Pth (parathyroid hormone) - Rat Genome Database

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Gene: Pth (parathyroid hormone) Rattus norvegicus
Analyze
Symbol: Pth
Name: parathyroid hormone
RGD ID: 3440
Description: Enables hormone activity; peptide hormone receptor binding activity; and type 1 parathyroid hormone receptor binding activity. Involved in several processes, including Rho protein signal transduction; negative regulation of chondrocyte differentiation; and regulation of bone mineralization. Located in extracellular space. Used to study several diseases, including chronic kidney disease; hyperphosphatemia; nephrocalcinosis; osteoporosis; and secondary hyperparathyroidism. Biomarker of autosomal dominant hypocalcemia; kidney failure (multiple); osteoporosis; and secondary hyperparathyroidism. Human ortholog(s) of this gene implicated in several diseases, including chronic kidney disease; diabetes mellitus (multiple); familial isolated hypoparathyroidism; hyperphosphatemia; and secondary hyperparathyroidism. Orthologous to human PTH (parathyroid hormone); PARTICIPATES IN parathyroid hormone signaling pathway; INTERACTS WITH 24,25-Dihydroxyvitamin D; 3',5'-cyclic AMP; 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: hypothalamic parathyroid hormone; parathyrin; PTH-(1-84); Pth1; Pthr1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21167,508,121 - 167,511,530 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1167,508,598 - 167,511,530 (-)Ensembl
Rnor_6.01178,215,829 - 178,218,761 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1178,215,829 - 178,218,761 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01185,183,456 - 185,186,388 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41171,240,596 - 171,243,528 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11171,360,529 - 171,363,462 (-)NCBI
Celera1165,378,267 - 165,381,199 (-)NCBICelera
Cytogenetic Map1q33NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
24,25-Dihydroxyvitamin D  (EXP,ISO)
3',5'-cyclic AMP  (EXP)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
8-Br-cAMP  (ISO)
adenine  (EXP)
alfacalcidol  (EXP)
aluminium atom  (ISO)
aluminium(0)  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP)
cadmium dichloride  (EXP)
calcidiol  (EXP)
calciol  (EXP,ISO)
calcitriol  (EXP,ISO)
calcium atom  (EXP,ISO)
calcium carbonate  (ISO)
calcium(0)  (EXP,ISO)
canagliflozin  (EXP)
captopril  (ISO)
cinacalcet  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
corticosterone  (EXP)
dexamethasone  (ISO)
ethanol  (EXP)
flavonoids  (EXP)
furosemide  (EXP)
hydrogen chloride  (ISO)
ketoconazole  (EXP)
lead diacetate  (EXP)
lithium atom  (EXP,ISO)
lithium carbonate  (ISO)
lithium hydride  (EXP,ISO)
Maxacalcitol  (EXP,ISO)
menaquinone  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
nickel atom  (ISO)
paricalcitol  (ISO)
phenytoin  (ISO)
phosphorus atom  (EXP)
phosphorus(.)  (EXP)
protein kinase inhibitor  (EXP)
raloxifene  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP,ISO)
tamoxifen  (EXP)
Terfenadine  (ISO)
theophylline  (EXP)
Trapidil  (EXP)
trichostatin A  (ISO)
uranium atom  (EXP)
vanadyl sulfate  (ISO)
vinclozolin  (EXP)
vitamin D  (ISO)
vitamin K  (ISO)
warfarin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of phospholipase C activity  (ISO)
adenylate cyclase-activating G protein-coupled receptor signaling pathway  (IDA,IMP,ISO)
bone mineralization  (ISO)
bone resorption  (TAS)
calcium ion homeostasis  (ISO)
cell-cell signaling  (IBA,IDA)
cellular calcium ion homeostasis  (IDA,ISO)
cellular macromolecule biosynthetic process  (ISO)
homeostasis of number of cells within a tissue  (ISO)
magnesium ion homeostasis  (ISO)
negative regulation of apoptotic process in bone marrow cell  (ISO)
negative regulation of bone mineralization involved in bone maturation  (IMP)
negative regulation of chondrocyte differentiation  (IMP)
negative regulation of gene expression  (ISO)
ossification  (TAS)
phosphate ion homeostasis  (ISO)
positive regulation of bone mineralization  (IDA,ISO)
positive regulation of cell proliferation in bone marrow  (ISO)
positive regulation of glucose import  (ISO,ISS)
positive regulation of glycogen biosynthetic process  (ISO,ISS)
positive regulation of inositol phosphate biosynthetic process  (ISO)
positive regulation of ossification  (IDA)
positive regulation of osteoclast proliferation  (ISO)
positive regulation of signal transduction  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of gene expression  (ISO)
response to cadmium ion  (IEP)
response to ethanol  (IEP)
response to fibroblast growth factor  (IEP)
response to lead ion  (IEP)
response to nutrient levels  (IEP)
response to parathyroid hormone  (IEP)
response to vitamin D  (IEP)
response to xenobiotic stimulus  (IEP)
Rho protein signal transduction  (IMP)

Cellular Component
extracellular space  (IBA,IDA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
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9. Duranton F, etal., Am J Nephrol. 2013 Mar 5;37(3):239-248.
10. Ellegaard M, etal., J Bone Miner Res. 2013 Apr 13. doi: 10.1002/jbmr.1957.
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12. Fisher A, etal., Clin Interv Aging. 2013;8:239-56. doi: 10.2147/CIA.S38856. Epub 2013 Feb 25.
13. Fisher JE, etal., Bone. 2012 Jun;50(6):1332-42. doi: 10.1016/j.bone.2012.03.004. Epub 2012 Mar 14.
14. Fujita T, etal., J Biol Chem 2002 Jun 21;277(25):22191-200.
15. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
16. Genetos DC, etal., J Orthop Res. 2012 Dec;30(12):1979-84. doi: 10.1002/jor.22172. Epub 2012 Jun 13.
17. GOA data from the GO Consortium
18. Gohda T, etal., Am J Kidney Dis. 2002 Jun;39(6):1255-60.
19. Gu WX, etal., Endocrinology 2001 Jan;142(1):157-64.
20. Gupta SP, etal., Asian Pac J Cancer Prev. 2013;14(1):325-7.
21. Haller M, etal., PLoS One. 2012;7(7):e39229. doi: 10.1371/journal.pone.0039229. Epub 2012 Jul 30.
22. Haq N, etal., Int Urol Nephrol. 2013 Mar 26.
23. Hassan HA, etal., Cytotechnology. 2012 Nov 18.
24. Hofman-Bang J, etal., Int J Nephrol. 2012;2012:123576. doi: 10.1155/2012/123576. Epub 2012 Oct 10.
25. Iida A, etal., Am J Nephrol. 2013 Mar 23;37(4):346-358.
26. Iida-Klein A, etal., J Biol Chem. 1997 Mar 14;272(11):6882-9.
27. Jung S, etal., J Hypertens. 2012 Nov;30(11):2182-91. doi: 10.1097/HJH.0b013e328357c049.
28. Kaiser E, etal., J Cell Biochem 2001;83(4):617-30.
29. Kawane T, etal., Biochem Biophys Res Commun 2001 Sep 21;287(2):313-22.
30. Kestenbaum B, etal., J Am Coll Cardiol. 2011 Sep 27;58(14):1433-41. doi: 10.1016/j.jacc.2011.03.069.
31. Kupraszewicz E and Brzoska MM, Chem Biol Interact. 2013 Jan 30;203(2):486-501. doi: 10.1016/j.cbi.2013.01.002.
32. Lanske B, etal., Endocrinology. 1998 Dec;139(12):5194-204.
33. Lee M and Partridge NC, Curr Opin Nephrol Hypertens. 2009 Jul;18(4):298-302. doi: 10.1097/MNH.0b013e32832c2264.
34. Lee YK, etal., Clin Nephrol. 2013 Feb;79(2):136-42. doi: 10.5414/CN107362.
35. Li M, etal., J Musculoskelet Neuronal Interact. 2001 Sep;2(1):77-83.
36. Lim AY, etal., Kidney Blood Press Res. 2012;35(6):438-44. doi: 10.1159/000336361. Epub 2012 Jun 6.
37. London GM, etal., J Am Soc Nephrol. 2008 Sep;19(9):1827-35. doi: 10.1681/ASN.2007050622. Epub 2008 May 14.
38. Mahon MJ Curr Drug Targets. 2012 Jan;13(1):116-28.
39. Massironi S, etal., Eur J Endocrinol. 2013 Feb 27.
40. Matsui I, etal., Am J Physiol Renal Physiol. 2013 Mar;304(6):F751-60. doi: 10.1152/ajprenal.00329.2012. Epub 2013 Jan 23.
41. MGD data from the GO Consortium
42. Miao Q, etal., Int J Mol Sci. 2012;13(1):56-70. doi: 10.3390/ijms13010056. Epub 2011 Dec 22.
43. Moe SM, etal., J Bone Miner Res. 2011 Nov;26(11):2672-81. doi: 10.1002/jbmr.485.
44. NCBI rat LocusLink and RefSeq merged data July 26, 2002
45. OMIM Disease Annotation Pipeline
46. Panuccio V, etal., BMC Nephrol. 2012 Oct 9;13:134. doi: 10.1186/1471-2369-13-134.
47. Parkinson DB and Thakker RV, Nat Genet. 1992 May;1(2):149-52.
48. Radeff JM, etal., J Bone Miner Res. 2004 Nov;19(11):1882-91. Epub 2004 Aug 16.
49. RGD automated data pipeline
50. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
51. RGD automated import pipeline for gene-chemical interactions
52. RGD comprehensive gene curation
53. Rodriguez-Ortiz ME, etal., J Am Soc Nephrol. 2012 Jul;23(7):1190-7. doi: 10.1681/ASN.2011101006. Epub 2012 May 10.
54. Roosens B, etal., Exp Gerontol. 2012 Aug;47(8):614-9. doi: 10.1016/j.exger.2012.05.012. Epub 2012 May 24.
55. Russell J, etal., J Bone Miner Res 1999 Nov;14(11):1828-37.
56. Saab G, etal., J Clin Endocrinol Metab. 2012 Dec;97(12):4414-21. doi: 10.1210/jc.2012-2001. Epub 2012 Oct 12.
57. Santana AC, etal., Nephrol Dial Transplant. 2013 Jan 22.
58. Scialla JJ, etal., J Am Soc Nephrol. 2013 Jan;24(1):125-35. doi: 10.1681/ASN.2012070713. Epub 2012 Dec 14.
59. Segawa H, etal., Am J Physiol Renal Physiol. 2009 Sep;297(3):F671-8. doi: 10.1152/ajprenal.00156.2009. Epub 2009 Jul 1.
60. Shimizu N, etal., J Biol Chem. 2001 Dec 28;276(52):49003-12. Epub 2001 Oct 16.
61. Silva AP, etal., J Diabetes Complications. 2013 Mar 22. pii: S1056-8727(13)00053-6. doi: 10.1016/j.jdiacomp.2013.02.007.
62. Takahashi F, etal., Biochem J. 1998 Jul 1;333 ( Pt 1):175-81.
63. Takenaka T, etal., Pflugers Arch. 2013 Mar 7.
64. van Ballegooijen AJ, etal., Am J Cardiol. 2013 Feb 1;111(3):418-24. doi: 10.1016/j.amjcard.2012.10.021. Epub 2012 Nov 17.
65. Vedralova M, etal., Kidney Blood Press Res. 2012;36(1):1-9. doi: 10.1159/000339021. Epub 2012 Jun 18.
66. Watanabe A, etal., J Toxicol Sci. 2012;37(3):617-29.
67. Wilson MC, etal., J Biol Chem. 2009 Jul 24;284(30):20011-21. doi: 10.1074/jbc.M109.014217. Epub 2009 May 27.
68. Wu-Wong JR, etal., Am J Nephrol. 2013 Mar 20;37(4):310-319.
69. Wu-Wong JR, etal., Life Sci. 2013 Feb 7;92(2):161-6. doi: 10.1016/j.lfs.2012.11.018. Epub 2012 Dec 19.
70. Youness ER, etal., Toxicol Mech Methods. 2012 Sep;22(7):560-7. doi: 10.3109/15376516.2012.702796.
71. Zeng M, etal., Ren Fail. 2012;34(3):358-63. doi: 10.3109/0886022X.2011.647341. Epub 2012 Jan 20.
72. Zhang Q, etal., J Am Soc Nephrol. 2011 Apr;22(4):664-72. Epub 2011 Feb 18.
Additional References at PubMed
PMID:90087   PMID:3628009   PMID:6321505   PMID:7588314   PMID:11606467   PMID:12488435   PMID:12581861   PMID:12631114   PMID:14514685   PMID:14517210   PMID:14672346   PMID:15514034  
PMID:15601867   PMID:15601870   PMID:15910753   PMID:16494524   PMID:17565271   PMID:17696759   PMID:17992255   PMID:18165223   PMID:18583400   PMID:19075196   PMID:19129257   PMID:19423655  
PMID:19628670   PMID:19674967   PMID:19723499   PMID:19968565   PMID:20097749   PMID:20627105   PMID:20971569   PMID:21048959   PMID:21076856   PMID:21209610   PMID:21343254   PMID:23344572  
PMID:24103811   PMID:24259513   PMID:24904057   PMID:24940803   PMID:26669699   PMID:27989797   PMID:29529595   PMID:29633272   PMID:33945189  


Genomics

Comparative Map Data
Pth
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21167,508,121 - 167,511,530 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1167,508,598 - 167,511,530 (-)Ensembl
Rnor_6.01178,215,829 - 178,218,761 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1178,215,829 - 178,218,761 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01185,183,456 - 185,186,388 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41171,240,596 - 171,243,528 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11171,360,529 - 171,363,462 (-)NCBI
Celera1165,378,267 - 165,381,199 (-)NCBICelera
Cytogenetic Map1q33NCBI
PTH
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1113,492,054 - 13,496,181 (-)EnsemblGRCh38hg38GRCh38
GRCh381113,492,054 - 13,496,181 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371113,513,601 - 13,517,728 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361113,470,177 - 13,474,143 (-)NCBINCBI36hg18NCBI36
Build 341113,470,177 - 13,474,143NCBI
Celera1113,639,772 - 13,643,738 (-)NCBI
Cytogenetic Map11p15.3NCBI
HuRef1113,193,715 - 13,197,681 (-)NCBIHuRef
CHM1_11113,512,571 - 13,516,537 (-)NCBICHM1_1
Pth
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397112,984,783 - 112,987,879 (-)NCBIGRCm39mm39
GRCm39 Ensembl7112,984,787 - 112,987,777 (-)Ensembl
GRCm387113,385,576 - 113,388,672 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7113,385,580 - 113,388,570 (-)EnsemblGRCm38mm10GRCm38
MGSCv377120,529,090 - 120,532,087 (-)NCBIGRCm37mm9NCBIm37
MGSCv367113,176,759 - 113,179,753 (-)NCBImm8
Celera7113,358,705 - 113,361,703 (-)NCBICelera
Cytogenetic Map7F1NCBI
cM Map759.19NCBI
Pth
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541428,825,651 - 28,831,117 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541428,828,389 - 28,831,417 (-)NCBIChiLan1.0ChiLan1.0
PTH
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11113,347,829 - 13,351,951 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1113,347,838 - 13,351,802 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01113,653,777 - 13,657,901 (-)NCBIMhudiblu_PPA_v0panPan3
PTH
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12136,417,062 - 36,419,967 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2136,417,058 - 36,419,967 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2135,920,892 - 35,923,798 (-)NCBI
ROS_Cfam_1.02137,300,338 - 37,303,244 (-)NCBI
UMICH_Zoey_3.12136,558,731 - 36,561,637 (-)NCBI
UNSW_CanFamBas_1.02136,734,945 - 36,737,853 (-)NCBI
UU_Cfam_GSD_1.02137,024,013 - 37,026,919 (-)NCBI
Pth
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494749,049,606 - 49,050,285 (+)NCBI
SpeTri2.0NW_0049365285,081,569 - 5,084,030 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTH
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl245,757,398 - 45,760,415 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1245,757,398 - 45,760,433 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2249,290,017 - 49,290,981 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTH
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1151,327,555 - 51,330,810 (+)NCBI
Vero_WHO_p1.0NW_023666038148,907,988 - 148,910,728 (+)NCBI
Pth
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247665,489,857 - 5,492,777 (-)NCBI

Position Markers
D1Wox35  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,512,327 - 167,512,481 (+)MAPPERmRatBN7.2
Rnor_6.01178,219,559 - 178,219,712NCBIRnor6.0
Rnor_5.01185,187,186 - 185,187,339UniSTSRnor5.0
RGSC_v3.41171,244,325 - 171,244,479RGDRGSC3.4
RGSC_v3.41171,244,326 - 171,244,479UniSTSRGSC3.4
RGSC_v3.11171,364,259 - 171,364,413RGD
Celera1165,381,997 - 165,382,150UniSTS
RH 3.4 Map11317.39UniSTS
RH 3.4 Map11317.39RGD
RH 2.0 Map1872.4RGD
Cytogenetic Map1q34UniSTS
D1Mco32  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,512,331 - 167,512,469 (+)MAPPERmRatBN7.2
Rnor_6.01178,219,563 - 178,219,700NCBIRnor6.0
Rnor_5.01185,187,190 - 185,187,327UniSTSRnor5.0
RGSC_v3.41171,244,329 - 171,244,467RGDRGSC3.4
RGSC_v3.41171,244,330 - 171,244,467UniSTSRGSC3.4
RGSC_v3.11171,364,263 - 171,364,401RGD
Celera1165,382,001 - 165,382,138UniSTS
Cytogenetic Map1q34UniSTS
D1Arb30  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,512,365 - 167,512,576 (+)MAPPERmRatBN7.2
Rnor_6.01178,219,597 - 178,219,807NCBIRnor6.0
Rnor_5.01185,187,224 - 185,187,434UniSTSRnor5.0
RGSC_v3.41171,244,363 - 171,244,574RGDRGSC3.4
RGSC_v3.41171,244,364 - 171,244,574UniSTSRGSC3.4
RGSC_v3.11171,364,297 - 171,364,508RGD
Celera1165,382,035 - 165,382,245UniSTS
Cytogenetic Map1q34UniSTS
Pth  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21167,508,848 - 167,509,264 (+)MAPPERmRatBN7.2
Rnor_6.01178,216,080 - 178,216,495NCBIRnor6.0
Rnor_5.01185,183,707 - 185,184,122UniSTSRnor5.0
RGSC_v3.41171,240,847 - 171,241,262UniSTSRGSC3.4
Celera1165,378,518 - 165,378,933UniSTS
Cytogenetic Map1q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164747424209747424Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1164747424209747424Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383635Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
737974Bp161Blood pressure QTL 1610.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1164747558181133855Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1156677124256448636Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642722214537671Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
631548Bp88Blood pressure QTL 8850.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1156677124176484451Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1144267916172949660Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1156677124201278233Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393243914901Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1164310393213533942Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1156677124218753816Rat
2312558Glom17Glomerulus QTL 173.90.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1166532971191278129Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1154561505199561505Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1582204Livw1Liver weight QTL 13.60.0003liver mass (VT:0003402)liver weight as percentage of body weight (CMO:0000141)1155422851172949803Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1158633083203633083Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144267916174133260Rat
4889428Stresp24Stress response QTL 240.05heart pumping trait (VT:2000009)absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)1155866514200866514Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:35
Count of miRNA genes:27
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000019199
Prediction methods: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 endocrine system hemolymphoid system nervous system reproductive system respiratory system
High
Medium
Low 2 7 7
Below cutoff 1 1 3 1 3 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019199   ⟹   ENSRNOP00000019199
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1167,508,598 - 167,511,530 (-)Ensembl
Rnor_6.0 Ensembl1178,215,829 - 178,218,761 (-)Ensembl
RefSeq Acc Id: NM_017044   ⟹   NP_058740
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,508,598 - 167,511,530 (-)NCBI
Rnor_6.01178,215,829 - 178,218,761 (-)NCBI
Rnor_5.01185,183,456 - 185,186,388 (-)NCBI
RGSC_v3.41171,240,596 - 171,243,528 (-)RGD
Celera1165,378,267 - 165,381,199 (-)RGD
Sequence:
RefSeq Acc Id: XM_039100789   ⟹   XP_038956717
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21167,508,121 - 167,509,807 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_058740   ⟸   NM_017044
- Peptide Label: precursor
- UniProtKB: P04089 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000019199   ⟸   ENSRNOT00000019199
RefSeq Acc Id: XP_038956717   ⟸   XM_039100789
- Peptide Label: isoform X1

Transcriptome

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

Promoters
RGD ID:6850034
Promoter ID:EP07108
Type:single initiation site
Name:RN_PTH
Description:Parathyroid hormone.
SO ACC ID:SO:0000170
Source:EPD (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Notes:homology_group=Homology group 171; Mammalian parathyroid hormone, promoter 1.
Tissues & Cell Lines:parathyroid gland
Experiment Methods:Nuclease protection with homologous sequence ladder; Sequencing of a full-length cDNA
Position:
Rat AssemblyChrPosition (strand)Source
RGSC_v3.41171,243,530 - 171,243,590EPD

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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: 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)
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
ACI/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
ACI/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
BBDP/Wor (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
BN-Lx/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
BN/SsN (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
BUF/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
BXH2/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/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
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)
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
F344/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
F344/NCrl (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
F344/NCrl (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
F344/NRrrc (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
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)
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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/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)
FHH/EurMcwi (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
FHL/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)
FHL/EurMcwi (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
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)
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)
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)
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
HXB10/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (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: 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)
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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
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)
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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
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)
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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
LEXF2B/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
LEXF3/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
LEXF4/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
LH/MavRrrc (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
LH/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (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
LL/MavRrrcAek (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: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (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
LN/MavRrrcAek (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: 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)
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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
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)
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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
MNS/Gib (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
MR/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
MR/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
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)
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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: 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)
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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
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)
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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
SHRSP/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
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)
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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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
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)
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
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)
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
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)
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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3440 AgrOrtholog
Ensembl Genes ENSRNOG00000014318 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000019199 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000019199 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro PTH UniProtKB/Swiss-Prot
  PTH/PTH-rel UniProtKB/Swiss-Prot
KEGG Report rno:24694 UniProtKB/Swiss-Prot
NCBI Gene 24694 ENTREZGENE
PANTHER PTHR10541 UniProtKB/Swiss-Prot
Pfam Parathyroid UniProtKB/Swiss-Prot
PhenoGen Pth PhenoGen
PIRSF PTH UniProtKB/Swiss-Prot
PROSITE PARATHYROID UniProtKB/Swiss-Prot
SMART PTH UniProtKB/Swiss-Prot
UniProt P04089 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q63473 UniProtKB/Swiss-Prot


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

RGD Curation Notes
Note Type Note Reference
gene_disease both inadequate and excessive secretion may lead to bone disorders 61525
gene_disease both inadequate and excessive secretion may lead to bone disorders 70297
gene_function induces intracellular calcium transients in osteoblastic cells, induces CREB phosphorylation through cAMP-dependent protein kinase A 61525
gene_function induces intracellular calcium transients in osteoblastic cells, induces CREB phosphorylation through cAMP-dependent protein kinase A 70297
gene_process stimulates anabolic and catabolic processes in bone 61525
gene_process stimulates anabolic and catabolic processes in bone 70297