Casp2 (caspase 2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Casp2 (caspase 2) Rattus norvegicus
Analyze
Symbol: Casp2
Name: caspase 2
RGD ID: 69274
Description: Predicted to have cysteine-type endopeptidase activity involved in apoptotic process; identical protein binding activity; and protein domain specific binding activity. Involved in several processes, including aging; animal organ development; and positive regulation of neuron apoptotic process. Localizes to membrane and mitochondrion. Biomarker of status epilepticus. Orthologous to human CASP2 (caspase 2); INTERACTS WITH (R)-noradrenaline; (S)-nicotine; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CASP-2; caspase-2; ICH-1 protease; protease ICH-1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2471,149,632 - 71,167,388 (+)NCBI
Rnor_6.0 Ensembl471,652,354 - 71,670,239 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0471,652,358 - 71,670,228 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04136,454,723 - 136,474,625 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4470,029,728 - 70,047,164 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1470,305,857 - 70,323,294 (+)NCBI
Celera466,080,364 - 66,098,003 (+)NCBICelera
Cytogenetic Map4q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-dexrazoxane  (ISO)
(-)-citrinin  (ISO)
(-)-demecolcine  (ISO)
(R)-noradrenaline  (EXP)
(S)-nicotine  (EXP)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-methoxyethanol  (EXP)
3-chloropropane-1,2-diol  (ISO)
3-nitropropanoic acid  (EXP)
4-hydroxyphenyl retinamide  (ISO)
4-nonylphenol  (EXP)
4-vinylcyclohexene dioxide  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (ISO)
acrolein  (ISO)
actinomycin D  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
amsacrine  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzene  (EXP)
benzo[a]pyrene  (EXP,ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
brefeldin A  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
camptothecin  (ISO)
capsaicin  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carboplatin  (EXP)
casticin  (ISO)
chelerythrine  (ISO)
chromium(6+)  (ISO)
Cinobufotalin  (ISO)
cisplatin  (ISO)
clonidine  (ISO)
clonidine (amino form)  (ISO)
clonidine (imino form)  (ISO)
cocaine  (EXP)
copper(II) sulfate  (ISO)
crocidolite asbestos  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
diclofenac  (ISO)
dicrotophos  (ISO)
diepoxybutane  (ISO)
diethyl maleate  (ISO)
diethylstilbestrol  (ISO)
dimethylarsinic acid  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
epichlorohydrin  (ISO)
ethanol  (ISO)
etoposide  (ISO)
flavanones  (ISO)
folic acid  (ISO)
furan  (EXP)
furosemide  (EXP)
gardenin B  (ISO)
gentamycin  (EXP)
glycyrrhizinic acid  (EXP)
glyphosate  (ISO)
hydrogen peroxide  (ISO)
isobutanol  (ISO)
isoflurane  (EXP)
isoprenaline  (EXP)
L-ascorbic acid  (EXP)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
lithocholic acid  (ISO)
lovastatin  (ISO)
LY294002  (EXP)
manganese(II) chloride  (EXP)
mechlorethamine  (ISO)
menadione  (ISO)
methamphetamine  (EXP)
methotrexate  (ISO)
methoxychlor  (ISO)
methyl methanesulfonate  (ISO)
Mitotane  (EXP)
mitoxantrone  (ISO)
N-[2-amino-6-[(4-fluorophenyl)methylamino]-3-pyridinyl]carbamic acid ethyl ester  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
nickel dichloride  (EXP)
nicotine  (EXP)
norfloxacin  (ISO)
NS-398  (ISO)
ochratoxin A  (ISO)
orphenadrine  (EXP)
oxaliplatin  (EXP)
oxybenzone  (EXP)
p-menthan-3-ol  (ISO)
paracetamol  (EXP)
paraquat  (ISO)
perfluorooctanoic acid  (EXP)
phenylephrine  (ISO)
picrotoxin  (EXP)
podophyllotoxin  (ISO)
Pranoprofen  (ISO)
propylparaben  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
silibinin  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenite  (EXP,ISO)
sodium chloride  (ISO)
sodium cyanate  (ISO)
sodium dichromate  (ISO)
staurosporine  (ISO)
tamoxifen  (ISO)
tauroursodeoxycholic acid  (ISO)
Terfenadine  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
theophylline  (ISO)
thioacetamide  (EXP)
topotecan  (EXP,ISO)
Tributyltin oxide  (EXP)
tunicamycin  (ISO)
undecane  (EXP)
urethane  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
violacein  (ISO)
vorinostat  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA,ISO)
membrane  (IDA)
mitochondrion  (IDA)
nucleus  (ISO)

References

Additional References at PubMed
PMID:9044836   PMID:10931486   PMID:10980123   PMID:11536012   PMID:12477715   PMID:16183742   PMID:18181021   PMID:19593445   PMID:21677688   PMID:21726810   PMID:21903589   PMID:22531785  
PMID:23451279   PMID:23815625   PMID:25416956   PMID:26871637   PMID:30193318   PMID:31515488   PMID:31533600  


Genomics

Comparative Map Data
Casp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2471,149,632 - 71,167,388 (+)NCBI
Rnor_6.0 Ensembl471,652,354 - 71,670,239 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0471,652,358 - 71,670,228 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04136,454,723 - 136,474,625 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4470,029,728 - 70,047,164 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1470,305,857 - 70,323,294 (+)NCBI
Celera466,080,364 - 66,098,003 (+)NCBICelera
Cytogenetic Map4q24NCBI
CASP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7143,288,215 - 143,307,696 (+)EnsemblGRCh38hg38GRCh38
GRCh387143,288,351 - 143,307,696 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh377142,985,444 - 143,004,789 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367142,695,524 - 142,714,907 (+)NCBINCBI36hg18NCBI36
Celera7137,822,267 - 137,841,650 (+)NCBI
Cytogenetic Map7q34NCBI
HuRef7137,322,670 - 137,342,153 (+)NCBIHuRef
CHM1_17142,922,195 - 142,941,676 (+)NCBICHM1_1
CRA_TCAGchr7v27142,387,424 - 142,406,906 (+)NCBI
Casp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39642,241,841 - 42,259,442 (+)NCBIGRCm39mm39
GRCm39 Ensembl642,241,919 - 42,259,442 (+)Ensembl
GRCm38642,264,902 - 42,282,508 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl642,264,985 - 42,282,508 (+)EnsemblGRCm38mm10GRCm38
MGSCv37642,215,038 - 42,232,495 (+)NCBIGRCm37mm9NCBIm37
MGSCv36642,194,646 - 42,212,103 (+)NCBImm8
Celera642,209,337 - 42,226,794 (+)NCBICelera
Cytogenetic Map6B2.1NCBI
cM Map620.54NCBI
Casp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955494353,310 - 368,873 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955494353,572 - 369,207 (-)NCBIChiLan1.0ChiLan1.0
CASP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17147,773,749 - 147,792,958 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7147,773,749 - 147,792,958 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07135,283,072 - 135,307,855 (+)NCBIMhudiblu_PPA_v0panPan3
CASP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1166,378,447 - 6,396,251 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl166,379,913 - 6,396,646 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha167,368,808 - 7,385,123 (-)NCBI
ROS_Cfam_1.0166,232,171 - 6,251,272 (-)NCBI
UMICH_Zoey_3.1166,181,045 - 6,197,357 (-)NCBI
UNSW_CanFamBas_1.0166,032,942 - 6,049,262 (-)NCBI
UU_Cfam_GSD_1.0166,108,280 - 6,124,667 (-)NCBI
Casp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511812,149,166 - 12,164,126 (-)NCBI
SpeTri2.0NW_004936527739,325 - 754,259 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CASP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl186,902,542 - 6,966,092 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1186,946,432 - 6,966,088 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2187,183,208 - 7,206,964 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CASP2
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121112,172,614 - 112,189,574 (+)NCBI
ChlSab1.1 Ensembl21112,172,733 - 112,188,744 (+)Ensembl
Vero_WHO_p1.0NW_0236660728,895,441 - 8,914,545 (+)NCBI
Casp2
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480011,451,784 - 11,468,791 (-)NCBI

Position Markers
RH127476  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2471,167,193 - 71,167,375 (+)MAPPER
Rnor_6.0471,670,034 - 71,670,215NCBIRnor6.0
Rnor_5.04136,474,431 - 136,474,612UniSTSRnor5.0
Celera466,097,809 - 66,097,990UniSTS
RH 3.4 Map4434.8UniSTS
Cytogenetic Map4q23UniSTS
RH140969  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2471,148,728 - 71,148,932 (+)MAPPER
Rnor_6.0471,651,439 - 71,651,642NCBIRnor6.0
Rnor_5.04136,453,800 - 136,454,003UniSTSRnor5.0
RGSC_v3.4470,028,735 - 70,028,938UniSTSRGSC3.4
Celera466,079,371 - 66,079,574UniSTS
RH 3.4 Map4433.61UniSTS
Cytogenetic Map4q23UniSTS
MARC_16655-16656:1017778016:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2471,152,168 - 71,152,636 (+)MAPPER
Rnor_6.0471,655,009 - 71,655,476NCBIRnor6.0
Rnor_5.04136,459,406 - 136,459,873UniSTSRnor5.0
Rnor_5.04136,457,492 - 136,457,959UniSTSRnor5.0
RGSC_v3.4470,031,877 - 70,032,344UniSTSRGSC3.4
Celera466,082,786 - 66,083,253UniSTS
Cytogenetic Map4q23UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4304323179575658Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)43043231145254791Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)4734240492484039Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)423850384169318094Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42399172176238799Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42399172176238799Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42665474981874227Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)429549895112807890Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43182556083531021Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43182556083531021Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43182556083531021Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)43427793299067150Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)436615599145611886Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43768517573066691Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43770327275345433Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)437703272115372927Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)43920822284208222Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)43920824784208247Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44241577787415777Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)443414605155469929Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)443414792146942075Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)443414792146942075Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)446898276145611886Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)449906054145611886Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45532485779575658Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45532485779575658Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45532485779575658Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45532485779575658Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)455324953148360954Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)455375865125671711Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45579156482134846Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45579156492484312Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45579183479557856Rat
1578657Bss12Bone structure and strength QTL 128.9femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)456092756101092756Rat
1578658Bss13Bone structure and strength QTL 138femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)456092756101092756Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45710107792990863Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45730707579578854Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458166424103166424Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)458640017154427984Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)46043912799066957Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)460439127113416139Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)461038901127777403Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46170810388565113Rat
8552807Vie4Viral induced encephalitis QTL 47.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)46170834183531021Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in mean arterial blood pressure (CMO:0002035)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in systolic blood pressure (CMO:0000747)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in pulse pressure (CMO:0001882)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)461708341113100992Rat
2300179Bmd50Bone mineral density QTL 505.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)461975371106975371Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)462947687125671711Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)463537179157286626Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)463812687108812687Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)463812687108812687Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)463812687108812687Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)463938412108938412Rat
2317577Eae24Experimental allergic encephalomyelitis QTL 24nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)46598781473372824Rat
2317577Eae24Experimental allergic encephalomyelitis QTL 24nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)46598781473372824Rat
2317577Eae24Experimental allergic encephalomyelitis QTL 24nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)46598781473372824Rat
2312569Pur19Proteinuria QTL 193.40.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)46598924397759057Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470773471132455556Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)471476518116476518Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)471476518116476518Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:394
Count of miRNA genes:218
Interacting mature miRNAs:288
Transcripts:ENSRNOT00000022543, ENSRNOT00000022672
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
Medium 3 32 39 23 19 23 1 1 71 32 36 11 1
Low 11 18 18 18 7 10 3 3 5 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592876 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108315 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108316 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108317 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108318 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_592090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC121165 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF025671 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF136231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF136232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U34684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U77933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000022543   ⟹   ENSRNOP00000022543
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl471,652,434 - 71,668,257 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000022672   ⟹   ENSRNOP00000022672
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl471,652,354 - 71,670,239 (+)Ensembl
RefSeq Acc Id: NM_022522   ⟹   NP_071967
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2471,149,722 - 71,167,388 (+)NCBI
Rnor_6.0471,652,432 - 71,670,228 (+)NCBI
Rnor_5.04136,454,723 - 136,474,625 (+)NCBI
RGSC_v3.4470,029,728 - 70,047,164 (+)RGD
Celera466,080,364 - 66,098,003 (+)RGD
Sequence:
RefSeq Acc Id: XM_017592876   ⟹   XP_017448365
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0471,652,358 - 71,656,820 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017592877   ⟹   XP_017448366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0471,652,359 - 71,656,369 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039108315   ⟹   XP_038964243
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2471,149,633 - 71,167,388 (+)NCBI
RefSeq Acc Id: XM_039108316   ⟹   XP_038964244
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2471,149,632 - 71,164,824 (+)NCBI
RefSeq Acc Id: XM_039108317   ⟹   XP_038964245
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2471,153,524 - 71,167,388 (+)NCBI
RefSeq Acc Id: XM_039108318   ⟹   XP_038964246
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2471,149,634 - 71,156,942 (+)NCBI
RefSeq Acc Id: XR_592090
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2471,149,633 - 71,165,417 (+)NCBI
Rnor_6.0471,652,359 - 71,668,257 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_071967   ⟸   NM_022522
- UniProtKB: P55215 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017448365   ⟸   XM_017592876
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017448366   ⟸   XM_017592877
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000022543   ⟸   ENSRNOT00000022543
RefSeq Acc Id: ENSRNOP00000022672   ⟸   ENSRNOT00000022672
RefSeq Acc Id: XP_038964244   ⟸   XM_039108316
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038964243   ⟸   XM_039108315
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038964246   ⟸   XM_039108318
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038964245   ⟸   XM_039108317
- Peptide Label: isoform X3
Protein Domains
CARD   CASPASE_P20

Transcriptome

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

Promoters
RGD ID:13693008
Promoter ID:EPDNEW_R3531
Type:initiation region
Name:Casp2_1
Description:caspase 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0471,652,346 - 71,652,406EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69274 AgrOrtholog
Ensembl Genes ENSRNOG00000016707 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022543 UniProtKB/TrEMBL
  ENSRNOP00000022672 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000022543 UniProtKB/TrEMBL
  ENSRNOT00000022672 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase_2 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
  Pept_C14_p20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64314 UniProtKB/Swiss-Prot
NCBI Gene 64314 ENTREZGENE
PANTHER PTHR10454 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10454:SF151 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Casp2 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
  CASPASE_P20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CARD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CASc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF52129 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CASP2_RAT UniProtKB/Swiss-Prot
  D3ZLT0_RAT UniProtKB/TrEMBL
  P55215 ENTREZGENE
UniProt Secondary O35398 UniProtKB/Swiss-Prot
  O55194 UniProtKB/Swiss-Prot
  Q9WUI6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Casp2  caspase 2      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_product member of the ICE/Ced-3 (caspase) family of proteases 68881