Calca (calcitonin-related polypeptide alpha) - Rat Genome Database

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Gene: Calca (calcitonin-related polypeptide alpha) Rattus norvegicus
Analyze
Symbol: Calca
Name: calcitonin-related polypeptide alpha
RGD ID: 2254
Description: Predicted to enable calcitonin receptor binding activity and identical protein binding activity. Involved in several processes, including aging; cellular response to nerve growth factor stimulus; and cellular response to tumor necrosis factor. Located in several cellular components, including axon; extracellular space; and neuronal cell body. Is active in hippocampal mossy fiber to CA3 synapse and neuronal dense core vesicle. Used to study acute necrotizing pancreatitis; ischemia; and stomach disease. Biomarker of prediabetes syndrome and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in migraine and osteoporosis. Orthologous to human CALCA (calcitonin related polypeptide alpha); INTERACTS WITH (6aR,9R)-N-[(2S)-1-hydroxybutan-2-yl]-4,7-dimethyl-6,6a,8,9-tetrahydroindolo[4,3-fg]quinoline-9-carboxamide; (D-Ala(2)-mephe(4)-gly-ol(5))enkephalin; (R)-adrenaline.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha-type CGRP; Cal1; CAL6; Calc; calcitonin; calcitonin gene-related peptide 1; calcitonin gene-related peptide I; calcitonin/calcitonin-related polypeptide, alpha; CGRP; CGRP-I; procalcitonin; RATCAL6
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SHRSP.WKY-(Calca-D1Arb21)/IzmTkyo  
QTLs:   Bp138  
Candidate Gene For: Bp138
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21168,878,212 - 168,883,176 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1168,878,214 - 168,883,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1177,192,440 - 177,197,339 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01184,378,496 - 184,383,399 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01177,090,892 - 177,095,773 (-)NCBIRnor_WKY
Rnor_6.01184,184,018 - 184,188,922 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1184,184,020 - 184,188,911 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,158,061 - 191,162,954 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41172,686,168 - 172,691,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11172,824,299 - 172,827,127 (-)NCBI
Celera1166,711,610 - 166,716,491 (-)NCBICelera
RH 3.4 Map11317.6RGD
RH 2.0 Map1757.3RGD
Cytogenetic Map1q35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(6aR,9R)-N-[(2S)-1-hydroxybutan-2-yl]-4,7-dimethyl-6,6a,8,9-tetrahydroindolo[4,3-fg]quinoline-9-carboxamide  (EXP)
(D-Ala(2)-mephe(4)-gly-ol(5))enkephalin  (EXP)
(R)-adrenaline  (EXP)
(R)-noradrenaline  (EXP)
(S)-amphetamine  (EXP)
1,2-dichloroethane  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
3',5'-cyclic AMP  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,5-dichloro-N-[[(2S)-1-ethyl-2-pyrrolidinyl]methyl]-2-hydroxy-6-methoxybenzamide  (EXP)
4-(4-methylpiperazin-1-yl)-7-(trifluoromethyl)pyrrolo[1,2-a]quinoxaline dimaleate  (EXP)
4-hydroxynon-2-enal  (EXP)
4-methyl-3-[[1-oxo-2-(propylamino)propyl]amino]-2-thiophenecarboxylic acid methyl ester  (ISO)
4-methylcatechol  (ISO)
5-azacytidine  (ISO)
6-oxoprostaglandin F1alpha  (EXP,ISO)
6-propyl-2-thiouracil  (EXP)
acetylcholine  (EXP)
acetylsalicylic acid  (EXP)
acrolein  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
alachlor  (EXP)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
allyl isothiocyanate  (EXP)
amiloride  (ISO)
aminoguanidine  (EXP)
ammonium chloride  (EXP)
Anetholtrithion  (ISO)
Aroclor 1254  (EXP)
arsenite(3-)  (ISO)
ATP  (EXP)
atropine  (EXP)
Bay-K-8644  (EXP)
benzo[a]pyrene  (ISO)
bethanechol  (EXP)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
Botulinum toxin type A  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
capsaicin  (EXP,ISO)
capsazepine  (EXP,ISO)
carbon dioxide  (EXP)
carbon nanotube  (ISO)
carvedilol  (EXP)
chelerythrine  (EXP)
chloroprene  (ISO)
cobalt atom  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
corticotropin  (EXP)
crocidolite asbestos  (EXP)
cyclophosphamide  (EXP)
D-glucose  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (EXP,ISO)
dextran sulfate  (ISO)
dibutyl phthalate  (EXP)
diclofenac  (EXP)
diethylstilbestrol  (EXP)
disodium cromoglycate  (EXP)
disodium selenite  (ISO)
dorsomorphin  (ISO)
eletriptan  (EXP)
entinostat  (ISO)
epothilone B  (EXP)
ergotamine  (EXP)
ethanol  (EXP,ISO)
etoposide  (ISO)
fentanyl  (EXP)
fenvalerate  (EXP)
flavonoids  (EXP)
flurbiprofen  (EXP)
folic acid  (ISO)
fructose  (ISO)
Gallopamil  (EXP)
genistein  (ISO)
gentamycin  (EXP)
Ginkgolide A  (ISO)
glucose  (ISO)
glycidol  (EXP)
glyphosate  (EXP)
GR 127935  (EXP)
haloperidol  (EXP)
histamine  (EXP)
hydrogen chloride  (EXP)
ibuprofen  (EXP)
ICI 118551  (EXP)
indometacin  (EXP)
ionomycin  (EXP,ISO)
isoflurane  (ISO)
isoprenaline  (EXP)
KT 5720  (EXP)
Lafutidine  (EXP,ISO)
lead diacetate  (EXP)
lidocaine  (EXP,ISO)
linsidomine  (EXP)
lipopolysaccharide  (EXP,ISO)
LY294002  (ISO)
lycopene  (EXP)
magnesium atom  (ISO)
methylene blue  (EXP)
methylmercury chloride  (ISO)
methysergide  (EXP)
Mibefradil  (EXP)
morphine  (EXP,ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (ISO)
naloxone  (EXP)
nefopam  (EXP)
nimodipine  (EXP)
nitrendipine  (EXP)
nitrofen  (EXP)
nitroglycerin  (EXP,ISO)
nitroprusside  (EXP)
nizatidine  (ISO)
NONOate(1-)  (ISO)
ozone  (ISO)
paclitaxel  (EXP)
panobinostat  (ISO)
paracetamol  (ISO)
pemirolast  (EXP)
phenol  (EXP)
Phenoxybenzamine  (EXP)
phenylephrine  (EXP,ISO)
phenytoin  (EXP)
pirinixic acid  (EXP)
potassium atom  (EXP,ISO)
potassium chloride  (EXP)
potassium dichromate  (ISO)
procaine  (ISO)
progesterone  (EXP,ISO)
propanal  (ISO)
propranolol  (EXP)
prostaglandin E2  (EXP)
ranitidine  (ISO)
rebaudioside A  (ISO)
resiniferatoxin  (ISO)
resveratrol  (EXP)
Rizatriptan benzoate  (EXP)
rofecoxib  (EXP)
ruthenium red  (EXP)
S-nitroso-N-acetyl-D-penicillamine  (EXP)
safranal  (EXP,ISO)
SB 431542  (ISO)
SCH 23390  (EXP)
serotonin  (EXP)
sevoflurane  (ISO)
silicon carbide  (EXP)
silicon dioxide  (EXP,ISO)
sodium chloride  (EXP,ISO)
Soman  (EXP)
steviol  (ISO)
stevioside  (ISO)
streptozocin  (EXP)
sulprostone  (EXP)
sumatriptan  (EXP,ISO)
suramin  (EXP)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
titanium dioxide  (ISO)
topiramate  (EXP)
trichostatin A  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (EXP)
Tryptanthrine  (ISO)
Tungsten carbide  (ISO)
UTP  (EXP)
valproic acid  (ISO)
verapamil  (ISO)
veratridine  (EXP)
vorinostat  (ISO)
zinc atom  (EXP)
zinc protoporphyrin  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of adenylate cyclase activity  (ISO)
activation of protein kinase activity  (ISO)
adenylate cyclase-activating G protein-coupled receptor signaling pathway  (IBA,ISO)
aging  (IEP)
amylin receptor signaling pathway  (ISO)
antimicrobial humoral immune response mediated by antimicrobial peptide  (ISO)
artery vasodilation involved in baroreceptor response to increased systemic arterial blood pressure  (ISO)
calcitonin gene-related peptide receptor signaling pathway  (ISO)
cell adhesion  (ISO)
cellular response to nerve growth factor stimulus  (IEP,ISO)
cellular response to tumor necrosis factor  (IEP)
detection of temperature stimulus involved in sensory perception of pain  (ISO)
embryo implantation  (ISO)
endothelial cell migration  (ISO)
endothelial cell proliferation  (ISO)
feeding behavior  (ISO)
G protein-coupled receptor internalization  (ISO)
inflammatory response  (IEP,ISO)
innate immune response  (ISO)
intracellular calcium ion homeostasis  (ISO)
leukocyte cell-cell adhesion  (ISO)
monocyte chemotaxis  (ISO)
negative regulation of blood pressure  (IMP,ISO)
negative regulation of bone resorption  (ISO)
negative regulation of calcium ion transport into cytosol  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of nervous system process  (ISO)
negative regulation of ossification  (ISO)
negative regulation of osteoclast differentiation  (ISO)
negative regulation of smooth muscle contraction  (IMP,ISO)
nervous system process involved in regulation of systemic arterial blood pressure  (ISO)
neuromuscular junction development  (ISO)
neuropeptide signaling pathway  (ISO)
ossification  (ISO)
positive regulation of cell adhesion  (ISO)
positive regulation of cytosolic calcium ion concentration  (ISO)
positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G protein-coupled signaling pathway  (ISO)
positive regulation of interleukin-1 alpha production  (ISO)
positive regulation of interleukin-8 production  (ISO)
positive regulation of macrophage differentiation  (ISO)
positive regulation of ossification  (ISO)
protein phosphorylation  (ISO)
receptor internalization  (ISO)
regulation of blood pressure  (ISO)
regulation of cytosolic calcium ion concentration  (IBA,ISO)
regulation of heart contraction  (IDA)
regulation of heart rate  (ISO)
response to heat  (ISO)
response to pain  (ISO)
signal transduction  (IEA)
smooth muscle contraction  (ISO)
vasculature development  (ISO)
vasodilation  (IDA,ISO)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The calcitonin receptor gene is a candidate for regulation of susceptibility to herpes simplex type 1 neuronal infection leading to encephalitis in rat. Abdelmagid N, etal., PLoS Pathog. 2012;8(6):e1002753. doi: 10.1371/journal.ppat.1002753. Epub 2012 Jun 28.
2. Pattern of distribution of calcitonin gene-related Peptide in the dorsal root ganglion of animal models of diabetes mellitus. Adeghate E, etal., Ann N Y Acad Sci. 2006 Nov;1084:296-303.
3. Altered calcitonin gene in a young patient with osteoporosis. Alevizaki M, etal., BMJ 1989 May 6;298(6682):1215-6.
4. Calcitonin COOH-terminal cleavage peptide as a model for identification of novel neuropeptides predicted by recombinant DNA analysis. Amara SG, etal., J Biol Chem 1982 Mar 10;257(5):2129-32.
5. Calcitonin/calcitonin gene-related peptide transcription unit: tissue-specific expression involves selective use of alternative polyadenylation sites. Amara SG, etal., Mol Cell Biol 1984 Oct;4(10):2151-60.
6. Alternative RNA processing in calcitonin gene expression generates mRNAs encoding different polypeptide products. Amara SG, etal., Nature 1982 Jul 15;298(5871):240-4.
7. Expression in brain of a messenger RNA encoding a novel neuropeptide homologous to calcitonin gene-related peptide. Amara SG, etal., Science 1985 Sep 13;229(4718):1094-7.
8. The calcitonin/calcitonin gene related peptide-alpha gene is not required for 1alpha,25-dihydroxyvitamin D3-mediated suppression of experimental autoimmune encephalomyelitis. Becklund BR, etal., Arch Biochem Biophys. 2009 Aug 15;488(2):105-8. Epub 2009 Jun 27.
9. Nuclear localization of SP, CGRP, and NK1R in a subpopulation of dorsal root ganglia subpopulation cells in rats. Boer PA and Gontijo JA, Cell Mol Neurobiol. 2006 Mar;26(2):191-207. Epub 2006 May 6.
10. Adaptive cytoprotection mediated by prostaglandin I(2) is attributable to sensitization of CRGP-containing sensory nerves. Boku K, etal., Gastroenterology. 2001 Jan;120(1):134-43.
11. Role of calcitonin gene-related peptide in hypertension-induced renal damage. Bowers MC, etal., Hypertension. 2005 Jul;46(1):51-7. Epub 2005 May 31.
12. Nerve Growth Factor Mediates Mechanical Allodynia in a Mouse Model of Type 2 Diabetes. Cheng HT, etal., J Neuropathol Exp Neurol. 2009 Oct 7.
13. THE ROLE OF CALCITONIN RECEPTOR-LIKE RECEPTOR IN COLONIC MOTILITY AND INFLAMMATION. Clifton MS, etal., Am J Physiol Gastrointest Liver Physiol. 2007 Mar 15;.
14. The protective effects of calcitonin gene-related peptide on gastric mucosa injury after cerebral ischemia reperfusion in rats. Feng G, etal., Regul Pept. 2010 Feb 25;160(1-3):121-8. Epub 2009 Nov 10.
15. Mossy cells of the rat dentate gyrus are immunoreactive for calcitonin gene-related peptide (CGRP). Freund TF, etal., Eur J Neurosci. 1997 Sep;9(9):1815-30. doi: 10.1111/j.1460-9568.1997.tb00748.x.
16. 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.
17. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
18. Levels of vasoactive intestinal peptide, cholecystokinin and calcitonin gene-related peptide in plasma and jejunum of rats following traumatic brain injury and underlying significance in gastrointestinal dysfunction. Hang CH, etal., World J Gastroenterol. 2004 Mar 15;10(6):875-80.
19. Anti-inflammatory effects of limb ischaemic preconditioning are mediated by sensory nerve activation in rats. Hartmann P, etal., Naunyn Schmiedebergs Arch Pharmacol. 2011 Feb;383(2):179-89. Epub 2010 Dec 23.
20. Early maternal deprivation alters hippocampal levels of neuropeptide Y and calcitonin-gene related peptide in adult rats. Husum H, etal., Neuropharmacology 2002 May;42(6):798-806.
21. Calcitonin messenger RNA encodes multiple polypeptides in a single precursor. Jacobs JW, etal., Science 1981 Jul 24;213(4506):457-9.
22. The effect of adrenomedullin, amylin fragment 8-37 and calcitonin gene-related peptide on contractile force, heart rate and coronary perfusion pressure in isolated rat hearts. Kaygisiz Z, etal., Acta Physiol Hung. 2003;90(2):133-46.
23. Calcitonin gene expression induced by lipopolysaccharide in the rat pituitary. Kiriyama Y, etal., Am J Physiol Endocrinol Metab 2002 Jun;282(6):E1380-4.
24. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
25. Proximal airway mucous cells of ovalbumin-sensitized and -challenged Brown Norway rats accumulate the neuropeptide calcitonin gene-related peptide. Larson SD, etal., Am J Physiol Lung Cell Mol Physiol. 2004 Aug;287(2):L286-95. Epub 2004 Apr 2.
26. BDNF and CGRP interaction: implications in migraine susceptibility. Lemos C, etal., Cephalalgia. 2010 Nov;30(11):1375-82. Epub 2010 May 10.
27. CGRP peptide and regenerating sensory axons. Li XQ, etal., J Neuropathol Exp Neurol. 2004 Oct;63(10):1092-103.
28. Up-regulation of dorsal root ganglia BDNF and trkB receptor in inflammatory pain: an in vivo and in vitro study. Lin YT, etal., J Neuroinflammation. 2011 Sep 30;8:126. doi: 10.1186/1742-2094-8-126.
29. Calcitonin gene-related peptide prevents blood-brain barrier injury and brain edema induced by focal cerebral ischemia reperfusion. Liu Z, etal., Regul Pept. 2011 Nov 10;171(1-3):19-25. Epub 2011 Jun 28.
30. Association study of calcitonin gene-related polypeptide-alpha (CALCA) gene polymorphism with migraine. Menon S, etal., Brain Res. 2011 Mar 10;1378:119-24. Epub 2010 Dec 31.
31. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
32. Activation of sensory neurons reduces ischemia/reperfusion-induced acute renal injury in rats. Mizutani A, etal., Anesthesiology. 2009 Feb;110(2):361-9. doi: 10.1097/ALN.0b013e3181942f3c.
33. Neuropeptides in the rat corpus cavernosum and seminal vesicle: effects of age and two types of diabetes. Morrison JF, etal., Auton Neurosci. 2009 Mar 12;146(1-2):76-80. Epub 2009 Jan 17.
34. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
35. Procalcitonin: a marker of severity of acute pyelonephritis among children. Pecile P, etal., Pediatrics. 2004 Aug;114(2):e249-54.
36. Calcitonin gene-related peptide-receptor component protein expression in the uterine cervix, lumbosacral spinal cord, and dorsal root ganglia. Pokabla MJ, etal., Peptides. 2002 Mar;23(3):507-14.
37. mRNA expression of novel CGRP1 receptors and their activity-modifying proteins in hypoxic rat lung. Qing X, etal., Am J Physiol Lung Cell Mol Physiol 2001 Mar;280(3):L547-54.
38. Clinical and epidemiological features of 36 children with coronavirus disease 2019 (COVID-19) in Zhejiang, China: an observational cohort study. Qiu H, etal., Lancet Infect Dis. 2020 Jun;20(6):689-696. doi: 10.1016/S1473-3099(20)30198-5. Epub 2020 Mar 25.
39. GOA pipeline RGD automated data pipeline
40. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
41. Calcitonin gene-related peptide expression levels predict motor neuron vulnerability in the superoxide dismutase 1-G93A mouse model of amyotrophic lateral sclerosis. Ringer C, etal., Neurobiol Dis. 2012 Jan;45(1):547-54. Epub 2011 Sep 21.
42. Protective effects and anti-inflammatory pathways of exogenous calcitonin gene-related peptide in severe necrotizing pancreatitis. Schneider L, etal., Pancreatology. 2009;9(5):662-9. Epub 2009 Aug 14.
43. Calcitonin expression in rat anterior pituitary gland is regulated by ovarian steroid hormones. Sun YP, etal., Endocrinology 2002 Oct;143(10):4056-64.
44. Nerve growth factor enhances calcitonin gene-related peptide expression in the spontaneously hypertensive rat. Supowit SC, etal., Hypertension 2001 Feb;37(2 Part 2):728-32.
45. Calcitonin gene-related peptide protects against hypertension-induced heart and kidney damage. Supowit SC, etal., Hypertension. 2005 Jan;45(1):109-14. Epub 2004 Dec 6.
46. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
47. Clinical features and treatment of COVID-19 patients in northeast Chongqing. Wan S, etal., J Med Virol. 2020 Jul;92(7):797-806. doi: 10.1002/jmv.25783. Epub 2020 Apr 1.
48. Clinical characteristics and outcomes of patients with severe covid-19 with diabetes. Yan Y, etal., BMJ Open Diabetes Res Care. 2020 Apr;8(1). pii: 8/1/e001343. doi: 10.1136/bmjdrc-2020-001343.
Additional References at PubMed
PMID:1278175   PMID:1317267   PMID:1326102   PMID:2408883   PMID:3266556   PMID:6400492   PMID:6933496   PMID:7521790   PMID:7698182   PMID:7955356   PMID:8078488   PMID:8261138  
PMID:8278635   PMID:8453761   PMID:8582325   PMID:8735980   PMID:8889548   PMID:8940110   PMID:9271704   PMID:9322931   PMID:9685362   PMID:9838101   PMID:9853118   PMID:10208559  
PMID:10532808   PMID:10642343   PMID:10715114   PMID:10822112   PMID:10882736   PMID:11014233   PMID:11166483   PMID:11276224   PMID:11466438   PMID:11551509   PMID:11556887   PMID:11717154  
PMID:12030813   PMID:12060780   PMID:12488435   PMID:12507435   PMID:12531473   PMID:12531474   PMID:12697724   PMID:12832107   PMID:12888222   PMID:14567394   PMID:14624932   PMID:14722252  
PMID:14736738   PMID:14765981   PMID:15193773   PMID:15205172   PMID:15248232   PMID:15277470   PMID:15385550   PMID:15512786   PMID:15537449   PMID:15582720   PMID:15629546   PMID:15643132  
PMID:15879482   PMID:15882801   PMID:16014619   PMID:16039054   PMID:16118273   PMID:16238469   PMID:16284585   PMID:16337713   PMID:16399878   PMID:16541240   PMID:16847357   PMID:16875511  
PMID:16904178   PMID:16935424   PMID:16973914   PMID:16997465   PMID:17033093   PMID:17184994   PMID:17194737   PMID:17241109   PMID:17267696   PMID:17455082   PMID:17457027   PMID:17640046  
PMID:17660394   PMID:17666428   PMID:17932220   PMID:17950540   PMID:17964731   PMID:17983652   PMID:18035338   PMID:18057382   PMID:18167349   PMID:18186028   PMID:18328477   PMID:18521856  
PMID:18539096   PMID:18650319   PMID:18662828   PMID:18806620   PMID:18809208   PMID:19018584   PMID:19076981   PMID:19095023   PMID:19130224   PMID:19141408   PMID:19225405   PMID:19247856  
PMID:19387418   PMID:19422825   PMID:19429062   PMID:19457095   PMID:19691152   PMID:19735698   PMID:19864020   PMID:20138125   PMID:20139325   PMID:20354476   PMID:20375903   PMID:20385119  
PMID:20519072   PMID:20534813   PMID:20559810   PMID:20596610   PMID:20851839   PMID:20936354   PMID:20955764   PMID:21040789   PMID:21057386   PMID:21171370   PMID:21216873   PMID:21289190  
PMID:21289592   PMID:21394197   PMID:21514666   PMID:21561603   PMID:21606356   PMID:21671799   PMID:21694766   PMID:21763400   PMID:21809559   PMID:22038198   PMID:22038237   PMID:22074408  
PMID:22145886   PMID:22208649   PMID:22233274   PMID:22472888   PMID:22500019   PMID:22688302   PMID:22706400   PMID:22742729   PMID:22763971   PMID:22881710   PMID:22935198   PMID:23056625  
PMID:23112192   PMID:23123284   PMID:23155193   PMID:23218524   PMID:23324931   PMID:23392237   PMID:23395606   PMID:23468996   PMID:23570731   PMID:23571710   PMID:23649215   PMID:23821557  
PMID:23958278   PMID:24004534   PMID:24051030   PMID:24076003   PMID:24140435   PMID:24269509   PMID:24321404   PMID:24328744   PMID:24384662   PMID:24508136   PMID:24701588   PMID:24760869  
PMID:24877063   PMID:24887115   PMID:24998872   PMID:25219961   PMID:25489075   PMID:25563479   PMID:26164378   PMID:26713069   PMID:26930007   PMID:27082317   PMID:27306412   PMID:27345362  
PMID:27470397   PMID:27579553   PMID:27737007   PMID:27919019   PMID:27939448   PMID:27990431   PMID:28393079   PMID:28560441   PMID:28599085   PMID:29730242   PMID:29846865   PMID:31035923  
PMID:31298358   PMID:31386894   PMID:32212492   PMID:32853530   PMID:32871764   PMID:33039977   PMID:33067662   PMID:33373917   PMID:34020664   PMID:34496764   PMID:34611305   PMID:34969767  
PMID:35760098  


Genomics

Comparative Map Data
Calca
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21168,878,212 - 168,883,176 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1168,878,214 - 168,883,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1177,192,440 - 177,197,339 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01184,378,496 - 184,383,399 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01177,090,892 - 177,095,773 (-)NCBIRnor_WKY
Rnor_6.01184,184,018 - 184,188,922 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1184,184,020 - 184,188,911 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,158,061 - 191,162,954 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41172,686,168 - 172,691,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11172,824,299 - 172,827,127 (-)NCBI
Celera1166,711,610 - 166,716,491 (-)NCBICelera
RH 3.4 Map11317.6RGD
RH 2.0 Map1757.3RGD
Cytogenetic Map1q35NCBI
CALCA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381114,966,668 - 14,972,351 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1114,966,622 - 14,972,354 (-)EnsemblGRCh38hg38GRCh38
GRCh371114,988,214 - 14,993,897 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361114,944,792 - 14,950,408 (-)NCBINCBI36Build 36hg18NCBI36
Build 341114,946,625 - 14,950,427NCBI
Celera1115,115,335 - 15,120,952 (-)NCBICelera
Cytogenetic Map11p15.2NCBI
HuRef1114,671,857 - 14,677,473 (-)NCBIHuRef
CHM1_11114,987,226 - 14,992,843 (-)NCBICHM1_1
T2T-CHM13v2.01115,063,025 - 15,068,708 (-)NCBIT2T-CHM13v2.0
Calca
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397114,225,223 - 114,236,145 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7114,230,713 - 114,235,592 (-)EnsemblGRCm39 Ensembl
GRCm387114,625,981 - 114,636,910 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7114,631,478 - 114,636,357 (-)EnsemblGRCm38mm10GRCm38
MGSCv377121,774,992 - 121,779,871 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367114,422,640 - 114,427,439 (-)NCBIMGSCv36mm8
Celera7114,584,937 - 114,589,792 (-)NCBICelera
Cytogenetic Map7F1NCBI
cM Map759.99NCBI
CALCA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11114,745,588 - 14,751,267 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1114,745,588 - 14,751,267 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01115,055,897 - 15,061,539 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CRSP-3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12137,676,841 - 37,680,643 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2137,676,841 - 37,680,645 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2137,176,307 - 37,180,108 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02138,770,713 - 38,774,520 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2138,770,713 - 38,774,522 (+)EnsemblROS_Cfam_1.0 Ensembl
UNSW_CanFamBas_1.02137,993,320 - 37,997,114 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02138,281,026 - 38,284,825 (+)NCBIUU_Cfam_GSD_1.0
Calca
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494747,766,690 - 47,772,207 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365283,800,577 - 3,805,004 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365283,800,801 - 3,806,000 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CALCB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1244,043,135 - 44,048,651 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2247,248,414 - 47,253,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103239768
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1149,946,574 - 49,956,010 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl149,951,694 - 49,954,092 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038147,447,203 - 147,453,110 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Calca
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247666,766,185 - 6,768,173 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247666,764,388 - 6,771,396 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Calca
22 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:242
Count of miRNA genes:167
Interacting mature miRNAs:184
Transcripts:ENSRNOT00000014948, ENSRNOT00000055124
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383635Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1144267916172949660Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144267916174133260Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1154561505199561505Rat
1582204Livw1Liver weight QTL 13.60.0003liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)1155422851172949803Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1155866514200866514Rat
631548Bp88Blood pressure QTL 8850.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1156677124176484451Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1156677124201278233Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1158633083203633083Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393213533942Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164747424209747424Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1164747424209747424Rat
737974Bp161Blood pressure QTL 1610.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1164747558181133855Rat
2312558Glom17Glomerulus QTL 173.90.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1166532971191278129Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1167909849212909849Rat

Markers in Region
D1Smu11  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21168,879,333 - 168,879,526 (+)MAPPERmRatBN7.2
Rnor_6.01184,185,140 - 184,185,332NCBIRnor6.0
Rnor_5.01191,159,183 - 191,159,375UniSTSRnor5.0
RGSC_v3.41172,687,290 - 172,687,482UniSTSRGSC3.4
Celera1166,712,732 - 166,712,912UniSTS
Cytogenetic Map1q34UniSTS
PMC109322P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21168,880,516 - 168,881,338 (+)MAPPERmRatBN7.2
Rnor_6.01184,186,323 - 184,187,144NCBIRnor6.0
Rnor_5.01191,160,366 - 191,161,187UniSTSRnor5.0
RGSC_v3.41172,688,473 - 172,689,294UniSTSRGSC3.4
Celera1166,713,903 - 166,714,724UniSTS
Cytogenetic Map1q34UniSTS
RH94470  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21168,878,272 - 168,878,451 (+)MAPPERmRatBN7.2
Rnor_6.01184,184,079 - 184,184,257NCBIRnor6.0
Rnor_5.01191,158,122 - 191,158,300UniSTSRnor5.0
RGSC_v3.41172,686,229 - 172,686,407UniSTSRGSC3.4
Celera1166,711,671 - 166,711,849UniSTS
RH 3.4 Map11317.6UniSTS
Cytogenetic Map1q34UniSTS
RH131181  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21168,880,115 - 168,880,318 (+)MAPPERmRatBN7.2
Rnor_6.01184,185,922 - 184,186,124NCBIRnor6.0
Rnor_5.01191,159,965 - 191,160,167UniSTSRnor5.0
RGSC_v3.41172,688,072 - 172,688,274UniSTSRGSC3.4
Celera1166,713,502 - 166,713,704UniSTS
RH 3.4 Map11317.59UniSTS
Cytogenetic Map1q34UniSTS
RH137698  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21168,878,416 - 168,878,596 (+)MAPPERmRatBN7.2
Rnor_6.01184,184,223 - 184,184,402NCBIRnor6.0
Rnor_5.01191,158,266 - 191,158,445UniSTSRnor5.0
RGSC_v3.41172,686,373 - 172,686,552UniSTSRGSC3.4
Celera1166,711,815 - 166,711,994UniSTS
RH 3.4 Map11317.29UniSTS
Cytogenetic Map1q34UniSTS
Calca  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21168,880,512 - 168,881,370 (+)MAPPERmRatBN7.2
Rnor_6.01184,186,319 - 184,187,176NCBIRnor6.0
Rnor_5.01191,160,362 - 191,161,219UniSTSRnor5.0
RGSC_v3.41172,688,469 - 172,689,326UniSTSRGSC3.4
Celera1166,713,899 - 166,714,756UniSTS
Cytogenetic Map1q34UniSTS


Related Rat Strains
The following Strains have been annotated to Calca


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 11 4 7 4 74 20 25 11
Below cutoff 2 14 4 1 5 1 1 1 13 10 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001033955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001033956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008759676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AH005313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW523601 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY702025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG663259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB711853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB746609 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CF978038 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M11597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M26137 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  V01228 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  V01229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  V01230 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  V01231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000014948   ⟹   ENSRNOP00000014948
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1168,880,235 - 168,883,105 (-)Ensembl
Rnor_6.0 Ensembl1184,186,041 - 184,188,911 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000055124   ⟹   ENSRNOP00000051997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1168,878,214 - 168,883,105 (-)Ensembl
Rnor_6.0 Ensembl1184,184,020 - 184,188,911 (-)Ensembl
RefSeq Acc Id: NM_001033955   ⟹   NP_001029127
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,878,212 - 168,883,105 (-)NCBI
Rnor_6.01184,184,018 - 184,188,911 (-)NCBI
Rnor_5.01191,158,061 - 191,162,954 (-)NCBI
RGSC_v3.41172,686,168 - 172,691,061 (-)RGD
Celera1166,711,610 - 166,716,491 (-)RGD
Sequence:
RefSeq Acc Id: NM_001033956   ⟹   NP_001029128
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,878,212 - 168,883,105 (-)NCBI
Rnor_6.01184,184,018 - 184,188,911 (-)NCBI
Rnor_5.01191,158,061 - 191,162,954 (-)NCBI
RGSC_v3.41172,686,168 - 172,691,061 (-)RGD
Celera1166,711,610 - 166,716,491 (-)RGD
Sequence:
RefSeq Acc Id: NM_017338   ⟹   NP_059034
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,880,235 - 168,883,105 (-)NCBI
Rnor_6.01184,186,041 - 184,188,911 (-)NCBI
Rnor_5.01191,158,061 - 191,162,954 (-)NCBI
RGSC_v3.41172,686,168 - 172,691,061 (-)RGD
Celera1166,713,621 - 166,716,491 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008759676   ⟹   XP_008757898
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21168,880,094 - 168,883,176 (-)NCBI
Rnor_6.01184,185,900 - 184,188,922 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001029127   ⟸   NM_001033955
- Peptide Label: isoform Cgrp preproprotein
- UniProtKB: P01256 (UniProtKB/Swiss-Prot),   A0A0G2JSX2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029128   ⟸   NM_001033956
- Peptide Label: isoform Cgrp preproprotein
- UniProtKB: P01256 (UniProtKB/Swiss-Prot),   A0A0G2JSX2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_059034   ⟸   NM_017338
- Peptide Label: isoform Calca preproprotein
- UniProtKB: P01257 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008757898   ⟸   XM_008759676
- Peptide Label: isoform X1
- UniProtKB: P01257 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051997   ⟸   ENSRNOT00000055124
RefSeq Acc Id: ENSRNOP00000014948   ⟸   ENSRNOT00000014948
Protein Domains
CALCITONIN

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P01257-F1-model_v2 AlphaFold P01257 1-136 view protein structure

Transcriptome

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

Promoters
RGD ID:13690332
Promoter ID:EPDNEW_R857
Type:single initiation site
Name:Calca_1
Description:calcitonin-related polypeptide alpha
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_6.01184,188,910 - 184,188,970EPDNEW
RGD ID:6849988
Promoter ID:EP29003
Type:single initiation site
Name:RN_CAL1
Description:Calcitonin/calcitonin gene-related peptide, CALCA or CALC gene.
SO ACC ID:SO:0000170
Source:EPD (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Notes:homology_group=Homology group 156; Mammalian calcitonin gene
Experiment Methods:Nuclease protection; Sequencing of a full-length cDNA; Primer extension; transfected or transformed cells
Regulation:thyroid C (repressed by or weakly expressed in) cells, CNS
Position:No map positions available.

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2254 AgrOrtholog
BioCyc Gene G2FUF-57734 BioCyc
Ensembl Genes ENSRNOG00000011130 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000014948 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000051997 ENTREZGENE
  ENSRNOP00000051997.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014948 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000055124 ENTREZGENE
  ENSRNOT00000055124.5 UniProtKB/TrEMBL
InterPro Calcitonin UniProtKB/Swiss-Prot
  Calcitonin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calcitonin/adrenomedullin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calcitonin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calcitonin_gene-rel_peptide UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Calcitonin_peptide-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24241 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 24241 ENTREZGENE
PANTHER PTHR10505 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Calc_CGRP_IAPP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB CALCA RGD
PhenoGen Calca PhenoGen
PRINTS CALCITONINA UniProtKB/Swiss-Prot
  CALCITONINB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CALCITONIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CALCITONIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC219251
UniProt A0A0G2JSX2 ENTREZGENE, UniProtKB/TrEMBL
  CALC_RAT UniProtKB/Swiss-Prot
  CALCA_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  P01257 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-11-05 Calca  calcitonin-related polypeptide alpha  Calca  calcitonin/calcitonin-related polypeptide, alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Calca  calcitonin/calcitonin-related polypeptide, alpha      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization secreted by C cells of the thyroid 628360
gene_drugs antiestrogen ICI 182,780 blocks the decrease in mRNA levels due to estrogen treatment; anti-progestin RU 486 lowers mRNA levels 628360
gene_expression highest level of expression in diestrus and the lowest in proestrus evening during estrus cycle 628360
gene_process dilates peripheral arteries, decreasing blood pressure 68890
gene_process indicator for bacterial infection and sepsis 625748
gene_process exhibits selective and potent inhibition of prolactin biosynthesis, secretion and lactotroph cell proliferation 628360
gene_process may be involved in negative regulation of lactotroph function in anterior pituitary gland; interplay of ovarian hormones modulate calcitonin secretion thay may affect lactotroph function 628360
gene_protein procalcitonin (PCT), the precursor for calcitonin, is a 110-amino acid polypeptide 628360
gene_regulation regulated by serum Ca2+ concentrations 628360
gene_regulation lipopolysaccharide increases mRNA in the pituitary and is associated with significant elevations of the immunoreactive calcitonin (iCT) levels in the serum 628360
gene_regulation tightly regulated by ovarian hormones; estrogen downregulates transcription while progesterone produces marked increase in estrogen-primed pituitary gland 628360
gene_regulation mature calcitonin is produced by posttranslational processing from procalcitonin and carboxy-terminus amidation 628360