Casp12 (caspase 12) - Rat Genome Database

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Gene: Casp12 (caspase 12) Rattus norvegicus
Analyze
Symbol: Casp12
Name: caspase 12
RGD ID: 621758
Description: Enables cysteine-type peptidase activity; endopeptidase activity; and protease binding activity. Involved in several processes, including cellular response to manganese ion; positive regulation of striated muscle cell apoptotic process; and protein autoprocessing. Located in cytosol and nucleus. Used to study sciatic neuropathy. Biomarker of several diseases, including diabetes mellitus (multiple); heart disease (multiple); neurodegenerative disease (multiple); post-traumatic stress disorder; and ureteral obstruction. Orthologous to human CASP12 (caspase 12 (gene/pseudogene)); PARTICIPATES IN Alzheimer's disease pathway; amyotrophic lateral sclerosis pathway; apoptotic cell death pathway; INTERACTS WITH (+)-pilocarpine; (R)-noradrenaline; (S)-nicotine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CASP-12; caspase-12
RGD Orthologs
Human
Mouse
Dog
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.282,642,296 - 2,669,549 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl82,642,434 - 2,674,037 (+)Ensembl
Rnor_6.082,658,892 - 2,686,160 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl82,659,865 - 2,686,160 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.082,680,961 - 2,711,365 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.482,082,933 - 2,110,511 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.182,082,932 - 2,110,511 (+)NCBI
Celera84,241,433 - 4,268,684 (+)NCBICelera
Cytogenetic Map8q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
(+)-pilocarpine  (EXP)
(+)-Tetrandrine  (ISO)
(R)-noradrenaline  (EXP)
(S)-nicotine  (EXP,ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (EXP)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,1-dichloroethene  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2,4-dinitrotoluene  (EXP)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
2-aminoethoxydiphenylborane  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4,5,3',4',5'-Hexachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (EXP,ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-aminophenol  (EXP)
4-phenylbutyric acid  (EXP,ISO)
acetamide  (EXP)
acrylamide  (ISO)
acrylonitrile  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (ISO)
aluminium atom  (ISO)
aluminium(0)  (ISO)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP)
apigenin  (ISO)
arsenic acid  (EXP)
arsenite(3-)  (EXP,ISO)
arsenous acid  (EXP,ISO)
BAPTA  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
brefeldin A  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
Chikusetsusaponin-V  (ISO)
chloroacetic acid  (ISO)
chlorohydrocarbon  (EXP)
chloroquine  (EXP)
chlorpyrifos  (EXP)
choline  (ISO)
chromium(6+)  (EXP)
cimetidine  (ISO)
cisplatin  (EXP,ISO)
citric acid  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (EXP)
corticosterone  (EXP)
Cuprizon  (EXP)
curcumin  (EXP,ISO)
D-glucose  (ISO)
DDE  (EXP)
demethoxycurcumin  (ISO)
desferrioxamine B  (ISO)
Diacetoxyscirpenol  (ISO)
diarsenic trioxide  (EXP,ISO)
diazinon  (EXP)
dibutyl phthalate  (ISO)
dieldrin  (EXP)
diethylstilbestrol  (EXP)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
doxorubicin  (EXP,ISO)
edaravone  (EXP)
emodin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
ethylene glycol bis(2-aminoethyl)tetraacetic acid  (ISO)
excitatory amino acid agonist  (ISO)
fisetin  (ISO)
flutamide  (EXP)
folic acid  (ISO)
furan  (EXP)
furosemide  (EXP)
geneticin  (ISO)
gentamycin  (EXP)
glucose  (ISO)
GW 4064  (ISO)
heparin  (ISO)
hydralazine  (ISO)
hydrogen peroxide  (EXP,ISO)
hydroxamic acid  (EXP)
icosanoid  (EXP)
iron(III) nitrilotriacetate  (EXP)
isoflurane  (EXP)
ketoconazole  (ISO)
KN-93  (EXP)
L-methionine  (ISO)
lead(0)  (EXP)
lead(2+)  (EXP)
lipopolysaccharide  (ISO)
lithium atom  (EXP)
lithium hydride  (EXP)
manganese(II) chloride  (EXP,ISO)
meglumine amidotrizoate  (EXP)
melatonin  (EXP,ISO)
methamphetamine  (EXP,ISO)
methapyrilene  (EXP)
methylmercury chloride  (EXP,ISO)
methylseleninic acid  (ISO)
minocycline  (EXP)
Mitotane  (EXP)
N-acetyl-L-cysteine  (EXP,ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
nickel sulfate  (EXP)
nicotine  (EXP,ISO)
ochratoxin A  (EXP)
paclitaxel  (ISO)
paracetamol  (ISO)
paraoxon  (ISO)
paraquat  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP,ISO)
phorbol 13-acetate 12-myristate  (ISO)
poly(guanylic acid)  (EXP)
potassium dichromate  (EXP)
procaine  (ISO)
procymidone  (ISO)
quartz  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rimonabant  (ISO)
rotenone  (EXP,ISO)
rubimaillin  (ISO)
ruthenium red  (ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
salubrinal  (EXP,ISO)
senecionine  (EXP)
silicon dioxide  (EXP)
simvastatin  (ISO)
sirolimus  (EXP,ISO)
sodium arsenite  (EXP)
sodium fluoride  (ISO)
streptozocin  (EXP,ISO)
succimer  (ISO)
sulforaphane  (ISO)
sulfur dioxide  (EXP)
tauroursodeoxycholic acid  (EXP,ISO)
temozolomide  (ISO)
TEMPO  (EXP)
testosterone  (EXP)
tetrachloromethane  (EXP)
thapsigargin  (EXP,ISO)
thioacetamide  (EXP)
thymoquinone  (ISO)
titanium dioxide  (ISO)
tributylstannane  (EXP)
trichlorfon  (ISO)
trichostatin A  (EXP)
Triptolide  (ISO)
triptonide  (ISO)
tunicamycin  (EXP,ISO)
urethane  (ISO)
verapamil  (ISO)
vorinostat  (ISO)
zinc atom  (EXP)
zinc dichloride  (ISO)
zinc oxide  (EXP,ISO)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Atkin JD, etal., J Biol Chem. 2006 Oct 6;281(40):30152-65. Epub 2006 Jul 17.
2. Biswas J, etal., Cell Signal. 2018 Jan;42:211-226. doi: 10.1016/j.cellsig.2017.10.018. Epub 2017 Nov 7.
3. Blas-Valdivia V, etal., Acta Histochem. 2015 Oct;117(8):811-9. doi: 10.1016/j.acthis.2015.07.003. Epub 2015 Jul 31.
4. Cai J, etal., Neurosci Lett. 2008 Aug 22;441(2):167-72. Epub 2008 May 24.
5. Chen J, etal., Neurosci Lett. 2008 Oct 10;443(3):134-9. Epub 2008 Jul 26.
6. Chung L and Ng YC, Biochim Biophys Acta. 2006 Jan;1762(1):103-9. Epub 2005 Aug 24.
7. Crosby KM, etal., Neuroscience. 2007 Jun 8;146(4):1524-35. Epub 2007 Apr 12.
8. Diaz-Horta O, etal., Diabetes 2002 Jun;51(6):1815-24.
9. Dong Y, etal., Int J Clin Exp Pathol. 2015 Dec 1;8(12):15871-8. eCollection 2015.
10. Duan XC, etal., CNS Neurosci Ther. 2017 Jul;23(7):554-566. doi: 10.1111/cns.12703. Epub 2017 May 19.
11. Florian B, etal., Neurosci Lett. 2008 Jun 20;438(2):180-5. Epub 2008 Apr 10.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. Haidara K, etal., Toxicol Appl Pharmacol. 2008 May 15;229(1):65-76. Epub 2008 Jan 29.
14. Ikeuchi Y, etal., J Neurosci. 2009 Apr 1;29(13):4312-21.
15. Kubisch CH, etal., Am J Physiol Gastrointest Liver Physiol. 2006 Aug;291(2):G238-45. Epub 2006 Mar 30.
16. Kumar S, etal., Cardiovasc Res. 2007 Jan 1;73(1):172-80. Epub 2006 Sep 29.
17. Lakshmanan AP, etal., Int J Biochem Cell Biol. 2013 Feb;45(2):438-47. doi: 10.1016/j.biocel.2012.09.017. Epub 2012 Sep 29.
18. Larner SF, etal., J Neurochem. 2004 Jan;88(1):78-90.
19. Li JH, etal., Hepatobiliary Pancreat Dis Int. 2018 Feb;17(1):32-38. doi: 10.1016/j.hbpd.2018.01.006. Epub 2018 Feb 2.
20. Li SS, etal., Ren Fail. 2015 Jun;37(5):890-5. doi: 10.3109/0886022X.2015.1015427. Epub 2015 Feb 24.
21. Li Y, etal., Zhonghua Jie He He Hu Xi Za Zhi. 2014 Jan;37(1):30-5.
22. Liu XR, etal., Mol Med Rep. 2018 May;17(5):7258-7264. doi: 10.3892/mmr.2018.8751. Epub 2018 Mar 15.
23. Liu Y, etal., Zhonghua Gan Zang Bing Za Zhi. 2005 Aug;13(8):563-6.
24. Liu Y, etal., Zhonghua Xin Xue Guan Bing Za Zhi. 2016 Jun 24;44(6):494-500.
25. Lou LX, etal., Clin Exp Pharmacol Physiol. 2009 Jul;36(7):612-8.
26. Lu JF, etal., Fa Yi Xue Za Zhi. 2018 Aug;34(4):347-351. doi: 10.12116/j.issn.1004-5619.2018.04.001. Epub 2018 Aug 25.
27. Matzno S, etal., Life Sci. 2006 Mar 13;78(16):1892-9. Epub 2005 Oct 19.
28. MGD data from the GO Consortium
29. Mouw G, etal., Neuroreport 2003 Feb 10;14(2):183-6.
30. Nakagawa T, etal., Nature. 2000 Jan 6;403(6765):98-103.
31. NCBI rat LocusLink and RefSeq merged data July 26, 2002
32. Pipeline to import KEGG annotations from KEGG into RGD
33. RGD automated data pipeline
34. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
35. RGD automated import pipeline for gene-chemical interactions
36. Roy S, etal., Proc Natl Acad Sci U S A. 2008 Mar 18;105(11):4133-8. Epub 2008 Mar 10.
37. Sasaya H, etal., J Biochem. 2008 Aug;144(2):251-7. Epub 2008 May 13.
38. Sima AA and Li ZG, Diabetes. 2005 May;54(5):1497-505.
39. Sun HL, etal., Exp Clin Endocrinol Diabetes. 2009 Jul;117(7):336-44. Epub 2009 Mar 19.
40. Sun Y, etal., Acta Biochim Pol. 2008;55(3):511-6. Epub 2008 Sep 12.
41. Sun Y, etal., Curr Vasc Pharmacol. 2017;15(2):174-183. doi: 10.2174/1570161114666161025100656.
42. Szegezdi E, etal., Biochem Biophys Res Commun. 2006 Nov 3;349(4):1406-11. Epub 2006 Sep 12.
43. Wan S, etal., Neurol Res. 2009 Feb 11.
44. Wang D, etal., Neurourol Urodyn. 2017 Jan;36(1):65-72. doi: 10.1002/nau.22886. Epub 2015 Sep 14.
45. Wang P, etal., Nat Immunol. 2010 Oct;11(10):912-9. doi: 10.1038/ni.1933. Epub 2010 Sep 5.
46. Wiberg R, etal., Neuroreport. 2018 Jun 13;29(9):779-785. doi: 10.1097/WNR.0000000000001031.
47. Xu B, etal., Mol Neurobiol. 2014 Feb;49(1):399-412. doi: 10.1007/s12035-013-8527-2. Epub 2013 Aug 10.
48. Yan Z, etal., Sheng Li Xue Bao. 2017 Aug 25;69(4):367-377.
49. Yang H, etal., Autophagy. 2020 Feb;16(2):271-288. doi: 10.1080/15548627.2019.1606647. Epub 2019 Apr 21.
50. Yang Y, etal., Reprod Sci. 2015 May;22(5):572-84. doi: 10.1177/1933719114553445. Epub 2014 Oct 20.
51. Yu B, etal., BMC Neurosci. 2014 Oct 21;15:115. doi: 10.1186/s12868-014-0115-5.
52. Yu H, etal., J Cell Mol Med. 2016 Apr;20(4):623-31. doi: 10.1111/jcmm.12739. Epub 2016 Feb 12.
53. Zhang GG, etal., Peptides. 2009 Jun;30(6):1109-16. Epub 2009 May 3.
54. Zhang H, etal., Neurosci Bull. 2008 Feb;24(1):7-12.
55. Zhang Q, etal., Apoptosis. 2016 Apr;21(4):432-42. doi: 10.1007/s10495-016-1217-6.
56. Zhao Y, etal., Zhonghua Yi Xue Za Zhi. 2014 Oct 21;94(38):3024-8.
Additional References at PubMed
PMID:10882126   PMID:12097332   PMID:12847083   PMID:14732288   PMID:15113843   PMID:15556633   PMID:15843901   PMID:16955111   PMID:18280615   PMID:19769458   PMID:20444431   PMID:20871144  
PMID:21429313   PMID:21476018   PMID:21525936   PMID:21784110   PMID:21845883   PMID:22099262   PMID:24129401   PMID:24185830   PMID:24961950   PMID:24976582   PMID:25219918   PMID:25839043  
PMID:26261584   PMID:28078280  


Genomics

Comparative Map Data
Casp12
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.282,642,296 - 2,669,549 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl82,642,434 - 2,674,037 (+)Ensembl
Rnor_6.082,658,892 - 2,686,160 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl82,659,865 - 2,686,160 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.082,680,961 - 2,711,365 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.482,082,933 - 2,110,511 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.182,082,932 - 2,110,511 (+)NCBI
Celera84,241,433 - 4,268,684 (+)NCBICelera
Cytogenetic Map8q11NCBI
CASP12
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl11104,885,718 - 104,898,670 (-)EnsemblGRCh38hg38GRCh38
GRCh3811104,885,718 - 104,898,460 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3711104,756,445 - 104,769,187 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611104,262,627 - 104,274,607 (-)NCBINCBI36hg18NCBI36
Build 3411104,262,626 - 104,274,607NCBI
Cytogenetic Map11q22.3NCBI
HuRef11100,688,549 - 100,700,548 (-)NCBIHuRef
CHM1_111104,639,398 - 104,652,341 (-)NCBICHM1_1
Casp12
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3995,345,419 - 5,373,034 (+)NCBIGRCm39mm39
GRCm39 Ensembl95,345,430 - 5,373,032 (+)Ensembl
GRCm3895,345,442 - 5,373,034 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl95,345,430 - 5,373,032 (+)EnsemblGRCm38mm10GRCm38
MGSCv3795,345,476 - 5,373,034 (+)NCBIGRCm37mm9NCBIm37
MGSCv3695,345,502 - 5,373,034 (+)NCBImm8
Celera3117,331,063 - 117,358,628 (-)NCBICelera
Cytogenetic Map9A1NCBI
cM Map92.46NCBI
CASP12
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1527,162,840 - 27,176,964 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl527,161,700 - 27,177,683 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha527,093,663 - 27,107,789 (+)NCBI
ROS_Cfam_1.0527,199,590 - 27,213,717 (+)NCBI
UMICH_Zoey_3.1527,241,103 - 27,255,223 (+)NCBI
UNSW_CanFamBas_1.0527,127,410 - 27,141,630 (+)NCBI
UU_Cfam_GSD_1.0527,286,329 - 27,300,448 (+)NCBI


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
71120Niddm21Non-insulin dependent diabetes mellitus QTL 213.73blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)813402289Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:24
Count of miRNA genes:23
Interacting mature miRNAs:24
Transcripts:ENSRNOT00000010243
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 20 12 12 1 7 11
Low 3 38 25 17 19 17 8 11 62 34 31 8
Below cutoff 4 12 12 12 12 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010243   ⟹   ENSRNOP00000010244
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl82,642,883 - 2,672,278 (+)Ensembl
Rnor_6.0 Ensembl82,659,871 - 2,686,160 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088553   ⟹   ENSRNOP00000071294
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl82,642,434 - 2,669,525 (+)Ensembl
Rnor_6.0 Ensembl82,659,865 - 2,686,136 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109244   ⟹   ENSRNOP00000088120
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl82,642,883 - 2,674,037 (+)Ensembl
RefSeq Acc Id: NM_130422   ⟹   NP_569106
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.282,642,296 - 2,669,549 (+)NCBI
Rnor_6.082,658,892 - 2,686,160 (+)NCBI
Rnor_5.082,680,961 - 2,711,365 (+)NCBI
RGSC_v3.482,082,933 - 2,110,511 (+)RGD
Celera84,241,433 - 4,268,684 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_569106 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAL26897 (Get FASTA)   NCBI Sequence Viewer  
  ACM66670 (Get FASTA)   NCBI Sequence Viewer  
  EDL78548 (Get FASTA)   NCBI Sequence Viewer  
  Q920D5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_569106   ⟸   NM_130422
- UniProtKB: Q920D5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000010244   ⟸   ENSRNOT00000010243
RefSeq Acc Id: ENSRNOP00000071294   ⟸   ENSRNOT00000088553
RefSeq Acc Id: ENSRNOP00000088120   ⟸   ENSRNOT00000109244
Protein Domains
CARD   CASPASE_P10   CASPASE_P20

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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)
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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)
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)
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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)
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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)
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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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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)
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
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
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: 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)
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
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)
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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (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: 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)
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
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)
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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
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)
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: 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)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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: 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)
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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (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
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (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
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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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
WN/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
WN/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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621758 AgrOrtholog
Ensembl Genes ENSRNOG00000033434 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000010244 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071294 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010243 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000088553 UniProtKB/TrEMBL
InterPro CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase_12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase_cys_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase_his_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DEATH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14_p10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14_p20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:156117 UniProtKB/Swiss-Prot
NCBI Gene 156117 ENTREZGENE
PANTHER PTHR10454 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10454:SF134 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Casp12 PhenoGen
PRINTS IL1BCENZYME UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CASPASE_CYS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CASPASE_HIS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CASPASE_P10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CASPASE_P20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CASc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52129 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K041_RAT UniProtKB/TrEMBL
  CASPC_RAT UniProtKB/Swiss-Prot
  F1LNW4_RAT UniProtKB/TrEMBL
  Q920D5 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Casp12  caspase 12      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Casp12  caspase 12      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the endoplasmic reticulum 1299333
gene_regulation activity is induced by overexpression of plasma membrane Na/Ca exchanger (NCX1.7 isoform) 632460