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

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Gene: Calca (calcitonin-related polypeptide alpha) Rattus norvegicus
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Symbol: Calca
Name: calcitonin-related polypeptide alpha
RGD ID: 2254
Description: Predicted to enable calcitonin receptor binding activity; hormone activity; and identical protein binding activity. Involved in several processes, including cellular response to nerve growth factor stimulus; cellular response to tumor necrosis factor; and vasodilation. Located in 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 middle cerebral artery infarction; migraine; 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; CGRP1; procalcitonin; RATCAL6
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Is Marker For: Strains:   SHRSP.WKY-(Calca-D1Arb21)/IzmTkyo
QTLs:   Bp138  
Candidate Gene For: Bp138
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81178,312,636 - 178,317,588 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1178,312,638 - 178,317,529 (-)EnsemblGRCr8
mRatBN7.21168,878,212 - 168,883,176 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1168,878,214 - 168,883,105 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1177,192,440 - 177,197,339 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,378,496 - 184,383,399 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01177,090,892 - 177,095,773 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01184,184,018 - 184,188,922 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1184,184,020 - 184,188,911 (-)Ensemblrn6Rnor6.0
Rnor_5.01191,158,061 - 191,162,954 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41172,686,168 - 172,691,061 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1166,711,610 - 166,716,491 (-)NCBICelera
RGSC_v3.11172,824,299 - 172,827,127 (-)NCBI
RH 3.4 Map11317.6RGD
RH 2.0 Map1757.3RGD
Cytogenetic Map1q34NCBI
JBrowse:




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)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (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)
amitrole  (EXP)
ammonium chloride  (EXP)
Anetholtrithion  (ISO)
Aroclor 1254  (EXP)
arsenite(3-)  (ISO)
ATP  (EXP)
atropine  (EXP)
Azoxymethane  (ISO)
Bay-K-8644  (EXP)
benzo[a]pyrene  (ISO)
bethanechol  (EXP)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
Botulinum toxin type A  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (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)
chlorpyrifos  (ISO)
cisplatin  (EXP)
cobalt atom  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corn oil  (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,ISO)
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)
Evodiamine  (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)
imiquimod  (ISO)
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)
melatonin  (ISO)
methimazole  (EXP)
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)
S-nitrosoglutathione  (ISO)
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)
sulfadimethoxine  (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,IEA,ISO)
amylin receptor 1 signaling pathway  (ISO)
amylin receptor 2 signaling pathway  (IEA,ISO)
antimicrobial humoral immune response mediated by antimicrobial peptide  (ISO)
artery vasodilation involved in baroreceptor response to increased systemic arterial blood pressure  (ISO)
calcitonin family receptor signaling pathway  (IEA,ISO)
calcitonin gene-related peptide receptor signaling pathway  (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  (IEA,ISO)
endothelial cell migration  (ISO)
endothelial cell proliferation  (ISO)
feeding behavior  (ISO)
G protein-coupled receptor internalization  (ISO)
inflammatory response  (ISO)
innate immune response  (ISO)
intracellular calcium ion homeostasis  (ISO)
leukocyte cell-cell adhesion  (ISO)
monocyte chemotaxis  (IEA,ISO)
negative regulation of blood pressure  (IMP,ISO)
negative regulation of bone resorption  (IEA,ISO)
negative regulation of calcium ion transport into cytosol  (ISO)
negative regulation of DNA-templated transcription  (IEA,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)
neuropeptide signaling pathway  (ISO)
phospholipase C-activating G protein-coupled receptor signaling pathway  (ISO)
positive regulation of cytosolic calcium ion concentration  (IEA,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 cytosolic calcium ion concentration  (IBA,ISO)
regulation of heart rate  (ISO)
response to heat  (ISO)
response to pain  (ISO)
signal transduction  (IEA)
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. Intranasal Calcitonin Gene-Related Peptide Protects Against Focal Cerebral Ischemic Injury in Rats Through the Wnt/β-Catenin Pathway. Du Z, etal., Med Sci Monit. 2018 Dec 7;24:8860-8869. doi: 10.12659/MSM.913777.
15. 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.
16. 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.
17. 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.
18. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
19. 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.
20. 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.
21. 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.
22. Calcitonin messenger RNA encodes multiple polypeptides in a single precursor. Jacobs JW, etal., Science 1981 Jul 24;213(4506):457-9.
23. 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.
24. Calcitonin gene expression induced by lipopolysaccharide in the rat pituitary. Kiriyama Y, etal., Am J Physiol Endocrinol Metab 2002 Jun;282(6):E1380-4.
25. 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
26. 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.
27. BDNF and CGRP interaction: implications in migraine susceptibility. Lemos C, etal., Cephalalgia. 2010 Nov;30(11):1375-82. Epub 2010 May 10.
28. CGRP peptide and regenerating sensory axons. Li XQ, etal., J Neuropathol Exp Neurol. 2004 Oct;63(10):1092-103.
29. 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.
30. 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.
31. 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.
32. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
33. 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.
34. 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.
35. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
36. Procalcitonin: a marker of severity of acute pyelonephritis among children. Pecile P, etal., Pediatrics. 2004 Aug;114(2):e249-54.
37. 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.
38. 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.
39. 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.
40. GOA pipeline RGD automated data pipeline
41. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
42. 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.
43. 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.
44. Calcitonin expression in rat anterior pituitary gland is regulated by ovarian steroid hormones. Sun YP, etal., Endocrinology 2002 Oct;143(10):4056-64.
45. 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.
46. 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.
47. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
48. 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.
49. 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.
50. Calcitonin gene-related peptide facilitates sensitization of the vestibular nucleus in a rat model of chronic migraine. Zhang Y, etal., J Headache Pain. 2020 Jun 10;21(1):72. doi: 10.1186/s10194-020-01145-y.
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   PMID:36565980   PMID:37231189   PMID:37635135   PMID:38166171   PMID:38211380   PMID:38452411   PMID:38816868   PMID:39072399  


Genomics

Comparative Map Data
Calca
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81178,312,636 - 178,317,588 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1178,312,638 - 178,317,529 (-)EnsemblGRCr8
mRatBN7.21168,878,212 - 168,883,176 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1168,878,214 - 168,883,105 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1177,192,440 - 177,197,339 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01184,378,496 - 184,383,399 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01177,090,892 - 177,095,773 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01184,184,018 - 184,188,922 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1184,184,020 - 184,188,911 (-)Ensemblrn6Rnor6.0
Rnor_5.01191,158,061 - 191,162,954 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41172,686,168 - 172,691,061 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1166,711,610 - 166,716,491 (-)NCBICelera
RGSC_v3.11172,824,299 - 172,827,127 (-)NCBI
RH 3.4 Map11317.6RGD
RH 2.0 Map1757.3RGD
Cytogenetic Map1q34NCBI
CALCA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381114,966,668 - 14,972,351 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1114,966,622 - 14,972,354 (-)Ensemblhg38GRCh38
GRCh371114,988,214 - 14,993,897 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361114,944,792 - 14,950,408 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm387114,625,981 - 114,636,910 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7114,631,478 - 114,636,357 (-)Ensemblmm10GRCm38
MGSCv377121,774,992 - 121,779,871 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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
NHGRI_mPanPan1-v2917,335,385 - 17,340,053 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11117,296,273 - 17,300,935 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01115,055,897 - 15,061,539 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11114,745,588 - 14,751,267 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1114,745,588 - 14,751,267 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2137,176,307 - 37,180,108 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02138,770,713 - 38,774,520 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 Ensembl
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247666,764,388 - 6,771,396 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Calca
61 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1160111531262090437Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753266453731Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)1137611478182611478Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1153679879198679879Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1177339686222339686Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1132760429191848948Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1153679879205813246Rat
8694166Bw147Body weight QTL 1476.830.001body mass (VT:0001259)body weight gain (CMO:0000420)1153788989198788989Rat
1600397Edcs4Endometrial carcinoma susceptibility QTL 42.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)1176288899270518180Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1142582336182383862Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1160573753210707719Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1162548015270518180Rat
152025235Bw194Body weight QTL 1944.86body mass (VT:0001259)1132966869252856240Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1139442053223964440Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1152919152268496042Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1160573753210707719Rat
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)1165278545210278545Rat
152025232Bw192Body weight QTL 1923.93body mass (VT:0001259)1127329268206393015Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1160111531262090437Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1161077990206077990Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)199645382182701046Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)199645382221502378Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1168063662213063662Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1159894717207261263Rat
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)1109493780193400781Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1163992710208992710Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1146080545243492863Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1103779152223964440Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)198879955208479939Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1155359438194575574Rat
631206Niddm40Non-insulin dependent diabetes mellitus QTL 40blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1140833106185833106Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1153679879232414077Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1160574007235238518Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1116099376191260518Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1160111426262090599Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1132760429191848948Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1154961463266453731Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1162753891207753891Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1153680016182383862Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1153680016183564652Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1102780511182384005Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1172718770228180370Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1143092939188092939Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1111949780210707719Rat
2312558Glom17Glomerulus QTL 173.90.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1175967553200707874Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)193903998191260518Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1143092939188092939Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1139442053223964440Rat
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)1140048073185048073Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1143092939188092939Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1111949780210707719Rat
1582204Livw1Liver weight QTL 13.60.0003liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)1170078537182384005Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1135021436178317588Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1160573753266453731Rat
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)1140048073185048073Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1160573753210707719Rat
1576310Schws2Schwannoma susceptibility QTL 20.029nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1153788989198788989Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1165707719210707719Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1173363824227535316Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1135021436180021436Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1132760429191190115Rat
152025212Bw190Body weight QTL 1905.7body mass (VT:0001259)1132966869206393015Rat
631548Bp88Blood pressure QTL 8850.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1140915717185915717Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1132760429191848948Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1111949780228180370Rat
7411599Foco11Food consumption QTL 1118.50.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)1153788989198788989Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1160573753210707719Rat

Markers in Region
D1Smu11  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81178,313,757 - 178,313,950 (+)Marker Load Pipeline
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
GRCr81178,314,936 - 178,315,794 (+)Marker Load Pipeline
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
SHRSP.WKY-(Calca-D1Arb21)/IzmTkyo    


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
15 1 30 133 40 45 14 19 14 6 151 65 2 125 56 82 31 12 12

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
  JAXUCZ010000001 (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

Ensembl Acc Id: ENSRNOT00000014948   ⟹   ENSRNOP00000014948
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,314,659 - 178,317,529 (-)Ensembl
mRatBN7.2 Ensembl1168,880,235 - 168,883,105 (-)Ensembl
Rnor_6.0 Ensembl1184,186,041 - 184,188,911 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000055124   ⟹   ENSRNOP00000051997
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1178,312,638 - 178,317,529 (-)Ensembl
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
GRCr81178,312,636 - 178,317,529 (-)NCBI
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
GRCr81178,312,636 - 178,317,529 (-)NCBI
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
GRCr81178,314,659 - 178,317,529 (-)NCBI
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
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81178,314,518 - 178,317,588 (-)NCBI
mRatBN7.21168,880,094 - 168,883,176 (-)NCBI
Rnor_6.01184,185,900 - 184,188,922 (-)NCBI
Sequence:
RefSeq Acc Id: NP_001029127   ⟸   NM_001033955
- Peptide Label: isoform Cgrp preproprotein
- UniProtKB: P01256 (UniProtKB/Swiss-Prot),   A0A0G2JSX2 (UniProtKB/TrEMBL),   A6I8B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001029128   ⟸   NM_001033956
- Peptide Label: isoform Cgrp preproprotein
- UniProtKB: P01256 (UniProtKB/Swiss-Prot),   A0A0G2JSX2 (UniProtKB/TrEMBL),   A6I8B3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_059034   ⟸   NM_017338
- Peptide Label: isoform Calca preproprotein
- UniProtKB: P01257 (UniProtKB/Swiss-Prot),   A6I8B8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008757898   ⟸   XM_008759676
- Peptide Label: isoform X1
- UniProtKB: P01257 (UniProtKB/Swiss-Prot),   A6I8B8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000051997   ⟸   ENSRNOT00000055124
Ensembl Acc Id: ENSRNOP00000014948   ⟸   ENSRNOT00000014948
Protein Domains
Calcitonin peptide-like

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
Ensembl Transcript ENSRNOT00000014948 ENTREZGENE
  ENSRNOT00000014948.6 UniProtKB/Swiss-Prot
  ENSRNOT00000055124 ENTREZGENE
Gene3D-CATH 6.10.250.2190 UniProtKB/Swiss-Prot
InterPro Calcitonin UniProtKB/Swiss-Prot
  Calcitonin-like UniProtKB/Swiss-Prot
  Calcitonin/adrenomedullin UniProtKB/Swiss-Prot
  Calcitonin_CS UniProtKB/Swiss-Prot
  Calcitonin_gene-rel_peptide UniProtKB/Swiss-Prot
  Calcitonin_peptide-like UniProtKB/Swiss-Prot
KEGG Report rno:24241 UniProtKB/Swiss-Prot
NCBI Gene 24241 ENTREZGENE
PANTHER CALCITONIN UniProtKB/Swiss-Prot
  CALCITONIN GENE-RELATED PEPTIDE 2 UniProtKB/Swiss-Prot
  PTHR10505 UniProtKB/Swiss-Prot
Pfam Calc_CGRP_IAPP UniProtKB/Swiss-Prot
PharmGKB CALCA RGD
PhenoGen Calca PhenoGen
PRINTS CALCITONINA UniProtKB/Swiss-Prot
  CALCITONINB UniProtKB/Swiss-Prot
PROSITE CALCITONIN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000011130 RatGTEx
SMART CALCITONIN UniProtKB/Swiss-Prot
TIGR TC219251
UniProt A0A0G2JSX2 ENTREZGENE, UniProtKB/TrEMBL
  A6I8B3 ENTREZGENE, UniProtKB/TrEMBL
  A6I8B8 ENTREZGENE, UniProtKB/TrEMBL
  A6I8B9_RAT 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