Cast (calpastatin) - Rat Genome Database

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Gene: Cast (calpastatin) Rattus norvegicus
Analyze
Symbol: Cast
Name: calpastatin
RGD ID: 2278
Description: Enables calcium-dependent cysteine-type endopeptidase inhibitor activity and protease binding activity. Involved in several processes, including animal organ regeneration; myoblast fusion; and skeletal muscle atrophy. Located in membrane and postsynaptic density. Used to study brain ischemia. Human ortholog(s) of this gene implicated in PLACK syndrome; Parkinson's disease; autoimmune disease (multiple); congenital myasthenic syndrome 1A; and vasculitis. Orthologous to human CAST (calpastatin); PARTICIPATES IN the proteolytic pathway involving calcium-dependent proteases; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: calpain inhibitor; Calpastatin (probably multiple splicing products); MGC108997
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr825,707,633 - 5,817,213 (-)NCBIGRCr8
mRatBN7.223,973,112 - 4,082,658 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl23,973,112 - 4,082,659 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx211,082,164 - 11,184,562 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.029,181,388 - 9,283,785 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.023,818,359 - 3,927,706 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.021,452,111 - 1,561,669 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl21,452,116 - 1,561,464 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.021,422,022 - 1,530,917 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.421,495,048 - 1,608,477 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.121,497,323 - 1,558,604 (-)NCBI
Celera2468,414 - 578,127 (-)NCBICelera
Cytogenetic Map2q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,6-dinitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-methylcholanthrene  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
acetamide  (EXP)
acetylleucyl-leucyl-norleucinal  (ISO)
acrolein  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
antimycin A  (ISO)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
Brodifacoum  (EXP)
bucladesine  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
caffeine  (ISO)
carbon nanotube  (ISO)
celastrol  (ISO)
CGP 52608  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
deguelin  (ISO)
diallyl disulfide  (ISO)
Diallyl sulfide  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
dichlorine  (EXP)
dihydroartemisinin  (ISO)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
enzyme inhibitor  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
finasteride  (EXP)
flutamide  (EXP)
formaldehyde  (ISO)
FR900359  (ISO)
gallic acid  (ISO)
gamma-hexachlorocyclohexane  (EXP)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (EXP)
lipopolysaccharide  (EXP)
medroxyprogesterone acetate  (ISO)
Mesaconitine  (EXP)
methapyrilene  (EXP)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
microcystin-LR  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (EXP)
piroxicam  (ISO)
potassium dichromate  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
succimer  (ISO)
sulindac  (EXP)
tebufenpyrad  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tributylstannane  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IBA)
cytosol  (IEA,ISO)
endoplasmic reticulum  (IEA,ISO)
membrane  (IDA,IEA,ISO)
postsynaptic density  (IDA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. SNPs in CAST are associated with Parkinson disease: a confirmation study. Allen AS and Satten GA, Am J Med Genet B Neuropsychiatr Genet. 2010 Jun 5;153B(4):973-9.
2. Novel mechanisms of target cell death and survival and of therapeutic action of IVIg in Pemphigus. Arredondo J, etal., Am J Pathol. 2005 Dec;167(6):1531-44.
3. Caspase-1-induced calpastatin degradation in myoblast differentiation and fusion: cross-talk between the caspase and calpain systems. Barnoy S and Kosower NS, FEBS Lett 2003 Jul 10;546(2-3):213-7.
4. Calpastatin in rat myoblasts: transient diminution and decreased phosphorylation depend on myogenin-directed myoblast differentiation. Barnoy S and Kosower NS, Int J Biochem Cell Biol. 2007;39(1):253-61. Epub 2006 Aug 30.
5. Calpastatin is up-regulated in response to hypoxia and is a suicide substrate to calpain after neonatal cerebral hypoxia-ischemia. Blomgren K, etal., J Biol Chem. 1999 May 14;274(20):14046-52.
6. Identification of novel markers for monitoring minimal residual disease in acute lymphoblastic leukemia. Chen JS, etal., Blood. 2001 Apr 1;97(7):2115-20.
7. Rat brain contains multiple mRNAs for calpastatin. De Tullio R, etal., FEBS Lett 1998 Jan 23;422(1):113-7.
8. Detection and expression of a cDNA clone that encodes a polypeptide containing two inhibitory domains of human calpastatin and its recognition by rheumatoid arthritis sera. Despres N, etal., J Clin Invest. 1995 Apr;95(4):1891-6.
9. Calpain, calpastatin activities and ratios during myocardial ischemia-reperfusion. Enns D, etal., Mol Cell Biochem. 2002 Dec;241(1-2):29-35.
10. Calpain/calpastatin activities and substrate depletion patterns during hindlimb unweighting and reweighting in skeletal muscle. Enns DL, etal., Eur J Appl Physiol. 2007 Jul;100(4):445-55. Epub 2007 Apr 12.
11. 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.
12. Increased Autolysis of μ-Calpain in Skeletal Muscles of Chronic Alcohol-Fed Rats. Gritsyna YV, etal., Alcohol Clin Exp Res. 2017 Oct;41(10):1686-1694. doi: 10.1111/acer.13476. Epub 2017 Sep 21.
13. Calpain activation impairs neuromuscular transmission in a mouse model of the slow-channel myasthenic syndrome. Groshong JS, etal., J Clin Invest. 2007 Oct;117(10):2903-12.
14. Expression and immunolocalization of the calpain-calpastatin system during parthenogenetic activation and fertilization in the rat egg. Haim K, etal., Reproduction. 2006 Jan;131(1):35-43.
15. 3-[2-[4-(3-Chloro-2-methylphenylmethyl)-1-piperazinyl]ethyl]-5,6-dimethoxy -1-(4-imidazolylmethyl)-1H-indazole dihydro-chloride 3.5 hydrate (DY-9760e) is neuroprotective in rat microsphere embolism: role of the cross-talk between calpain and caspase-3 through calpastatin. Han F, etal., J Pharmacol Exp Ther. 2006 May;317(2):529-36. Epub 2006 Feb 8.
16. Calpastatin simultaneously binds four calpains with different kinetic constants. Hanna RA, etal., FEBS Lett. 2007 Jun 26;581(16):2894-8. Epub 2007 May 25.
17. Calcium-bound structure of calpain and its mechanism of inhibition by calpastatin. Hanna RA, etal., Nature. 2008 Nov 20;456(7220):409-12. doi: 10.1038/nature07451.
18. Multiple forms of rat calpastatin cDNA in the coding region of functionally unknown amino-terminal domain. Lee WJ, etal., Biochim Biophys Acta 1992 Jan 6;1129(2):251-3.
19. Calpain 1 and Calpastatin expression is developmentally regulated in rat brain. Li Y, etal., Exp Neurol. 2009 Dec;220(2):316-9. Epub 2009 Sep 12.
20. Calpain activation promotes BACE1 expression, amyloid precursor protein processing, and amyloid plaque formation in a transgenic mouse model of Alzheimer disease. Liang B, etal., J Biol Chem. 2010 Sep 3;285(36):27737-44. Epub 2010 Jul 1.
21. Upregulation of calpastatin in regenerating and developing rat liver: role in resistance against hepatotoxicity. Limaye PB, etal., Hepatology. 2006 Aug;44(2):379-88.
22. Overexpression of calpastatin by gene transfer prevents troponin I degradation and ameliorates contractile dysfunction in rat hearts subjected to ischemia/reperfusion. Maekawa A, etal., J Mol Cell Cardiol. 2003 Oct;35(10):1277-84. doi: 10.1016/s0022-2828(03)00238-4.
23. Adrenodemedullation activates the Ca2+-dependent proteolysis in soleus muscles from rats exposed to cold. Manfredi LH, etal., J Appl Physiol (1985). 2017 Feb 1;122(2):317-326. doi: 10.1152/japplphysiol.00198.2016. Epub 2016 Oct 20.
24. Down-regulation of calpain 9 is linked to hypertensive heart and kidney disease. Markmann A, etal., Cell Physiol Biochem. 2005;15(1-4):109-16. doi: 10.1159/000083643.
25. Autoantibodies directed against the protease inhibitor calpastatin in psoriasis. Matsushita Y, etal., Clin Exp Immunol. 2005 Feb;139(2):355-62.
26. Cerebral calpain in fatal falciparum malaria. Medana IM, etal., Neuropathol Appl Neurobiol. 2007 Apr;33(2):179-92.
27. SAD-B Phosphorylation of CAST Controls Active Zone Vesicle Recycling for Synaptic Depression. Mochida S, etal., Cell Rep. 2016 Sep 13;16(11):2901-2913. doi: 10.1016/j.celrep.2016.08.020.
28. Concerted multi-pronged attack by calpastatin to occlude the catalytic cleft of heterodimeric calpains. Moldoveanu T, etal., Nature. 2008 Nov 20;456(7220):404-8.
29. Calpastatin immunoreactivity in the monkey and human brain of control subjects and patients with Parkinson's disease. Mouatt-Prigent A, etal., J Comp Neurol. 2000 Apr 3;419(2):175-92.
30. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
31. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
32. Marked calpastatin (CAST) depletion in Alzheimer's disease accelerates cytoskeleton disruption and neurodegeneration: neuroprotection by CAST overexpression. Rao MV, etal., J Neurosci. 2008 Nov 19;28(47):12241-54.
33. GOA pipeline RGD automated data pipeline
34. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
35. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
36. Effects of injury severity on regional and temporal mRNA expression levels of calpains and caspases after traumatic brain injury in rats. Ringger NC, etal., J Neurotrauma. 2004 Jul;21(7):829-41.
37. Involvement of calpain isoforms in ischemia-reperfusion injury in rat retina. Sakamoto YR, etal., Curr Eye Res. 2000 Jul;21(1):571-80.
38. Autoantibodies recognizing the 27 carboxy-terminal amino acids of calpastatin are associated with secondary Sjogren syndrome in systemic lupus erythematosus. Salle V, etal., Lupus. 2004;13(10):800-4.
39. Autoantibodies directed against the amino-terminal domain I of human calpastatin (ACAST-DI Ab) in connective tissue diseases. High levels of ACAST-DI Ab are associated with vasculitis in lupus. Saulot V, etal., J Autoimmun. 2002 Aug-Sep;19(1-2):55-61.
40. Activation of calpains, calpastatin and spectrin cleavage in the brain during the pathology of fatal murine cerebral malaria. Shukla M, etal., Neurochem Int. 2006 Jan;48(2):108-13. Epub 2005 Oct 19.
41. Ischemia-reperfusion-induced changes in sarcolemmal Na+/K+-ATPase are due to the activation of calpain in the heart. Singh RB and Dhalla NS, Can J Physiol Pharmacol. 2010 Mar;88(3):388-97.
42. Role of the calpain-calpastatin system in the density-dependent growth arrest. Stifanese R, etal., Arch Biochem Biophys. 2008 Nov 15;479(2):145-52. Epub 2008 Sep 13.
43. Neuroprotective actions of aminoguanidine involve reduced the activation of calpain and caspase-3 in a rat model of stroke. Sun M, etal., Neurochem Int. 2010 Mar;56(4):634-41. Epub 2010 Jan 29.
44. Expression of calpastatin, minopontin, NIPSNAP1, rabaptin-5 and neuronatin in the phenylketonuria (PKU) mouse brain: possible role on cognitive defect seen in PKU. Surendran S, etal., Neurochem Int. 2005 Jun;46(8):595-9. Epub 2005 Apr 7.
45. Sepsis stimulates calpain activity in skeletal muscle by decreasing calpastatin activity but does not activate caspase-3. Wei W, etal., Am J Physiol Regul Integr Comp Physiol. 2005 Mar;288(3):R580-90. Epub 2004 Nov 24.
46. Higher calpastatin levels correlate with resistance to calpain-mediated proteolysis and neuronal apoptosis in juvenile rats after spinal cord injury. Wingrave JM, etal., J Neurotrauma. 2004 Sep;21(9):1240-54.
47. [Antigenic epitopes recognized by autoantibodies to calpastatin in patients with rheumatoid arthritis and their clinical significance]. Yasuoka H, etal., Ryumachi. 1997 Jun;37(3):458-66.
Additional References at PubMed
PMID:2015306   PMID:2407243   PMID:11090425   PMID:11673859   PMID:12477932   PMID:14559243   PMID:15044459   PMID:15132950   PMID:15543935   PMID:15904894   PMID:16641100   PMID:17570336  
PMID:17712625   PMID:18544539   PMID:18599308   PMID:19318376   PMID:21849499   PMID:22658674   PMID:25468996  


Genomics

Comparative Map Data
Cast
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr825,707,633 - 5,817,213 (-)NCBIGRCr8
mRatBN7.223,973,112 - 4,082,658 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl23,973,112 - 4,082,659 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx211,082,164 - 11,184,562 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.029,181,388 - 9,283,785 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.023,818,359 - 3,927,706 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.021,452,111 - 1,561,669 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl21,452,116 - 1,561,464 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.021,422,022 - 1,530,917 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.421,495,048 - 1,608,477 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.121,497,323 - 1,558,604 (-)NCBI
Celera2468,414 - 578,127 (-)NCBICelera
Cytogenetic Map2q11NCBI
CAST
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38595,961,429 - 96,774,683 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl596,525,267 - 96,779,595 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl596,050,115 - 96,215,519 (+)EnsemblGRCh38hg38GRCh38
GRCh37595,997,741 - 96,110,387 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36596,023,697 - 96,136,143 (+)NCBINCBI36Build 36hg18NCBI36
Build 34596,089,768 - 96,134,279NCBI
Celera591,882,129 - 91,994,809 (+)NCBICelera
Cytogenetic Map5q15NCBI
HuRef591,188,220 - 91,300,638 (+)NCBIHuRef
CHM1_1595,430,442 - 95,543,106 (+)NCBICHM1_1
T2T-CHM13v2.0596,462,750 - 97,275,514 (+)NCBIT2T-CHM13v2.0
Cast
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391374,840,485 - 74,956,993 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1374,840,487 - 74,956,929 (-)EnsemblGRCm39 Ensembl
GRCm381374,692,366 - 74,808,874 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1374,692,368 - 74,808,810 (-)EnsemblGRCm38mm10GRCm38
MGSCv371374,831,734 - 74,945,369 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361375,160,288 - 75,273,923 (-)NCBIMGSCv36mm8
Celera1377,024,381 - 77,127,605 (-)NCBICelera
Cytogenetic Map13C1NCBI
cM Map1340.52NCBI
Cast
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541815,862,729 - 15,916,169 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541815,859,951 - 15,974,141 (-)NCBIChiLan1.0ChiLan1.0
CAST
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2491,910,381 - 92,022,791 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1590,064,235 - 90,174,585 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0591,972,572 - 92,084,657 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1597,526,828 - 97,639,645 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl597,527,071 - 97,636,650 (+)Ensemblpanpan1.1panPan2
CAST
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1312,920,514 - 13,031,974 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl312,922,453 - 13,031,959 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha314,260,972 - 14,372,507 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0312,802,911 - 12,914,616 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl312,803,481 - 12,914,611 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1312,764,153 - 12,875,875 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0312,760,328 - 12,871,469 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0312,958,745 - 13,070,416 (-)NCBIUU_Cfam_GSD_1.0
Cast
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213168,504,231 - 168,612,822 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365236,686,519 - 6,798,321 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365236,688,153 - 6,798,184 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CAST
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2103,255,750 - 103,378,623 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12103,255,738 - 103,378,623 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22106,934,106 - 107,044,360 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.22107,095,361 - 107,128,389 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap2q2.1-q2.4NCBI
CAST
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1490,496,867 - 90,607,019 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl490,497,754 - 90,605,481 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604939,150,544 - 39,263,306 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cast
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474315,346,837 - 15,403,150 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474315,265,930 - 15,405,904 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cast
202 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2786
Count of miRNA genes:310
Interacting mature miRNAs:399
Transcripts:ENSRNOT00000014709, ENSRNOT00000062052, ENSRNOT00000062054, ENSRNOT00000062055
Prediction methods:Microtar, Miranda
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
631682Bp115Blood pressure QTL 1154.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2137410502Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2141244106Rat

Markers in Region
D2Got364  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.224,076,761 - 4,077,019 (+)MAPPERmRatBN7.2
Rnor_6.021,555,761 - 1,556,018NCBIRnor6.0
Rnor_5.021,525,015 - 1,525,272UniSTSRnor5.0
RGSC_v3.421,602,774 - 1,603,031UniSTSRGSC3.4
Celera2572,424 - 572,681UniSTS
Cytogenetic Map2q11UniSTS
AU049142  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.224,037,398 - 4,037,645 (+)MAPPERmRatBN7.2
Rnor_6.021,516,399 - 1,516,647NCBIRnor6.0
Rnor_5.021,485,699 - 1,485,947UniSTSRnor5.0
RGSC_v3.421,563,412 - 1,563,660UniSTSRGSC3.4
Celera2533,573 - 533,821UniSTS
Cytogenetic Map2q11UniSTS
RH127627  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24151,592,226 - 151,592,428 (+)MAPPERmRatBN7.2
mRatBN7.223,973,381 - 3,973,584 (+)MAPPERmRatBN7.2
Rnor_6.021,452,381 - 1,452,583NCBIRnor6.0
Rnor_6.04150,468,883 - 150,469,084NCBIRnor6.0
Rnor_5.04216,392,744 - 216,392,945UniSTSRnor5.0
Rnor_5.021,422,292 - 1,422,494UniSTSRnor5.0
RGSC_v3.44154,722,124 - 154,722,325UniSTSRGSC3.4
RGSC_v3.421,495,318 - 1,495,520UniSTSRGSC3.4
Celera2468,684 - 468,886UniSTS
Celera4140,461,933 - 140,462,134UniSTS
Cytogenetic Map4q42UniSTS
Cytogenetic Map2q11UniSTS
RH138573  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.223,982,392 - 3,982,625 (+)MAPPERmRatBN7.2
Rnor_6.021,461,392 - 1,461,624NCBIRnor6.0
Rnor_5.021,431,303 - 1,431,535UniSTSRnor5.0
RGSC_v3.421,504,329 - 1,504,561UniSTSRGSC3.4
Celera2478,525 - 478,757UniSTS
Cytogenetic Map2q11UniSTS


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 43 57 41 19 41 8 10 54 35 41 11 8
Low 1 20
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001033715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001033716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_053295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006231698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006231699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017590646 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017590647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101791 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101792 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039101793 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063281351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063281352 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063281353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC111648 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF346597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF346598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC070882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC091239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ186629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ287975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y13587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y13588 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y13589 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y13590 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  Y13591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000014709   ⟹   ENSRNOP00000014709
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,975,388 - 4,082,659 (-)Ensembl
Rnor_6.0 Ensembl21,454,389 - 1,511,591 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000062052   ⟹   ENSRNOP00000058756
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,973,119 - 4,082,465 (-)Ensembl
Rnor_6.0 Ensembl21,452,116 - 1,561,464 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000062054   ⟹   ENSRNOP00000058758
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,973,112 - 4,082,486 (-)Ensembl
Rnor_6.0 Ensembl21,452,116 - 1,561,464 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000062055   ⟹   ENSRNOP00000058759
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,976,428 - 4,082,659 (-)Ensembl
Rnor_6.0 Ensembl21,452,116 - 1,561,464 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087906   ⟹   ENSRNOP00000073017
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl21,454,387 - 1,511,591 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095986   ⟹   ENSRNOP00000090525
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,980,672 - 4,082,659 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000100619   ⟹   ENSRNOP00000091066
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,980,672 - 4,082,659 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108912   ⟹   ENSRNOP00000093165
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,975,278 - 4,081,778 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116140   ⟹   ENSRNOP00000077044
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl23,976,428 - 4,082,659 (-)Ensembl
RefSeq Acc Id: NM_001033715   ⟹   NP_001028887
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,986 (-)NCBI
mRatBN7.223,973,112 - 4,082,465 (-)NCBI
Rnor_6.021,452,111 - 1,561,464 (-)NCBI
Rnor_5.021,422,022 - 1,530,917 (-)NCBI
RGSC_v3.421,495,048 - 1,608,477 (-)RGD
Celera2468,414 - 578,127 (-)RGD
Sequence:
RefSeq Acc Id: NM_001033716   ⟹   NP_001028888
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,986 (-)NCBI
mRatBN7.223,973,112 - 4,082,465 (-)NCBI
Rnor_6.021,452,111 - 1,561,464 (-)NCBI
Rnor_5.021,422,022 - 1,530,917 (-)NCBI
RGSC_v3.421,495,048 - 1,608,477 (-)RGD
Celera2468,414 - 578,127 (-)RGD
Sequence:
RefSeq Acc Id: NM_053295   ⟹   NP_445747
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,986 (-)NCBI
mRatBN7.223,973,112 - 4,082,465 (-)NCBI
Rnor_6.021,452,111 - 1,561,464 (-)NCBI
Rnor_5.021,422,022 - 1,530,917 (-)NCBI
RGSC_v3.421,495,048 - 1,608,477 (-)RGD
Celera2468,414 - 578,127 (-)RGD
Sequence:
RefSeq Acc Id: XM_006231698   ⟹   XP_006231760
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,295 (-)NCBI
mRatBN7.223,973,112 - 4,081,773 (-)NCBI
Rnor_6.021,452,111 - 1,561,216 (-)NCBI
Rnor_5.021,422,022 - 1,530,917 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006231699   ⟹   XP_006231761
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,817,213 (-)NCBI
mRatBN7.223,973,112 - 4,082,658 (-)NCBI
Rnor_6.021,452,111 - 1,561,669 (-)NCBI
Rnor_5.021,422,022 - 1,530,917 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017590647   ⟹   XP_017446136
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,752,622 (-)NCBI
mRatBN7.223,973,112 - 4,017,354 (-)NCBI
Rnor_6.021,452,111 - 1,497,340 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039101791   ⟹   XP_038957719
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,817,213 (-)NCBI
mRatBN7.223,973,112 - 4,082,658 (-)NCBI
RefSeq Acc Id: XM_039101792   ⟹   XP_038957720
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,817,213 (-)NCBI
mRatBN7.223,973,112 - 4,082,657 (-)NCBI
RefSeq Acc Id: XM_039101793   ⟹   XP_038957721
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,817,213 (-)NCBI
mRatBN7.223,973,112 - 4,082,658 (-)NCBI
RefSeq Acc Id: XM_063281351   ⟹   XP_063137421
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,272 (-)NCBI
RefSeq Acc Id: XM_063281352   ⟹   XP_063137422
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,290 (-)NCBI
RefSeq Acc Id: XM_063281353   ⟹   XP_063137423
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr825,707,633 - 5,816,269 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001028887 (Get FASTA)   NCBI Sequence Viewer  
  NP_001028888 (Get FASTA)   NCBI Sequence Viewer  
  NP_445747 (Get FASTA)   NCBI Sequence Viewer  
  XP_006231760 (Get FASTA)   NCBI Sequence Viewer  
  XP_006231761 (Get FASTA)   NCBI Sequence Viewer  
  XP_017446136 (Get FASTA)   NCBI Sequence Viewer  
  XP_038957719 (Get FASTA)   NCBI Sequence Viewer  
  XP_038957720 (Get FASTA)   NCBI Sequence Viewer  
  XP_038957721 (Get FASTA)   NCBI Sequence Viewer  
  XP_063137421 (Get FASTA)   NCBI Sequence Viewer  
  XP_063137422 (Get FASTA)   NCBI Sequence Viewer  
  XP_063137423 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH91239 (Get FASTA)   NCBI Sequence Viewer  
  AAK29411 (Get FASTA)   NCBI Sequence Viewer  
  AAK29412 (Get FASTA)   NCBI Sequence Viewer  
  ABA86879 (Get FASTA)   NCBI Sequence Viewer  
  ABA86880 (Get FASTA)   NCBI Sequence Viewer  
  ABA86881 (Get FASTA)   NCBI Sequence Viewer  
  ABA86882 (Get FASTA)   NCBI Sequence Viewer  
  ABA86883 (Get FASTA)   NCBI Sequence Viewer  
  ABA86884 (Get FASTA)   NCBI Sequence Viewer  
  ABB90254 (Get FASTA)   NCBI Sequence Viewer  
  CAA73915 (Get FASTA)   NCBI Sequence Viewer  
  CAA73916 (Get FASTA)   NCBI Sequence Viewer  
  CAA73917 (Get FASTA)   NCBI Sequence Viewer  
  CAA73918 (Get FASTA)   NCBI Sequence Viewer  
  CAA73919 (Get FASTA)   NCBI Sequence Viewer  
  EDM09898 (Get FASTA)   NCBI Sequence Viewer  
  EDM09899 (Get FASTA)   NCBI Sequence Viewer  
  EDM09900 (Get FASTA)   NCBI Sequence Viewer  
  EDM09901 (Get FASTA)   NCBI Sequence Viewer  
  EDM09902 (Get FASTA)   NCBI Sequence Viewer  
  EDM09903 (Get FASTA)   NCBI Sequence Viewer  
  EDM09904 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014709
  ENSRNOP00000014709.7
  ENSRNOP00000058756
  ENSRNOP00000058756.3
  ENSRNOP00000058758
  ENSRNOP00000058758.2
  ENSRNOP00000058759
  ENSRNOP00000058759.3
  ENSRNOP00000077044.1
  ENSRNOP00000090525
  ENSRNOP00000090525.1
  ENSRNOP00000091066.1
  ENSRNOP00000093165
  ENSRNOP00000093165.1
GenBank Protein P27321 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_445747   ⟸   NM_053295
- Peptide Label: isoform a
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001028887   ⟸   NM_001033715
- Peptide Label: isoform b
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   A0A0G2JSY2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001028888   ⟸   NM_001033716
- Peptide Label: isoform c
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   D3ZL24 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006231761   ⟸   XM_006231699
- Peptide Label: isoform X3
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006231760   ⟸   XM_006231698
- Peptide Label: isoform X2
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot),   A0A8I6GK55 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017446136   ⟸   XM_017590647
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: ENSRNOP00000014709   ⟸   ENSRNOT00000014709
RefSeq Acc Id: ENSRNOP00000073017   ⟸   ENSRNOT00000087906
RefSeq Acc Id: ENSRNOP00000058759   ⟸   ENSRNOT00000062055
RefSeq Acc Id: ENSRNOP00000058758   ⟸   ENSRNOT00000062054
RefSeq Acc Id: ENSRNOP00000058756   ⟸   ENSRNOT00000062052
RefSeq Acc Id: XP_038957721   ⟸   XM_039101793
- Peptide Label: isoform X7
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038957719   ⟸   XM_039101791
- Peptide Label: isoform X1
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038957720   ⟸   XM_039101792
- Peptide Label: isoform X5
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot),   D4A129 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000091066   ⟸   ENSRNOT00000100619
RefSeq Acc Id: ENSRNOP00000090525   ⟸   ENSRNOT00000095986
RefSeq Acc Id: ENSRNOP00000077044   ⟸   ENSRNOT00000116140
RefSeq Acc Id: ENSRNOP00000093165   ⟸   ENSRNOT00000108912
RefSeq Acc Id: XP_063137422   ⟸   XM_063281352
- Peptide Label: isoform X6
- UniProtKB: A6I4E3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063137421   ⟸   XM_063281351
- Peptide Label: isoform X4
- UniProtKB: Q99MG2 (UniProtKB/Swiss-Prot),   Q99MG1 (UniProtKB/Swiss-Prot),   Q5BK19 (UniProtKB/Swiss-Prot),   P27321 (UniProtKB/Swiss-Prot),   O55153 (UniProtKB/Swiss-Prot),   O55152 (UniProtKB/Swiss-Prot),   O55151 (UniProtKB/Swiss-Prot),   A5GXZ7 (UniProtKB/Swiss-Prot),   A5GXY9 (UniProtKB/Swiss-Prot),   A5GXY8 (UniProtKB/Swiss-Prot),   A5GXY7 (UniProtKB/Swiss-Prot),   A5GXY6 (UniProtKB/Swiss-Prot),   A5GXY5 (UniProtKB/Swiss-Prot),   A5GXY4 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063137423   ⟸   XM_063281353
- Peptide Label: isoform X8
- UniProtKB: A6I4E2 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P27321-F1-model_v2 AlphaFold P27321 1-713 view protein structure

Transcriptome

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

Promoters
RGD ID:13691031
Promoter ID:EPDNEW_R1555
Type:initiation region
Name:Cast_1
Description:calpastatin
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_6.021,561,419 - 1,561,479EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2278 AgrOrtholog
BioCyc Gene G2FUF-55116 BioCyc
Ensembl Genes ENSRNOG00000010286 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014709.9 UniProtKB/TrEMBL
  ENSRNOT00000062052 ENTREZGENE
  ENSRNOT00000062052.5 UniProtKB/TrEMBL
  ENSRNOT00000062054 ENTREZGENE
  ENSRNOT00000062054.6 UniProtKB/TrEMBL
  ENSRNOT00000062055 ENTREZGENE
  ENSRNOT00000062055.6 UniProtKB/TrEMBL
  ENSRNOT00000095986.1 UniProtKB/TrEMBL
  ENSRNOT00000100619.1 UniProtKB/TrEMBL
  ENSRNOT00000108912.1 UniProtKB/TrEMBL
  ENSRNOT00000116140.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7097131 IMAGE-MGC_LOAD
  IMAGE:7324026 IMAGE-MGC_LOAD
InterPro Calpastatin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_inh_calpain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25403 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108997 IMAGE-MGC_LOAD
  MGC:91597 IMAGE-MGC_LOAD
NCBI Gene 25403 ENTREZGENE
PANTHER CALPASTATIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10077 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Calpain_inhib UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cast PhenoGen
RatGTEx ENSRNOG00000010286 RatGTEx
UniProt A0A0G2JSY2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5XVQ8_RAT UniProtKB/TrEMBL
  A0A8I6AC75_RAT UniProtKB/TrEMBL
  A0A8I6ADV1_RAT UniProtKB/TrEMBL
  A0A8I6GK55 ENTREZGENE, UniProtKB/TrEMBL
  A5GXY4 ENTREZGENE
  A5GXY5 ENTREZGENE
  A5GXY6 ENTREZGENE
  A5GXY7 ENTREZGENE
  A5GXY8 ENTREZGENE
  A5GXY9 ENTREZGENE
  A5GXZ7 ENTREZGENE
  A6I4E0_RAT UniProtKB/TrEMBL
  A6I4E1_RAT UniProtKB/TrEMBL
  A6I4E2 ENTREZGENE, UniProtKB/TrEMBL
  A6I4E3 ENTREZGENE, UniProtKB/TrEMBL
  A6I4E4_RAT UniProtKB/TrEMBL
  A6I4E5_RAT UniProtKB/TrEMBL
  A6I4E6_RAT UniProtKB/TrEMBL
  D3ZL24 ENTREZGENE, UniProtKB/TrEMBL
  D4A129 ENTREZGENE, UniProtKB/TrEMBL
  F1LPH1_RAT UniProtKB/TrEMBL
  ICAL_RAT UniProtKB/Swiss-Prot
  O55151 ENTREZGENE
  O55152 ENTREZGENE
  O55153 ENTREZGENE
  O55154_RAT UniProtKB/TrEMBL
  O55155_RAT UniProtKB/TrEMBL
  P27321 ENTREZGENE
  Q5BK19 ENTREZGENE
  Q99MG1 ENTREZGENE
  Q99MG2 ENTREZGENE
UniProt Secondary A5GXY4 UniProtKB/Swiss-Prot
  A5GXY5 UniProtKB/Swiss-Prot
  A5GXY6 UniProtKB/Swiss-Prot
  A5GXY7 UniProtKB/Swiss-Prot
  A5GXY8 UniProtKB/Swiss-Prot
  A5GXY9 UniProtKB/Swiss-Prot
  A5GXZ7 UniProtKB/Swiss-Prot
  O55151 UniProtKB/Swiss-Prot
  O55152 UniProtKB/Swiss-Prot
  O55153 UniProtKB/Swiss-Prot
  Q5BK19 UniProtKB/Swiss-Prot
  Q99MG1 UniProtKB/Swiss-Prot
  Q99MG2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Cast  Calpastatin      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process degradation is required for myoblast fusion during differentiation 1298731
gene_transcript multiple isoforms exist in brain due to alternative transcript processing 1298730