Casr (calcium-sensing receptor) - Rat Genome Database

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Gene: Casr (calcium-sensing receptor) Rattus norvegicus
Analyze
Symbol: Casr
Name: calcium-sensing receptor
RGD ID: 2277
Description: Enables integrin binding activity; protein kinase binding activity; and transmembrane transporter binding activity. Involved in several processes, including G protein-coupled receptor signaling pathway; blood vessel diameter maintenance; and cellular chemical homeostasis. Located in several cellular components, including apical plasma membrane; basolateral plasma membrane; and neuronal cell body. Used to study cardiomyopathy. Biomarker of atherosclerosis; myocardial infarction; and pulmonary hypertension. Human ortholog(s) of this gene implicated in several diseases, including autosomal dominant hypocalcemia (multiple); hypercalcemia (multiple); hyperparathyroidism (multiple); idiopathic generalized epilepsy 8; and nephrolithiasis (multiple). Orthologous to human CASR (calcium sensing receptor); PARTICIPATES IN calcium signaling pathway via the calcium-sensing receptor; G protein mediated signaling pathway via Galphai family; G protein mediated signaling pathway via Galphaq family; INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Calcium-sensing receptor (hypocalciuric hypercalcemia 1 severe neonatal hyperparathyroidism); Calcium-sensing receptor (hypocalciuric hypercalcemia 1, severe neonatal hyperparathyroidism); extracellular calcium-sensing receptor; parathyroid Cell calcium-sensing receptor; PCaR1; RaKCaR
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Casrem1Mcwi  
Genetic Models: SS-Casrem1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21164,235,251 - 64,304,811 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1164,235,251 - 64,304,811 (+)Ensembl
Rnor_6.01167,188,204 - 67,262,261 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1167,188,630 - 67,258,771 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01170,278,784 - 70,352,137 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41166,084,169 - 66,153,292 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11166,141,757 - 66,210,881 (-)NCBI
Celera1163,705,377 - 63,774,888 (+)NCBICelera
Cytogenetic Map11q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
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3. Bai SZ, etal., Diabetes Res Clin Pract. 2012 Mar;95(3):378-85. doi: 10.1016/j.diabres.2011.11.007. Epub 2011 Dec 3.
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14. Elamin WF and de Buyl O, J Med Case Rep. 2010 Oct 29;4:349. doi: 10.1186/1752-1947-4-349.
15. Eren PA, etal., Clin Nephrol. 2009 Aug;72(2):114-21.
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18. GOA data from the GO Consortium
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20. Guo J, etal., Mol Cell Biochem. 2012 Jul;366(1-2):345-54. doi: 10.1007/s11010-012-1312-0. Epub 2012 Apr 17.
21. Haligur M, etal., Exp Diabetes Res. 2012;2012:120645. doi: 10.1155/2012/120645. Epub 2012 Jul 11.
22. Hannan FM, etal., Clin Endocrinol (Oxf). 2010 Dec;73(6):715-22. doi: 10.1111/j.1365-2265.2010.03870.x.
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25. Hough TA, etal., Proc Natl Acad Sci U S A. 2004 Sep 14;101(37):13566-71. Epub 2004 Sep 3.
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27. Kobayashi M, etal., J Clin Endocrinol Metab. 1997 Aug;82(8):2716-9.
28. Koleganova N, etal., Kidney Int. 2009 Jan;75(1):60-71. doi: 10.1038/ki.2008.490. Epub 2008 Oct 1.
29. Koleganova N, etal., Lab Invest. 2009 May;89(5):520-30. doi: 10.1038/labinvest.2009.7. Epub 2009 Feb 2.
30. Li GW, etal., Basic Clin Pharmacol Toxicol. 2011 Mar;108(3):185-93. doi: 10.1111/j.1742-7843.2010.00639.x. Epub 2010 Nov 12.
31. Li HX, etal., Mol Cell Biochem. 2012 Mar;362(1-2):115-22. doi: 10.1007/s11010-011-1133-6. Epub 2011 Nov 15.
32. MGD data from the GO Consortium
33. Molostvov G, etal., Am J Physiol Renal Physiol. 2007 Sep;293(3):F946-55. Epub 2007 May 30.
34. NCBI rat LocusLink and RefSeq merged data July 26, 2002
35. O'Seaghdha CM, etal., Hum Mol Genet. 2010 Nov 1;19(21):4296-303. doi: 10.1093/hmg/ddq342. Epub 2010 Aug 12.
36. Okamoto K, etal., Diabetes. 2012 Jul;61(7):1734-41. doi: 10.2337/db11-1201. Epub 2012 May 7.
37. OMIM Disease Annotation Pipeline
38. Parkash J Life Sci. 2011 Jan 31;88(5-6):257-64. doi: 10.1016/j.lfs.2010.12.002. Epub 2010 Dec 10.
39. Pearce SH, etal., N Engl J Med. 1996 Oct 10;335(15):1115-22.
40. Pi M, etal., Endocrinology. 2002 Oct;143(10):3830-8.
41. Pi M, etal., Mol Endocrinol. 2005 Apr;19(4):1078-87. Epub 2005 Jan 6.
42. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
43. Pollak MR, etal., Cell. 1993 Dec 31;75(7):1297-303.
44. Pollak MR, etal., Nat Genet. 1994 Nov;8(3):303-7.
45. RGD automated data pipeline
46. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
47. RGD automated import pipeline for gene-chemical interactions
48. Riccardi D, etal., Proc Natl Acad Sci U S A 1995 Jan 3;92(1):131-5.
49. Ritter CS, etal., J Bone Miner Res 2002 Dec;17(12):2206-13.
50. Ruat M, etal., Proc Natl Acad Sci U S A 1995 Apr 11;92(8):3161-5.
51. Scillitani A, etal., J Clin Endocrinol Metab. 2007 Jan;92(1):277-83. doi: 10.1210/jc.2006-0857. Epub 2006 Oct 3.
52. Sfar S, etal., Mol Biol Rep. 2012 Mar;39(3):2395-400. doi: 10.1007/s11033-011-0990-0. Epub 2011 Jun 12.
53. Shakhssalim N, etal., Scand J Urol Nephrol. 2010 Dec;44(6):406-12. doi: 10.3109/00365599.2010.497770. Epub 2010 Jul 5.
54. Sorheim JI, etal., Horm Res Paediatr. 2010;74(6):399-405. doi: 10.1159/000303188. Epub 2010 May 26.
55. Tfelt-Hansen J, etal., Am J Physiol Endocrinol Metab 2003 Aug;285(2):E329-37. Epub 2003 Apr 15.
56. Tharmalingam S, etal., J Biol Chem. 2011 Nov 25;286(47):40922-33. doi: 10.1074/jbc.M111.265454. Epub 2011 Oct 3.
57. Thomsen AR, etal., Cell Calcium. 2012 Feb;51(2):107-16. doi: 10.1016/j.ceca.2011.11.009. Epub 2011 Dec 20.
58. Tu Q, etal., J Clin Invest 2003 Apr;111(7):1029-37.
59. Vezzoli G, etal., Eur J Endocrinol. 2011 Mar;164(3):421-7. doi: 10.1530/EJE-10-0915. Epub 2010 Dec 23.
60. Vezzoli G, etal., J Am Soc Nephrol. 2002 Oct;13(10):2517-23.
61. Vezzoli G, etal., Nephrol Dial Transplant. 2010 Jul;25(7):2245-52. doi: 10.1093/ndt/gfp760. Epub 2010 Jan 12.
62. Wang Y, etal., Am J Physiol Cell Physiol 2003 Jul;285(1):C64-75. Epub 2003 Mar 12.
63. Watanabe S, etal., Lancet 2002 Aug 31;360(9334):692-4.
64. Xi QL, etal., Urology. 2011 Dec;78(6):1442.e1-7. doi: 10.1016/j.urology.2011.08.051.
65. Yamamura A, etal., Circ Res. 2012 Aug 3;111(4):469-81. doi: 10.1161/CIRCRESAHA.112.266361. Epub 2012 Jun 22.
66. Yan L, etal., Mol Biol Rep. 2011 Apr;38(4):2695-701. doi: 10.1007/s11033-010-0412-8. Epub 2010 Nov 19.
67. Yan L, etal., Zhejiang Da Xue Xue Bao Yi Xue Ban. 2011 Mar;40(2):207-12.
68. Yano S, etal., Kidney Int. 2000 Nov;58(5):1980-6.
69. Zhang J, etal., Antioxid Redox Signal. 2012 Aug 1;17(3):471-84. doi: 10.1089/ars.2011.4168. Epub 2012 Jan 25.
70. Zhao Y, etal., Pharmazie. 2011 Dec;66(12):968-74.
71. Zheng H, etal., Mol Cell Biochem. 2011 Dec;358(1-2):335-43. doi: 10.1007/s11010-011-0984-1. Epub 2011 Jul 16.
Additional References at PubMed
PMID:8636323   PMID:8702647   PMID:8878438   PMID:12372772   PMID:12970167   PMID:14645111   PMID:15576443   PMID:15684428   PMID:15950968   PMID:16019433   PMID:16740594   PMID:16767692  
PMID:16859639   PMID:17267550   PMID:17555508   PMID:17823248   PMID:18032544   PMID:18175029   PMID:18348986   PMID:18414396   PMID:18455448   PMID:18556746   PMID:18636168   PMID:18684886  
PMID:18794335   PMID:19056349   PMID:19091789   PMID:19593209   PMID:19728995   PMID:19789209   PMID:19896983   PMID:20307499   PMID:21215232   PMID:21314926   PMID:21316341   PMID:21566075  
PMID:21692826   PMID:22013999   PMID:22038624   PMID:22050992   PMID:22314915   PMID:22708524   PMID:22789683   PMID:23169696   PMID:23300272   PMID:23564188   PMID:23615500   PMID:23711498  
PMID:23740560   PMID:23966241   PMID:24273150   PMID:24812056   PMID:24842051   PMID:25063217   PMID:25104082   PMID:25192641   PMID:25254954   PMID:25256599   PMID:25292184   PMID:25467798  
PMID:25572699   PMID:25645361   PMID:25747709   PMID:25766501   PMID:25892159   PMID:25967877   PMID:26386835   PMID:26617793   PMID:27288786   PMID:27391973   PMID:27434672   PMID:27502588  
PMID:27589858   PMID:27662515   PMID:27965733   PMID:27989797   PMID:28281186   PMID:28330842   PMID:28348014   PMID:28450119   PMID:28518143   PMID:29128361   PMID:29397395   PMID:29452090  
PMID:30496623   PMID:30626206   PMID:30865840   PMID:30935998   PMID:31173208   PMID:31257458   PMID:31738973   PMID:32705187   PMID:33416112   PMID:33647324  


Genomics

Comparative Map Data
Casr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21164,235,251 - 64,304,811 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1164,235,251 - 64,304,811 (+)Ensembl
Rnor_6.01167,188,204 - 67,262,261 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1167,188,630 - 67,258,771 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01170,278,784 - 70,352,137 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41166,084,169 - 66,153,292 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11166,141,757 - 66,210,881 (-)NCBI
Celera1163,705,377 - 63,774,888 (+)NCBICelera
Cytogenetic Map11q22NCBI
CASR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3122,183,668 - 122,291,629 (+)EnsemblGRCh38hg38GRCh38
GRCh383122,183,668 - 122,291,629 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373121,902,515 - 122,010,476 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363123,385,220 - 123,488,032 (+)NCBINCBI36hg18NCBI36
Build 343123,385,219 - 123,488,032NCBI
Celera3120,312,793 - 120,414,980 (+)NCBI
Cytogenetic Map3q13.33-q21.1NCBI
HuRef3119,276,062 - 119,378,878 (+)NCBIHuRef
CHM1_13121,866,087 - 121,968,904 (+)NCBICHM1_1
Casr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391636,310,947 - 36,382,605 (-)NCBIGRCm39mm39
GRCm39 Ensembl1636,314,058 - 36,382,503 (-)Ensembl
GRCm381636,490,585 - 36,562,141 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1636,493,696 - 36,562,141 (-)EnsemblGRCm38mm10GRCm38
MGSCv371636,493,782 - 36,562,220 (-)NCBIGRCm37mm9NCBIm37
MGSCv361636,412,935 - 36,481,373 (-)NCBImm8
Celera1636,909,014 - 36,977,753 (-)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1625.57NCBI
Casr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542721,486,427 - 21,575,210 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542721,486,608 - 21,574,017 (+)NCBIChiLan1.0ChiLan1.0
CASR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13126,252,765 - 126,285,268 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3126,252,765 - 126,285,268 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03119,278,071 - 119,383,901 (+)NCBIMhudiblu_PPA_v0panPan3
CASR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13325,340,822 - 25,432,814 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3325,405,846 - 25,432,559 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3325,430,838 - 25,457,295 (+)NCBI
ROS_Cfam_1.03325,575,807 - 25,668,548 (+)NCBI
UMICH_Zoey_3.13325,439,049 - 25,465,515 (+)NCBI
UNSW_CanFamBas_1.03325,481,863 - 25,508,587 (+)NCBI
UU_Cfam_GSD_1.03326,039,992 - 26,066,527 (+)NCBI
Casr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602128,921,650 - 128,996,645 (-)NCBI
SpeTri2.0NW_0049365368,574,064 - 8,599,446 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CASR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13138,280,363 - 138,364,253 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113138,279,785 - 138,364,934 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213147,907,312 - 147,991,214 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CASR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12258,579,640 - 58,612,142 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2258,578,396 - 58,604,756 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041107,618,566 - 107,763,120 (+)NCBIVero_WHO_p1.0
Casr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624912485,252 - 613,572 (+)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat
1581565Pur10Proteinuria QTL 100.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
1581572Uae35Urinary albumin excretion QTL 350.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)114480331882846466Rat
4889859Pur28Proteinuria QTL 2819.50.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)114545932375190161Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
4889521Gluco62Glucose level QTL 622.820.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)115513672982993457Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
631506Bp104Blood pressure QTL 1042.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)115980279482566545Rat
70208Niddm22Non-insulin dependent diabetes mellitus QTL 223.61blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)115980279482566553Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat


Genetic Models
This gene Casr is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:65
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000003092
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 23
Low 2 4 25 9 18 9 3 4 40 6 9 10 3
Below cutoff 1 6 15 15 1 15 5 6 24 2 14 1 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003092   ⟹   ENSRNOP00000003092
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1164,235,251 - 64,304,811 (+)Ensembl
Rnor_6.0 Ensembl1167,188,630 - 67,258,721 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078341   ⟹   ENSRNOP00000070633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1164,235,251 - 64,304,811 (+)Ensembl
Rnor_6.0 Ensembl1167,210,498 - 67,258,721 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000086097   ⟹   ENSRNOP00000069629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1167,221,359 - 67,258,771 (+)Ensembl
RefSeq Acc Id: NM_001309638   ⟹   NP_001296567
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21164,257,681 - 64,304,811 (+)NCBI
Rnor_6.01167,210,500 - 67,258,789 (+)NCBI
Celera1163,727,881 - 63,774,888 (+)NCBI
Sequence:
RefSeq Acc Id: NM_016996   ⟹   NP_058692
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21164,235,251 - 64,304,811 (+)NCBI
Rnor_6.01167,188,630 - 67,258,789 (+)NCBI
Rnor_5.01170,278,784 - 70,352,137 (+)NCBI
RGSC_v3.41166,084,169 - 66,153,292 (-)RGD
Celera1163,705,377 - 63,774,888 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058692   ⟸   NM_016996
- Peptide Label: precursor
- UniProtKB: P48442 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001296567   ⟸   NM_001309638
- Peptide Label: precursor
- UniProtKB: P48442 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070633   ⟸   ENSRNOT00000078341
RefSeq Acc Id: ENSRNOP00000003092   ⟸   ENSRNOT00000003092
RefSeq Acc Id: ENSRNOP00000069629   ⟸   ENSRNOT00000086097

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
11 67257688 67257689 T C snv WN/N (MCW), WKY/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2277 AgrOrtholog
Ensembl Genes ENSRNOG00000002265 Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000003092 UniProtKB/Swiss-Prot
  ENSRNOP00000069629 UniProtKB/Swiss-Prot
  ENSRNOP00000070633 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003092 UniProtKB/Swiss-Prot
  ENSRNOT00000078341 UniProtKB/Swiss-Prot
  ENSRNOT00000086097 UniProtKB/Swiss-Prot
Gene3D-CATH 2.10.50.30 UniProtKB/Swiss-Prot
InterPro ANF_lig-bd_rcpt UniProtKB/Swiss-Prot
  GPCR_3 UniProtKB/Swiss-Prot
  GPCR_3_9-Cys_dom UniProtKB/Swiss-Prot
  GPCR_3_9-Cys_sf UniProtKB/Swiss-Prot
  GPCR_3_C UniProtKB/Swiss-Prot
  GPCR_3_Ca_sens_rcpt-rel UniProtKB/Swiss-Prot
  GPCR_3_CS UniProtKB/Swiss-Prot
  Peripla_BP_I UniProtKB/Swiss-Prot
KEGG Report rno:24247 UniProtKB/Swiss-Prot
NCBI Gene 24247 ENTREZGENE
PANTHER PTHR24061 UniProtKB/Swiss-Prot
Pfam 7tm_3 UniProtKB/Swiss-Prot
  ANF_receptor UniProtKB/Swiss-Prot
  NCD3G UniProtKB/Swiss-Prot
PhenoGen Casr PhenoGen
PRINTS CASENSINGR UniProtKB/Swiss-Prot
  GPCRMGR UniProtKB/Swiss-Prot
PROSITE G_PROTEIN_RECEP_F3_1 UniProtKB/Swiss-Prot
  G_PROTEIN_RECEP_F3_2 UniProtKB/Swiss-Prot
  G_PROTEIN_RECEP_F3_3 UniProtKB/Swiss-Prot
  G_PROTEIN_RECEP_F3_4 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF53822 UniProtKB/Swiss-Prot
UniProt CASR_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Casr  calcium-sensing receptor      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization present at both the apical and basolateral surfaces of colonic surface and crypt cells 628315
gene_disease inactivating mutations have been described in familial hypocalciuric hypercalcemia (FHH) and neonatal severe hyperparathyroidism (NSHPT), activating mutations have been described in autosomal dominant hypoparathyroidism a 62420
gene_expression expressed in gastrointestinal tract, including colon 628315
gene_function G protein-coupled receptor, acts as a receptor for Ca2+, Mg 2+, trivalent, and polycations 62420
gene_function activatss PKC as well as the ERK1/2, p38 MAPK, and JNK pathways to regulate PTHrP release 1298591
gene_process may be a physiological receptor for Mg++ and polycations, such as spermine, at certain sites in the body 62420
gene_process mobilizes intracellular Ca2++ from IP3-sensitive stores and stimulates bile flow 62420
gene_process modulator of intestinal fluid secretion; mediates various cellualr processes including increases in intracellular Ca2+ and inositol 1,4,5-trisphosphate [Ins(1,4,5)P3], reductions in cellular cAMP, activation of mitogen-activated protein kinases, regulatio 628315
gene_process responds to extracellular Ca2+, Mg2+, Gd3+, and neomycin producing a characteristic activation of inositol phospholipid-dependent, intracellular Ca(2+)-induced Cl- currents 1298562
gene_product member of Family C of the superfamily of GPCRs 628315
gene_regulation responsive not only to divalent cations Ca++ and Mg ++ but also trivalent cations such as the transition metal, gadolinium (Gd+++) 62420
gene_regulation activation modulated by changes in ionic strength 62420
gene_regulation responsiveness to ligands potentiated by certain phenylalkylamine compounds and their deschloro derivatives 62420