - 72,841,496 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl872,814,740 - 72,842,228 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0877,147,580 - 77,174,392 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4871,331,304 - 71,358,063 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1871,355,970 - 71,371,766 (-)NCBI
Celera874,042,032 - 74,068,764 (+)NCBICelera
Cytogenetic Map8q24NCBI
TPM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1563,042,632 - 63,071,915 (+)EnsemblGRCh38hg38GRCh38
GRCh381563,042,698 - 63,071,915 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371563,334,946 - 63,364,114 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361561,121,891 - 61,151,167 (+)NCBINCBI36hg18NCBI36
Build 341561,121,940 - 61,145,344NCBI
Celera1540,214,544 - 40,243,825 (+)NCBI
Cytogenetic Map15q22.2NCBI
HuRef1540,157,801 - 40,187,095 (+)NCBIHuRef
CHM1_11563,453,982 - 63,483,261 (+)NCBICHM1_1
Tpm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39966,929,872 - 66,956,954 (-)NCBIGRCm39mm39
GRCm39 Ensembl966,929,872 - 66,956,688 (-)Ensembl
GRCm38967,022,590 - 67,049,672 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl967,022,590 - 67,049,406 (-)EnsemblGRCm38mm10GRCm38
MGSCv37966,870,400 - 66,897,020 (-)NCBIGRCm37mm9NCBIm37
MGSCv36966,821,737 - 66,848,357 (-)NCBImm8
Celera964,256,822 - 64,283,903 (-)NCBICelera
Cytogenetic Map9CNCBI
cM Map936.27NCBI
Tpm1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545012,194,755 - 12,224,011 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545012,197,241 - 12,223,372 (-)NCBIChiLan1.0ChiLan1.0
TPM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11560,286,587 - 60,315,530 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1560,286,587 - 60,315,530 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01541,989,239 - 42,018,520 (+)NCBIMhudiblu_PPA_v0panPan3
TPM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13027,636,407 - 27,664,907 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3027,636,283 - 27,664,442 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3027,555,422 - 27,583,889 (+)NCBI
ROS_Cfam_1.03027,808,901 - 27,837,409 (+)NCBI
UMICH_Zoey_3.13027,745,620 - 27,774,085 (+)NCBI
UNSW_CanFamBas_1.03027,807,813 - 27,836,317 (+)NCBI
UU_Cfam_GSD_1.03028,051,643 - 28,080,112 (+)NCBI
Tpm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640105,795,687 - 105,822,712 (+)NCBI
SpeTri2.0NW_00493647123,643,645 - 23,670,775 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TPM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1108,986,981 - 109,019,440 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11108,986,981 - 109,016,090 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21120,211,175 - 120,240,270 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TPM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12620,458,287 - 20,487,387 (-)NCBI
ChlSab1.1 Ensembl2620,466,037 - 20,487,135 (-)Ensembl
Vero_WHO_p1.0NW_023666048120,912,655 - 120,941,683 (+)NCBI
Tpm1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247819,414,500 - 9,442,357 (-)NCBI

Position Markers
D8Mgh5  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,648,874 - 67,649,003 (+)MAPPERmRatBN7.2
Rnor_6.0872,828,131 - 72,828,259NCBIRnor6.0
Rnor_5.0877,160,974 - 77,161,102UniSTSRnor5.0
RGSC_v3.4871,344,697 - 71,344,826RGDRGSC3.4
RGSC_v3.4871,344,698 - 71,344,826UniSTSRGSC3.4
RGSC_v3.1871,363,751 - 71,363,880RGD
Celera874,055,242 - 74,055,370UniSTS
RH 3.4 Map8855.7UniSTS
RH 3.4 Map8855.7RGD
RH 2.0 Map8618.1RGD
Cytogenetic Map8q24UniSTS
RH132196  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,636,924 - 67,637,144 (+)MAPPERmRatBN7.2
Rnor_6.0872,816,182 - 72,816,401NCBIRnor6.0
Rnor_5.0877,149,025 - 77,149,244UniSTSRnor5.0
RGSC_v3.4871,332,749 - 71,332,968UniSTSRGSC3.4
Celera874,067,100 - 74,067,319UniSTS
RH 3.4 Map8859.2UniSTS
Cytogenetic Map8q24UniSTS
RH144195  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,660,484 - 67,660,714 (+)MAPPERmRatBN7.2
Rnor_6.0872,839,737 - 72,839,966NCBIRnor6.0
Rnor_5.0877,172,580 - 77,172,809UniSTSRnor5.0
RGSC_v3.4871,356,304 - 71,356,533UniSTSRGSC3.4
Celera874,043,534 - 74,043,763UniSTS
RH 3.4 Map8858.5UniSTS
Cytogenetic Map8q24UniSTS
RH140166  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,650,436 - 67,650,622 (+)MAPPERmRatBN7.2
Rnor_6.0872,829,693 - 72,829,878NCBIRnor6.0
Rnor_5.0877,162,536 - 77,162,721UniSTSRnor5.0
RGSC_v3.4871,346,260 - 71,346,445UniSTSRGSC3.4
Celera874,053,623 - 74,053,808UniSTS
RH 3.4 Map8859.3UniSTS
Cytogenetic Map8q24UniSTS
RH134075  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,641,994 - 67,642,182 (+)MAPPERmRatBN7.2
Rnor_6.0872,821,251 - 72,821,438NCBIRnor6.0
Rnor_5.0877,154,094 - 77,154,281UniSTSRnor5.0
RGSC_v3.4871,337,818 - 71,338,005UniSTSRGSC3.4
Celera874,062,063 - 74,062,250UniSTS
RH 3.4 Map8851.8UniSTS
Cytogenetic Map8q24UniSTS
RH136834  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,635,698 - 67,635,900 (+)MAPPERmRatBN7.2
Rnor_6.0872,814,956 - 72,815,157NCBIRnor6.0
Rnor_5.0877,147,799 - 77,148,000UniSTSRnor5.0
RGSC_v3.4871,331,523 - 71,331,724UniSTSRGSC3.4
Celera874,068,344 - 74,068,545UniSTS
RH 3.4 Map8849.9UniSTS
Cytogenetic Map8q24UniSTS
RH138229  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,648,816 - 67,649,005 (+)MAPPERmRatBN7.2
Rnor_6.0872,828,073 - 72,828,261NCBIRnor6.0
Rnor_5.0877,160,916 - 77,161,104UniSTSRnor5.0
RGSC_v3.4871,344,640 - 71,344,828UniSTSRGSC3.4
Celera874,055,240 - 74,055,428UniSTS
RH 3.4 Map8857.7UniSTS
Cytogenetic Map8q24UniSTS
RH140171  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,656,239 - 67,656,427 (+)MAPPERmRatBN7.2
Rnor_6.0872,835,495 - 72,835,682NCBIRnor6.0
Rnor_5.0877,168,338 - 77,168,525UniSTSRnor5.0
RGSC_v3.4871,352,062 - 71,352,249UniSTSRGSC3.4
Celera874,047,819 - 74,048,006UniSTS
RH 3.4 Map8852.0UniSTS
Cytogenetic Map8q24UniSTS
BE117331  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,643,729 - 67,643,887 (+)MAPPERmRatBN7.2
Rnor_6.0872,822,986 - 72,823,143NCBIRnor6.0
Rnor_5.0877,155,829 - 77,155,986UniSTSRnor5.0
RGSC_v3.4871,339,553 - 71,339,710UniSTSRGSC3.4
Celera874,060,358 - 74,060,515UniSTS
RH 3.4 Map8856.8UniSTS
Cytogenetic Map8q24UniSTS
BE118313  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2867,643,141 - 67,643,292 (+)MAPPERmRatBN7.2
Rnor_6.0872,822,398 - 72,822,548NCBIRnor6.0
Rnor_5.0877,155,241 - 77,155,391UniSTSRnor5.0
RGSC_v3.4871,338,965 - 71,339,115UniSTSRGSC3.4
Celera874,060,953 - 74,061,103UniSTS
RH 3.4 Map8856.9UniSTS
Cytogenetic Map8q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82266233067662330Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)82950266570386295Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)84186701070386132Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)84980583194805831Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85009524982460899Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85009524982460899Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85009524982460899Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)85396876598968765Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)85404374498968765Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)85423764485365202Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)85423764485365202Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)85423764499103503Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)854259986100382532Rat
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir21rno-miR-21-5pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)18258830
Mir293rno-miR-293-5pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)18258830
Mir338rno-miR-338-3pMirtarbaseexternal_infoMicroarrayFunctional MTI (Weak)18258830

Predicted Target Of
Summary Value
Count of predictions:1022
Count of miRNA genes:301
Interacting mature miRNAs:381
Transcripts:ENSRNOT00000024493, ENSRNOT00000024575, ENSRNOT00000024617, ENSRNOT00000040808, ENSRNOT00000048044, ENSRNOT00000057641
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 47 8 11 8
Medium 3 2 57 41 19 41 74 35 41 11
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001034068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034069 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034070 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001034075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001301336 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001301342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001301736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_019131 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243386 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243388 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243389 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243393 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006243395 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008766208 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080840 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080841 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039080842 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA899493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF370889 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF372215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF372216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF372217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH000854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH002141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI603512 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078780 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BE118215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BU670983 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB585296 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB787774 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF108680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474041 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK483405 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO562261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ074026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214864 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214869 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214894 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214902 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215107 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215110 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215138 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215188 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215226 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215459 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215512 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215746 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215761 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215803 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215808 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215815 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215856 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215919 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216014 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216105 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216118 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216145 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216747 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217468 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217503 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217530 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217808 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224036 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224207 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M34134 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M34135 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M34136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M60666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M60667 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M60668 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M60669 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02411 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02412 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000024493   ⟹   ENSRNOP00000024493
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,641,021 - 67,662,244 (-)Ensembl
Rnor_6.0 Ensembl872,820,277 - 72,841,496 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000024575   ⟹   ENSRNOP00000024575
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,635,479 - 67,662,216 (-)Ensembl
Rnor_6.0 Ensembl872,816,319 - 72,841,496 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000024617   ⟹   ENSRNOP00000024617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,635,482 - 67,656,904 (-)Ensembl
Rnor_6.0 Ensembl872,814,740 - 72,836,159 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000040808   ⟹   ENSRNOP00000047134
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,635,481 - 67,662,244 (-)Ensembl
Rnor_6.0 Ensembl872,814,740 - 72,841,496 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000048044   ⟹   ENSRNOP00000048499
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,641,011 - 67,662,297 (-)Ensembl
Rnor_6.0 Ensembl872,820,276 - 72,841,496 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000057641   ⟹   ENSRNOP00000054446
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,635,479 - 67,662,216 (-)Ensembl
Rnor_6.0 Ensembl872,814,740 - 72,841,496 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085894   ⟹   ENSRNOP00000070151
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,635,479 - 67,662,219 (-)Ensembl
Rnor_6.0 Ensembl872,814,740 - 72,841,496 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090288   ⟹   ENSRNOP00000074187
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,641,990 - 67,662,802 (-)Ensembl
Rnor_6.0 Ensembl872,815,356 - 72,842,228 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099012   ⟹   ENSRNOP00000085868
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,642,088 - 67,662,210 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112475   ⟹   ENSRNOP00000084613
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl867,635,488 - 67,662,215 (-)Ensembl
RefSeq Acc Id: NM_001034068   ⟹   NP_001029240
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,641,020 - 67,662,244 (-)NCBI
Rnor_6.0872,820,276 - 72,841,496 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,042,032 - 74,063,225 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001034069   ⟹   NP_001029241
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,244 (-)NCBI
Rnor_6.0872,814,737 - 72,841,496 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,042,032 - 74,068,764 (+)RGD
Sequence:
RefSeq Acc Id: NM_001034070   ⟹   NP_001029242
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,244 (-)NCBI
Rnor_6.0872,814,737 - 72,841,496 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,042,032 - 74,068,764 (+)RGD
Sequence:
RefSeq Acc Id: NM_001034071   ⟹   NP_001029243
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,244 (-)NCBI
Rnor_6.0872,814,737 - 72,841,496 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,042,032 - 74,068,764 (+)RGD
Sequence:
RefSeq Acc Id: NM_001034072   ⟹   NP_001029244
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,637,055 - 67,662,244 (-)NCBI
Rnor_6.0872,816,312 - 72,841,496 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,042,032 - 74,067,189 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001034073   ⟹   NP_001029245
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,656,904 (-)NCBI
Rnor_6.0872,814,737 - 72,836,159 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,047,342 - 74,068,764 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001034074   ⟹   NP_001029246
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,656,904 (-)NCBI
Rnor_6.0872,814,737 - 72,836,159 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,047,342 - 74,068,764 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001034075   ⟹   NP_001029247
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,641,020 - 67,656,904 (-)NCBI
Rnor_6.0872,820,276 - 72,836,159 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,047,342 - 74,063,225 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001301336   ⟹   NP_001288265
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,641,020 - 67,662,244 (-)NCBI
Rnor_6.0872,820,276 - 72,841,496 (-)NCBI
Celera874,042,032 - 74,063,225 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001301342   ⟹   NP_001288271
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,641,020 - 67,662,244 (-)NCBI
Rnor_6.0872,820,276 - 72,841,496 (-)NCBI
Celera874,042,032 - 74,063,225 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001301736   ⟹   NP_001288665
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,637,055 - 67,656,904 (-)NCBI
Rnor_6.0872,816,312 - 72,836,159 (-)NCBI
Celera874,047,342 - 74,067,189 (+)NCBI
Sequence:
RefSeq Acc Id: NM_019131   ⟹   NP_062004
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,641,020 - 67,656,904 (-)NCBI
Rnor_6.0872,820,276 - 72,836,159 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
RGSC_v3.4871,331,304 - 71,358,063 (-)RGD
Celera874,047,342 - 74,063,225 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006243389   ⟹   XP_006243451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,642,777 - 67,662,330 (-)NCBI
Rnor_6.0872,822,033 - 72,841,491 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006243390   ⟹   XP_006243452
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,323 (-)NCBI
Rnor_6.0872,814,737 - 72,841,495 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006243393   ⟹   XP_006243455
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,642,777 - 67,656,902 (-)NCBI
Rnor_6.0872,822,033 - 72,836,178 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006243395   ⟹   XP_006243457
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,636,722 - 67,656,909 (-)NCBI
Rnor_6.0872,815,976 - 72,836,190 (-)NCBI
Rnor_5.0877,147,580 - 77,174,392 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008766207   ⟹   XP_008764429
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,641,020 - 67,662,330 (-)NCBI
Rnor_6.0872,820,276 - 72,841,491 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039080840   ⟹   XP_038936768
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,330 (-)NCBI
RefSeq Acc Id: XM_039080841   ⟹   XP_038936769
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,323 (-)NCBI
RefSeq Acc Id: XM_039080842   ⟹   XP_038936770
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2867,635,479 - 67,662,330 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001029240 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029241 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029242 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029243 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029244 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029245 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029246 (Get FASTA)   NCBI Sequence Viewer  
  NP_001029247 (Get FASTA)   NCBI Sequence Viewer  
  NP_001288265 (Get FASTA)   NCBI Sequence Viewer  
  NP_001288271 (Get FASTA)   NCBI Sequence Viewer  
  NP_001288665 (Get FASTA)   NCBI Sequence Viewer  
  NP_062004 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243451 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243452 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243455 (Get FASTA)   NCBI Sequence Viewer  
  XP_006243457 (Get FASTA)   NCBI Sequence Viewer  
  XP_008764429 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936768 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936769 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936770 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA18097 (Get FASTA)   NCBI Sequence Viewer  
  AAA18098 (Get FASTA)   NCBI Sequence Viewer  
  AAA18099 (Get FASTA)   NCBI Sequence Viewer  
  AAA21802 (Get FASTA)   NCBI Sequence Viewer  
  AAA21803 (Get FASTA)   NCBI Sequence Viewer  
  AAA21804 (Get FASTA)   NCBI Sequence Viewer  
  AAA21805 (Get FASTA)   NCBI Sequence Viewer  
  AAA40773 (Get FASTA)   NCBI Sequence Viewer  
  AAA40774 (Get FASTA)   NCBI Sequence Viewer  
  AAA42252 (Get FASTA)   NCBI Sequence Viewer  
  AAA42253 (Get FASTA)   NCBI Sequence Viewer  
  AAA42254 (Get FASTA)   NCBI Sequence Viewer  
  AAA42290 (Get FASTA)   NCBI Sequence Viewer  
  AAH78780 (Get FASTA)   NCBI Sequence Viewer  
  AAK54229 (Get FASTA)   NCBI Sequence Viewer  
  AAK54241 (Get FASTA)   NCBI Sequence Viewer  
  AAK54242 (Get FASTA)   NCBI Sequence Viewer  
  AAK54243 (Get FASTA)   NCBI Sequence Viewer  
  CAA26258 (Get FASTA)   NCBI Sequence Viewer  
  CAA26259 (Get FASTA)   NCBI Sequence Viewer  
  EDL84231 (Get FASTA)   NCBI Sequence Viewer  
  EDL84232 (Get FASTA)   NCBI Sequence Viewer  
  EDL84233 (Get FASTA)   NCBI Sequence Viewer  
  EDL84234 (Get FASTA)   NCBI Sequence Viewer  
  EDL84235 (Get FASTA)   NCBI Sequence Viewer  
  EDL84236 (Get FASTA)   NCBI Sequence Viewer  
  EDL84237 (Get FASTA)   NCBI Sequence Viewer  
  EDL84238 (Get FASTA)   NCBI Sequence Viewer  
  EDL84239 (Get FASTA)   NCBI Sequence Viewer  
  EDL84240 (Get FASTA)   NCBI Sequence Viewer  
  EDL84241 (Get FASTA)   NCBI Sequence Viewer  
  EDL84242 (Get FASTA)   NCBI Sequence Viewer  
  EDL84243 (Get FASTA)   NCBI Sequence Viewer  
  EDL84244 (Get FASTA)   NCBI Sequence Viewer  
  EDL84245 (Get FASTA)   NCBI Sequence Viewer  
  EDL84246 (Get FASTA)   NCBI Sequence Viewer  
  EDL84247 (Get FASTA)   NCBI Sequence Viewer  
  P04692 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001029241   ⟸   NM_001034069
- Peptide Label: isoform Tpm1.6cy
- UniProtKB: P04692 (UniProtKB/Swiss-Prot),   A0A0G2JX64 (UniProtKB/TrEMBL),   Q6AZ25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029242   ⟸   NM_001034070
- Peptide Label: isoform Tpm1.7cy
- UniProtKB: Q63607 (UniProtKB/TrEMBL),   Q6AZ25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029243   ⟸   NM_001034071
- Peptide Label: isoform Tpm1.3sm
- UniProtKB: Q63607 (UniProtKB/TrEMBL),   Q6AZ25 (UniProtKB/TrEMBL),   Q923Z2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029244   ⟸   NM_001034072
- Peptide Label: isoform Tpm1.10br
- UniProtKB: P04692 (UniProtKB/Swiss-Prot),   Q91XN6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029240   ⟸   NM_001034068
- Peptide Label: isoform a
- UniProtKB: Q63607 (UniProtKB/TrEMBL),   Q91XN6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029245   ⟸   NM_001034073
- Peptide Label: isoform Tpm1.8cy
- UniProtKB: P04692 (UniProtKB/Swiss-Prot),   A0A0G2JSQ4 (UniProtKB/TrEMBL),   Q6AZ25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029246   ⟸   NM_001034074
- Peptide Label: isoform Tpm1.9cy
- UniProtKB: P04692 (UniProtKB/Swiss-Prot),   Q6AZ25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_062004   ⟸   NM_019131
- Peptide Label: isoform Tpm1.11br
- UniProtKB: P04692 (UniProtKB/Swiss-Prot),   Q6AZ25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029247   ⟸   NM_001034075
- Peptide Label: isoform Tpm1.13
- UniProtKB: P04692 (UniProtKB/Swiss-Prot),   Q91XN7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006243452   ⟸   XM_006243390
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006243457   ⟸   XM_006243395
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_006243451   ⟸   XM_006243389
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006243455   ⟸   XM_006243393
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008764429   ⟸   XM_008766207
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: NP_001288271   ⟸   NM_001301342
- Peptide Label: isoform Tpm1.2st
- Sequence:
RefSeq Acc Id: NP_001288265   ⟸   NM_001301336
- Peptide Label: isoform Tpm1.1st
- UniProtKB: P04692 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001288665   ⟸   NM_001301736
- Peptide Label: isoform Tpm1.12br
- UniProtKB: P04692 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000054446   ⟸   ENSRNOT00000057641
RefSeq Acc Id: ENSRNOP00000048499   ⟸   ENSRNOT00000048044
RefSeq Acc Id: ENSRNOP00000024617   ⟸   ENSRNOT00000024617
RefSeq Acc Id: ENSRNOP00000024575   ⟸   ENSRNOT00000024575
RefSeq Acc Id: ENSRNOP00000024493   ⟸   ENSRNOT00000024493
RefSeq Acc Id: ENSRNOP00000074187   ⟸   ENSRNOT00000090288
RefSeq Acc Id: ENSRNOP00000070151   ⟸   ENSRNOT00000085894
RefSeq Acc Id: ENSRNOP00000047134   ⟸   ENSRNOT00000040808
RefSeq Acc Id: XP_038936768   ⟸   XM_039080840
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936770   ⟸   XM_039080842
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038936769   ⟸   XM_039080841
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000085868   ⟸   ENSRNOT00000099012
RefSeq Acc Id: ENSRNOP00000084613   ⟸   ENSRNOT00000112475

Transcriptome

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

Promoters
RGD ID:13696094
Promoter ID:EPDNEW_R6619
Type:multiple initiation site
Name:Tpm1_2
Description:tropomyosin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6620  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0872,836,061 - 72,836,121EPDNEW
RGD ID:13696095
Promoter ID:EPDNEW_R6620
Type:multiple initiation site
Name:Tpm1_1
Description:tropomyosin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R6619  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0872,841,467 - 72,841,527EPDNEW
RGD ID:6849478
Promoter ID:EP25017
Type:single initiation site
Name:RN_TPMA
Description:Tropomyosin-alpha (skeletal muscle alpha)
SO ACC ID:SO:0000170
Source:EPD (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Notes:homology_group=Homology group 139; Mammalian tropomyosin alpha
Tissues & Cell Lines:striated muscle, smooth muscle
Experiment Methods:Nuclease protection; Sequencing of a full-length cDNA; Primer extension; Nuclease protection; transfected or transformed cells
Position:No map positions available.

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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
ACI/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)
ACI/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
ACI/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
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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
BN/SsN (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
BN/SsN (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
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)
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)
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)
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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
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)
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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/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)
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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
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)
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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/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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0