Casp6 (caspase 6) - Rat Genome Database

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Gene: Casp6 (caspase 6) Rattus norvegicus
Analyze
Symbol: Casp6
Name: caspase 6
RGD ID: 70967
Description: Enables endopeptidase activity. Involved in several processes, including acute inflammatory response to non-antigenic stimulus; axonal fasciculation; and positive regulation of programmed cell death. Located in axon and neuronal cell body. Used to study status epilepticus. Biomarker of brain ischemia; endometritis; middle cerebral artery infarction; and prostate carcinoma. Human ortholog(s) of this gene implicated in ovarian carcinoma. Orthologous to human CASP6 (caspase 6); PARTICIPATES IN apoptotic cell death pathway; INTERACTS WITH (+)-pilocarpine; (R)-noradrenaline; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: apoptotic protease Mch-2; CASP-6; caspase-6; LOC103689977; Mch2; MGC93335
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Candidate Gene For: Eau5
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22218,466,063 - 218,478,503 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2218,466,076 - 218,478,502 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2226,144,507 - 226,156,834 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02224,044,202 - 224,056,533 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02218,901,851 - 218,914,178 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02235,341,326 - 235,353,715 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2230,186,198 - 230,198,555 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl2235,341,365 - 235,353,967 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02249,539,649 - 249,552,032 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42227,361,538 - 227,373,844 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12227,348,217 - 227,360,523 (+)NCBI
Celera2210,748,422 - 210,760,763 (+)NCBICelera
Cytogenetic Map2q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(-)-anisomycin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
(R)-noradrenaline  (EXP)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4-nonylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP,ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
azadirachtin A  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
buspirone  (EXP)
butyric acid  (EXP)
cadmium atom  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
capsaicin  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carnosic acid  (ISO)
casticin  (ISO)
celecoxib  (ISO)
chalcones  (ISO)
chelerythrine  (ISO)
cisplatin  (ISO)
cladribine  (ISO)
clobetasol  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
cypermethrin  (EXP)
deguelin  (ISO)
deoxycholic acid  (ISO)
dexamethasone  (ISO)
Di-n-octyl phthalate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibenzofurans  (ISO)
dibutyl phthalate  (ISO)
diclofenac  (ISO)
dicrotophos  (ISO)
dimethylarsinic acid  (ISO)
doxorubicin  (EXP,ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
equol  (ISO)
ethyl methanesulfonate  (ISO)
flavonoids  (EXP)
flavonols  (ISO)
fluoranthene  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
furosemide  (EXP)
gemcitabine  (ISO)
gentamycin  (EXP)
glutathione  (EXP)
glycidyl methacrylate  (ISO)
glycyrrhizinic acid  (EXP)
glyphosate  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
indometacin  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
ketamine  (ISO)
ketoconazole  (EXP)
L-ascorbic acid  (EXP)
leupeptin  (ISO)
lipopolysaccharide  (ISO)
lithium carbonate  (ISO)
lovastatin  (ISO)
LY294002  (EXP,ISO)
menadione  (EXP)
methamphetamine  (EXP)
methotrexate  (ISO)
methyl beta-cyclodextrin  (ISO)
miconazole  (EXP)
mitoxantrone  (ISO)
monosodium L-glutamate  (ISO)
Myrtucommulone A  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-acylsphinganine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosomorpholine  (EXP)
nickel dichloride  (EXP)
nitrates  (EXP)
p-menthan-3-ol  (ISO)
Panduratin A  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
phenanthrolines  (EXP)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
propiconazole  (ISO)
propylparaben  (ISO)
pyrethrins  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rotenone  (EXP)
rottlerin  (ISO)
royal jelly  (EXP)
SB 203580  (ISO)
Se-methyl-L-selenocysteine  (ISO)
Se-methylselenocysteine  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
staurosporine  (ISO)
streptozocin  (EXP)
sunitinib  (ISO)
surfactin  (ISO)
surfactin C  (ISO)
tamoxifen  (ISO)
tauroursodeoxycholic acid  (ISO)
Terfenadine  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP,ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
topotecan  (ISO)
tributylstannane  (ISO)
trovafloxacin  (EXP)
tunicamycin  (ISO)
ursodeoxycholic acid  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon  (IDA)
cytoplasm  (IBA,ISO)
cytosol  (IEA,ISO)
neuronal cell body  (IDA)
nucleoplasm  (IEA,ISO)
nucleus  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Multiple caspases are involved in beta-amyloid-induced neuronal apoptosis. Allen JW, etal., J Neurosci Res. 2001 Jul 1;65(1):45-53.
2. Prostate carcinomas developing in transgenic rats with SV40 T antigen expression under probasin promoter control are strictly androgen dependent. Asamoto M, etal., Cancer Res. 2001 Jun 15;61(12):4693-700.
3. Antioxidative treatment prevents activation of death-receptor- and mitochondrion-dependent apoptosis in the hearts of diabetic rats. Bojunga J, etal., Diabetologia. 2004 Dec;47(12):2072-80. Epub 2004 Dec 10.
4. Activation of caspases-3, -6, and -9 during finasteride treatment of benign prostatic hyperplasia. Bozec A, etal., J Clin Endocrinol Metab. 2005 Jan;90(1):17-25. Epub 2004 Oct 26.
5. Cyclophilin-A is involved in excitotoxin-induced caspase activation in rat neuronal B50 cells. Capano M, etal., Biochem J 2002 Apr 1;363(Pt 1):29-36.
6. DNAX accessory molecule-1 mediated recognition of freshly isolated ovarian carcinoma by resting natural killer cells. Carlsten M, etal., Cancer Res. 2007 Feb 1;67(3):1317-25.
7. 4'-O-ß-D-Glucosyl-5-O-Methylvisamminol, A Natural Histone H3 Phosphorylation Epigenetic Suppressor, Exerts a Neuroprotective Effect Through PI3K/Akt Signaling Pathway on Focal Cerebral Ischemia in Rats. Chang CZ and Wu SC, World Neurosurg. 2016 May;89:474-88. doi: 10.1016/j.wneu.2016.01.061. Epub 2016 Feb 8.
8. Induction of apoptosis in the lung but not in the liver of rats receiving intra-tracheal instillations of chromium(VI). D'Agostini F, etal., Carcinogenesis. 2002 Apr;23(4):587-93.
9. Toxicogenomic studies of the rat brain at an early time point following acute sarin exposure. Damodaran TV, etal., Neurochem Res. 2006 Mar;31(3):367-81. Epub 2006 May 13.
10. Role of caspases in ionizing radiation-induced apoptosis in the developing cerebellum. Ferrer I J Neurobiol. 1999 Dec;41(4):549-58.
11. Temporal regulation of VEID-7-amino-4-trifluoromethylcoumarin cleavage activity and caspase-6 correlates with organelle loss during lens development. Foley JD, etal., J Biol Chem. 2004 Jul 30;279(31):32142-50. Epub 2004 May 25.
12. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. Alternative programs of cell death in developing retinal tissue. Guimaraes CA, etal., J Biol Chem. 2003 Oct 24;278(43):41938-46. Epub 2003 Aug 12.
14. Protective effects of anti-C5a in sepsis-induced thymocyte apoptosis. Guo RF, etal., J Clin Invest. 2000 Nov;106(10):1271-80.
15. Caspase mRNA expression in a rat model of focal cerebral ischemia. Harrison DC, etal., Brain Res Mol Brain Res. 2001 Apr 18;89(1-2):133-46.
16. Expression and differential processing of caspases 6 and 7 in relation to specific epileptiform EEG patterns following limbic seizures. Henshall DC, etal., Neurobiol Dis 2002 Jul;10(2):71-87.
17. Key apoptotic pathways for heat-induced programmed germ cell death in the testis. Hikim AP, etal., Endocrinology. 2003 Jul;144(7):3167-75.
18. Identification of caspase-6 in rat blastocysts and its implication in the induction of apoptosis by high glucose. Hinck L, etal., Biol Reprod 2003 May;68(5):1808-12. Epub 2002 Dec 11.
19. Identification of gene family of caspases in rat kidney and altered expression in ischemia-reperfusion injury. Kaushal GP, etal., Am J Physiol 1998 Mar;274(3 Pt 2):F587-95.
20. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
21. Expression of apoptosome pathway-related transcripts in non-small cell lung cancer. Krepela E, etal., J Cancer Res Clin Oncol. 2006 Jan;132(1):57-68. Epub 2005 Oct 18.
22. Oxidative repression of NHE1 gene expression involves iron-mediated caspase activity. Kumar AP, etal., Cell Death Differ. 2007 Oct;14(10):1733-46. Epub 2007 Jun 15.
23. Opposite regulation of XIAP and Smac/DIABLO in the rat endometrium in response to 17beta-estradiol at estrus. Leblanc V, etal., Reprod Biol Endocrinol. 2003 Aug 27;1:59.
24. Selenium Plays a Protective Role in Staphylococcus aureus-Induced Endometritis in the Uterine Tissue of Rats. Liu Y, etal., Biol Trace Elem Res. 2016 Oct;173(2):345-53. doi: 10.1007/s12011-016-0659-6. Epub 2016 Feb 26.
25. Gene Data Set MGD Curation, June 12, 2002
26. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
27. Caspase 6 expression in the rat hippocampus during epileptogenesis and epilepsy. Narkilahti S and Pitkanen A, Neuroscience. 2005;131(4):887-97.
28. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
29. De-regulated STAT5A/miR-202-5p/USP15/Caspase-6 regulatory axis suppresses CML cell apoptosis and contributes to Imatinib resistance. Nie ZY, etal., J Exp Clin Cancer Res. 2020 Jan 17;39(1):17. doi: 10.1186/s13046-019-1502-7.
30. Caspase-3 and -6 expression and activation are targeted by hormone action in the rat ventral prostate during the apoptotic cell death process. Omezzine A, etal., Biol Reprod. 2003 Sep;69(3):752-60. Epub 2003 Apr 30.
31. Long-term apoptotic cell death process with increased expression and activation of caspase-3 and -6 in adult rat germ cells exposed in utero to flutamide. Omezzine A, etal., Endocrinology. 2003 Feb;144(2):648-61.
32. [A study on the time-dependent expression of caspase-6 during repair of skin contusion in rats] Peng X, etal., Fa Yi Xue Za Zhi. 2007 Oct;23(5):325-7, 331.
33. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
34. Caspase gene expression in the brain as a function of the clinical progression of Alzheimer disease. Pompl PN, etal., Arch Neurol. 2003 Mar;60(3):369-76.
35. GOA pipeline RGD automated data pipeline
36. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
37. Cloning and expression of rat caspase-6 and its localization in renal ischemia/reperfusion injury. Singh AB, etal., Kidney Int. 2002 Jul;62(1):106-15.
38. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
39. Expression of caspases 3, 6 and 8 is increased in parallel with apoptosis and histological aggressiveness of the breast lesion. Vakkala M, etal., Br J Cancer. 1999 Oct;81(4):592-9.
40. Interleukin-1 beta induces posttranslational carboxymethylation and alterations in subnuclear distribution of lamin B in insulin-secreting RINm5F cells. Veluthakal R, etal., Am J Physiol Cell Physiol. 2004 Oct;287(4):C1152-62. Epub 2004 Jun 16.
41. Death Receptor 6 and Caspase-6 Regulate Prion Peptide-Induced Axonal Degeneration in Rat Spinal Neurons. Wang Y, etal., J Mol Neurosci. 2015 Aug;56(4):966-976. doi: 10.1007/s12031-015-0562-1. Epub 2015 Apr 22.
42. Transient Receptor Potential Channel, Vanilloid 5, Induces Chondrocyte Apoptosis in a Rat Osteoarthritis Model Through the Mediation of Ca2+ Influx. Wei Y, etal., Cell Physiol Biochem. 2018;46(2):687-698. doi: 10.1159/000488725. Epub 2018 Mar 29.
43. Ischemic preconditioning attenuates ischemia-reperfusion-induced mucosal apoptosis by inhibiting the mitochondria-dependent pathway in rat small intestine. Wu B, etal., Am J Physiol Gastrointest Liver Physiol. 2004 Apr;286(4):G580-7.
44. A caspase-6 and anti-human epidermal growth factor receptor-2 (HER2) antibody chimeric molecule suppresses the growth of HER2-overexpressing tumors. Xu YM, etal., J Immunol. 2004 Jul 1;173(1):61-7.
Additional References at PubMed
PMID:12888622   PMID:17167422   PMID:20890311   PMID:21492153   PMID:21988832   PMID:22253444   PMID:25416956   PMID:29229552   PMID:31515488   PMID:32014515  


Genomics

Comparative Map Data
Casp6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22218,466,063 - 218,478,503 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2218,466,076 - 218,478,502 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2226,144,507 - 226,156,834 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02224,044,202 - 224,056,533 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02218,901,851 - 218,914,178 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02235,341,326 - 235,353,715 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2230,186,198 - 230,198,555 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl2235,341,365 - 235,353,967 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02249,539,649 - 249,552,032 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42227,361,538 - 227,373,844 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12227,348,217 - 227,360,523 (+)NCBI
Celera2210,748,422 - 210,760,763 (+)NCBICelera
Cytogenetic Map2q43NCBI
CASP6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384109,664,388 - 109,709,767 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4109,688,622 - 109,703,583 (-)EnsemblGRCh38hg38GRCh38
GRCh374110,609,784 - 110,624,601 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364110,829,234 - 110,844,078 (-)NCBINCBI36Build 36hg18NCBI36
Build 344110,967,388 - 110,982,233NCBI
Celera4107,903,448 - 107,918,292 (-)NCBICelera
Cytogenetic Map4q25NCBI
HuRef4106,342,777 - 106,357,627 (-)NCBIHuRef
CHM1_14110,586,394 - 110,601,238 (-)NCBICHM1_1
T2T-CHM13v2.04112,966,324 - 113,010,471 (-)NCBIT2T-CHM13v2.0
Casp6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393129,695,064 - 129,707,761 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3129,695,074 - 129,707,752 (+)EnsemblGRCm39 Ensembl
GRCm383129,901,415 - 129,914,112 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3129,901,425 - 129,914,103 (+)EnsemblGRCm38mm10GRCm38
MGSCv373129,604,343 - 129,617,020 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363129,893,486 - 129,905,973 (+)NCBIMGSCv36mm8
Celera3136,415,853 - 136,428,433 (+)NCBICelera
Cytogenetic Map3G3NCBI
cM Map359.5NCBI
Casp6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955496577,832 - 584,287 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955496575,839 - 584,287 (+)NCBIChiLan1.0ChiLan1.0
CASP6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan14108,075,317 - 108,092,294 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04102,186,215 - 102,201,992 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14112,753,988 - 112,768,836 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4112,753,988 - 112,768,836 (-)Ensemblpanpan1.1panPan2
CASP6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13229,897,706 - 29,910,522 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3229,897,823 - 29,911,469 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3212,119,155 - 12,132,295 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03230,117,004 - 30,130,146 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3230,117,008 - 30,130,778 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13230,111,494 - 30,124,567 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03229,855,989 - 29,869,067 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0329,980,365 - 9,993,491 (+)NCBIUU_Cfam_GSD_1.0
Casp6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530111,030,886 - 11,038,493 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936563911,304 - 919,119 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936563912,502 - 920,025 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CASP6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8112,520,629 - 112,537,045 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18112,519,450 - 112,534,315 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28120,664,346 - 120,678,399 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CASP6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1757,592,632 - 57,616,094 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl757,593,342 - 57,607,489 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603736,243,873 - 36,268,826 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Casp6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624830171,427 - 184,814 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624830170,392 - 179,883 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Casp6
60 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:39
Count of miRNA genes:36
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000013049
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)278665619219826953Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)281689826221035911Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)281754530222436696Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141194931223265385Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2141194931223265385Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561221167075Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2161699179222436696Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2168358098223265385Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2185876309219753474Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2185876309219753474Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
2299161Iddm33Insulin dependent diabetes mellitus QTL 332.98blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2206312063220876787Rat
631203Gluco14Glucose level QTL 140.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)2206665645219003804Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2215377404237938339Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2218414747240841241Rat

Markers in Region
BE120979  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22218,476,389 - 218,476,554 (+)MAPPERmRatBN7.2
Rnor_6.02235,351,602 - 235,351,766NCBIRnor6.0
Rnor_6.02230,196,442 - 230,196,606NCBIRnor6.0
Rnor_5.02249,549,919 - 249,550,083UniSTSRnor5.0
RGSC_v3.42227,371,731 - 227,371,895UniSTSRGSC3.4
Celera2210,758,650 - 210,758,814UniSTS
RH 3.4 Map21555.3UniSTS
Cytogenetic Map2q43UniSTS


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
Low 3 8 1 11 1 4 16 8
Below cutoff 2 29 46 33 16 33 3 4 39 37 23 8 3

Sequence


RefSeq Acc Id: ENSRNOT00000013049   ⟹   ENSRNOP00000013049
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2218,466,076 - 218,478,502 (+)Ensembl
Rnor_6.0 Ensembl2230,186,198 - 230,198,555 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078017   ⟹   ENSRNOP00000072472
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2235,341,365 - 235,353,967 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000090658   ⟹   ENSRNOP00000071803
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2235,341,374 - 235,353,714 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092954   ⟹   ENSRNOP00000075977
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2230,186,214 - 230,197,845 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093110
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2230,190,327 - 230,195,557 (+)Ensembl
RefSeq Acc Id: NM_001271984   ⟹   NP_001258913
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,466,162 - 218,478,503 (+)NCBI
Rnor_6.02235,341,374 - 235,353,715 (+)NCBI
Rnor_5.02249,539,649 - 249,552,032 (+)NCBI
Celera2210,748,422 - 210,760,763 (+)NCBI
Sequence:
RefSeq Acc Id: NM_031775   ⟹   NP_113963
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,466,162 - 218,478,503 (+)NCBI
Rnor_6.02235,341,374 - 235,353,715 (+)NCBI
Rnor_5.02249,539,649 - 249,552,032 (+)NCBI
RGSC_v3.42227,361,538 - 227,373,844 (+)RGD
Celera2210,748,422 - 210,760,763 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761528   ⟹   XP_008759750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,466,174 - 218,478,503 (+)NCBI
Rnor_6.02235,341,326 - 235,353,565 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591135   ⟹   XP_017446624
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22218,466,063 - 218,478,503 (+)NCBI
Rnor_6.02235,341,330 - 235,353,565 (+)NCBI
Sequence:
RefSeq Acc Id: NP_113963   ⟸   NM_031775
- UniProtKB: O35397 (UniProtKB/Swiss-Prot),   Q6AZ23 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001258913   ⟸   NM_001271984
- UniProtKB: O35397 (UniProtKB/Swiss-Prot),   Q6AZ23 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008759750   ⟸   XM_008761528
- Peptide Label: isoform X1
- UniProtKB: O35397 (UniProtKB/Swiss-Prot),   F6Q5I5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446624   ⟸   XM_017591135
- Peptide Label: isoform X1
- UniProtKB: O35397 (UniProtKB/Swiss-Prot),   F6Q5I5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071803   ⟸   ENSRNOT00000090658
RefSeq Acc Id: ENSRNOP00000072472   ⟸   ENSRNOT00000078017
RefSeq Acc Id: ENSRNOP00000075977   ⟸   ENSRNOT00000092954
RefSeq Acc Id: ENSRNOP00000013049   ⟸   ENSRNOT00000013049
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O35397-F1-model_v2 AlphaFold O35397 1-277 view protein structure

Transcriptome

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

Promoters
RGD ID:13691753
Promoter ID:EPDNEW_R2278
Type:multiple initiation site
Name:Casp6_1
Description:caspase 6
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_6.02235,341,366 - 235,341,426EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:70967 AgrOrtholog
BioCyc Gene G2FUF-51232 BioCyc
Ensembl Genes ENSRNOG00000009508 Ensembl
  ENSRNOG00000052613 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013049 ENTREZGENE
  ENSRNOT00000013049.7 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.1460 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7123179 IMAGE-MGC_LOAD
InterPro Caspase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase_cys_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Caspase_his_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pept_C14_caspase 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:83584 UniProtKB/TrEMBL
MGC_CLONE MGC:93335 IMAGE-MGC_LOAD
NCBI Gene 83584 ENTREZGENE
PANTHER PTHR10454 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10454:SF206 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Peptidase_C14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB CASP6 RGD
PhenoGen Casp6 PhenoGen
PRINTS IL1BCENZYME UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE 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
RatGTEx ENSRNOG00000009508 RatGTEx
  ENSRNOG00000052613 RatGTEx
SMART CASc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52129 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6HVQ6_RAT UniProtKB/TrEMBL
  CASP6_RAT UniProtKB/Swiss-Prot
  F6Q5I5 ENTREZGENE, UniProtKB/TrEMBL
  O35397 ENTREZGENE
  Q6AZ23 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Casp6  caspase 6  LOC103689977  caspase-6  Data merged from RGD:9205219 737654 PROVISIONAL
2014-08-25 LOC103689977  caspase-6      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-07-09 Casp6  caspase 6      Symbol and Name updated to reflect Human and Mouse nomenclature 70877 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_product member of the caspase family of cell death proteases 632425