Rgn (regucalcin) - Rat Genome Database

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Gene: Rgn (regucalcin) Rattus norvegicus
Analyze
Symbol: Rgn
Name: regucalcin
RGD ID: 3560
Description: Enables calcium ion binding activity and gluconolactonase activity. Involved in several processes, including negative regulation of nitrogen compound metabolic process; positive regulation of hydrolase activity; and positive regulation of lipid biosynthetic process. Located in cytosol and nucleus. Used to study familial hyperlipidemia. Biomarker of hepatocellular carcinoma. Orthologous to human RGN (regucalcin); PARTICIPATES IN ascorbate and aldarate metabolic pathway; pentose phosphate pathway; INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: gluconolactonase; GNL; Rc; Reguc; regucalcin (senescence marker protein-30); senescence marker protein 30; SMP-30
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SD-Tg(CAG-Rgn)Slc  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X1,619,030 - 1,634,456 (-)NCBImRatBN7.2
mRatBN7.2 EnsemblX1,619,032 - 1,634,450 (-)Ensembl
Rnor_6.0X1,833,484 - 1,848,904 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX1,833,492 - 1,848,904 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X2,626,525 - 2,641,949 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X13,037,171 - 13,052,846NCBIRGSC3.4rn4RGSC3.4
CeleraX2,182,952 - 2,198,371 (-)NCBICelera
Cytogenetic MapXq11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-chloropropane-1,2-diol  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
5-Hydroxythalidomide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid  (EXP)
Aroclor 1254  (ISO)
bacitracin  (EXP)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (EXP)
bexarotene  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
buta-1,3-diene  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
chromium trinitrate  (ISO)
cisplatin  (EXP)
clofibrate  (EXP,ISO)
clofibric acid  (EXP)
clotrimazole  (EXP)
cobalt dichloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
coumarin  (EXP)
cycloheximide  (ISO)
cyclosporin A  (EXP,ISO)
cyproconazole  (ISO)
decabromodiphenyl ether  (ISO)
dexamethasone  (EXP)
Diallyl sulfide  (EXP)
diclofenac  (EXP)
dicrotophos  (ISO)
diisopropyl fluorophosphate  (ISO)
dioscin  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP)
flavonoids  (EXP)
fumonisin B1  (ISO)
furan  (EXP)
Hexachloro-1,3-butadiene  (EXP)
hydrazine  (EXP)
indoxyl sulfate  (ISO)
melatonin  (ISO)
methapyrilene  (EXP)
methylmercury chloride  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP)
nimesulide  (EXP)
nitrofen  (EXP)
O-methyleugenol  (ISO)
ochratoxin A  (EXP)
paracetamol  (EXP,ISO)
paraquat  (EXP)
pent-4-enoic acid  (EXP)
perfluorododecanoic acid  (EXP)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
pioglitazone  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
polaprezinc  (ISO)
potassium chromate  (ISO)
potassium dichromate  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
propiconazole  (ISO)
Propiverine  (EXP)
quercetin  (ISO)
rac-1,2-dichloropropane  (ISO)
resveratrol  (EXP)
rotenone  (EXP)
sarin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP,ISO)
Soman  (ISO)
tacrolimus hydrate  (EXP)
tert-butyl hydroperoxide  (EXP)
testosterone  (EXP)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
tremolite asbestos  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
Triptolide  (ISO)
triptonide  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
zinc sulfate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
cellular calcium ion homeostasis  (IDA)
kidney development  (IEP)
L-ascorbic acid biosynthetic process  (IBA,ISO,ISS)
liver development  (IEP)
liver regeneration  (IEP)
negative regulation of apoptotic process  (IDA)
negative regulation of bone development  (IDA,IMP)
negative regulation of calcium-dependent ATPase activity  (IMP)
negative regulation of cyclic-nucleotide phosphodiesterase activity  (IDA)
negative regulation of DNA biosynthetic process  (IMP)
negative regulation of DNA catabolic process  (IDA)
negative regulation of epithelial cell proliferation  (IDA)
negative regulation of flagellated sperm motility  (IDA)
negative regulation of GTPase activity  (IMP)
negative regulation of leucine-tRNA ligase activity  (IDA)
negative regulation of nitric oxide biosynthetic process  (IMP)
negative regulation of phosphoprotein phosphatase activity  (IMP)
negative regulation of protein kinase activity  (IMP)
negative regulation of protein phosphorylation  (IMP)
negative regulation of RNA biosynthetic process  (IMP)
positive regulation of ATP-dependent activity  (IDA)
positive regulation of ATPase-coupled calcium transmembrane transporter activity  (IDA)
positive regulation of dUTP diphosphatase activity  (IDA)
positive regulation of fatty acid biosynthetic process  (IDA)
positive regulation of glucose metabolic process  (IDA)
positive regulation of GTPase activity  (IDA)
positive regulation of phosphatase activity  (IMP)
positive regulation of proteolysis involved in protein catabolic process  (IDA)
positive regulation of superoxide dismutase activity  (IDA)
positive regulation of triglyceride biosynthetic process  (IDA)
regulation of calcium-mediated signaling  (IDA)
spermatogenesis  (IDA)

Cellular Component
cytoplasm  (ISO,ISS)
cytosol  (IDA)
nucleus  (IDA,ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Regucalcin increases Ca2+-ATPase activity in the heart mitochondria of normal and regucalcin transgenic rats. Akhter T, etal., Int J Mol Med. 2006 Jul;18(1):171-6.
2. Gel-based proteomics of liver cancer progression in rat. Albrethsen J, etal., Biochim Biophys Acta. 2011 Oct;1814(10):1367-76. Epub 2011 Jun 6.
3. Sperm parameters and epididymis function in transgenic rats overexpressing the Ca2+-binding protein regucalcin: a hidden role for Ca2+ in sperm maturation? Correia S, etal., Mol Hum Reprod. 2013 Sep;19(9):581-9. doi: 10.1093/molehr/gat030. Epub 2013 Apr 23.
4. Isolation of cDNA clone encoding rat senescence marker protein-30 (SMP30) and its tissue distribution. Fujita T, etal., Biochim Biophys Acta 1992 Oct 20;1132(3):297-305.
5. Gene regulation of senescence marker protein-30 (SMP30): coordinated up-regulation with tissue maturation and gradual down-regulation with aging. Fujita T, etal., Mech Ageing Dev. 1996 Jun 25;87(3):219-29.
6. Overexpression of regucalcin suppresses apoptotic cell death in the cloned rat hepatoma H4-II-E cells induced by a naturally occurring isothiocyanate sulforaphane. Fukaya Y and Yamaguchi M, Int J Mol Med. 2005 May;15(5):853-7.
7. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Stimulatory effect of calcium-binding protein regucalcin on phosphatase activity in the brain cytosol of rats with different ages. Hanahisa Y and Yamaguchi M, Brain Res Bull. 1998 Jul 1;46(4):347-51.
9. Identification of a prognostic 5-Gene expression signature for gastric cancer. Hou JY, etal., J Cancer Res Clin Oncol. 2017 Apr;143(4):619-629. doi: 10.1007/s00432-016-2324-z. Epub 2016 Dec 29.
10. Regucalcin increases superoxide dismutase activity in the heart cytosol of normal and regucalcin transgenic rats. Ichikawa E and Yamaguchi M, Int J Mol Med. 2004 Oct;14(4):691-5.
11. Suppressive role of endogenous regucalcin in the enhancement of protein kinase activity with proliferation of cloned rat hepatoma cells (H4-II-E). Inagaki S and Yamaguchi M, J Cell Biochem Suppl. 2001;Suppl 36:12-8.
12. Regulatory role of endogenous regucalcin in the enhancement of nuclear deoxyribonuleic acid synthesis with proliferation of cloned rat hepatoma cells (H4-II-E). Inagaki S and Yamaguchi M, J Cell Biochem. 2001;82(4):704-11.
13. Role of endogenous regucalcin in protein tyrosine phosphatase regulation in the cloned rat hepatoma cells (H4-II-E). Inagaki S, etal., Mol Cell Biochem. 2000 Oct;213(1-2):43-50.
14. Hepatic calcium-binding protein regucalcin concentration is decreased by streptozotocin-diabetic state and ethanol ingestion in rats. Isogai M, etal., Mol Cell Biochem. 1997 Mar;168(1-2):67-72.
15. Inhibitory effect of calcium-binding protein regucalcin on protein kinase activity in the nuclei of regenerating rat liver. Katsumata T and Yamaguchi M, J Cell Biochem. 1998 Dec 15;71(4):569-76.
16. Senescence marker protein 30 functions as gluconolactonase in L-ascorbic acid biosynthesis, and its knockout mice are prone to scurvy. Kondo Y, etal., Proc Natl Acad Sci U S A. 2006 Apr 11;103(15):5723-8. Epub 2006 Apr 3.
17. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
18. Nuclear localization of regucalcin is enhanced in culture with protein kinase C activation in cloned normal rat kidney proximal tubular epithelial NRK52E cells. Nakagawa T and Yamaguchi M, Int J Mol Med. 2008 May;21(5):605-10.
19. Overexpression of regucalcin suppresses apoptotic cell death in cloned normal rat kidney proximal tubular epithelial NRK52E cells: change in apoptosis-related gene expression. Nakagawa T and Yamaguchi M, J Cell Biochem. 2005 Dec 15;96(6):1274-85.
20. Overexpression of regucalcin suppresses cell proliferation of cloned normal rat kidney proximal tubular epithelial NRK52E cells. Nakagawa T, etal., Int J Mol Med. 2005 Oct;16(4):637-43.
21. Overexpression of regucalcin enhances glucose utilization and lipid production in cloned rat hepatoma H4-II-E cells: Involvement of insulin resistance. Nakashima C and Yamaguchi M, J Cell Biochem. 2006 Dec 15;99(6):1582-92.
22. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Regulation of protein phosphatase activity by regucalcin localization in rat liver nuclei. Omura M and Yamaguchi M, J Cell Biochem. 1999 Dec 1;75(3):437-45.
24. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
25. GOA pipeline RGD automated data pipeline
26. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
27. Molecular cloning and sequencing of the cDNA coding for a calcium-binding protein regucalcin from rat liver. Shimokawa N and Yamaguchi M, FEBS Lett 1993 Aug 2;327(3):251-5.
28. Senescence marker protein 30 is up-regulated in kainate-induced hippocampal damage through ERK-mediated astrocytosis. Son TG, etal., J Neurosci Res. 2009 Oct;87(13):2890-7. doi: 10.1002/jnr.22122.
29. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
30. Stimulatory effect of regucalcin on ATP-dependent Ca(2+) uptake activity in rat liver mitochondria. Takahashi H and Yamaguchi M, J Cell Biochem. 2000 Apr;78(1):121-30.
31. Activatory effect of regucalcin on GTPase activity in rat liver plasma membranes. Takahashi H and Yamaguchi M, Mol Cell Biochem. 2001 Aug;224(1-2):117-22.
32. Inhibitory role of regucalcin in the regulation of nitric oxide synthase activity in rat brain cytosol: involvement of aging. Tobisawa M and Yamaguchi M, J Neurol Sci. 2003 May 15;209(1-2):47-54.
33. Suppressive effect of endogenous regucalcin on guanosine triphosphatase activity in rat liver nucleus. Tsurusaki Y and Yamaguchi M, Biol Pharm Bull. 2001 Aug;24(8):958-61.
34. Role of endogenous regucalcin in the regulation of Ca(2+)-ATPase activity in rat liver nuclei. Tsurusaki Y and Yamaguchi M, J Cell Biochem. 2000 Jun 12;78(4):541-9.
35. Role of endogenous regucalcin in nuclear regulation of regenerating rat liver: suppression of the enhanced ribonucleic acid synthesis activity. Tsurusaki Y and Yamaguchi M, J Cell Biochem. 2002;87(4):450-7.
36. Enhanced expression of calcium-binding protein regucalcin mRNA in regenerating rat liver. Yamaguchi M and Kanayama Y, J Cell Biochem. 1995 Feb;57(2):185-90.
37. Effect of calcium-binding protein regucalcin on hepatic protein synthesis: inhibition of aminoacyl-tRNA synthetase activity. Yamaguchi M and Mori S, Mol Cell Biochem. 1990 Dec 3;99(1):25-32.
38. Role of regucalcin as an activator of sarcoplasmic reticulum Ca2+-ATPase activity in rat heart muscle. Yamaguchi M and Nakajima R, J Cell Biochem 2002;86(1):184-93.
39. Inhibitory effect of calcium-binding protein regucalcin on Ca2(+)-activated DNA fragmentation in rat liver nuclei. Yamaguchi M and Sakurai T, FEBS Lett. 1991 Feb 25;279(2):281-4.
40. Reversible effect of calcium-binding protein regucalcin on the Ca(2+)-induced inhibition of deoxyuridine 5'-triphosphatase activity in rat liver cytosol. Yamaguchi M and Sakurai T, Mol Cell Biochem. 1992 Mar 4;110(1):25-9.
41. Inhibitory effect of calcium-binding protein regucalcin on Ca2+/calmodulin-dependent cyclic nucleotide phosphodiesterase activity in rat liver cytosol. Yamaguchi M and Tai H, Mol Cell Biochem. 1991 Jul 24;106(1):25-30.
42. Calcium-binding protein regucalcin increases calcium-independent proteolytic activity in rat liver cytosol. Yamaguchi M and Tai H, Mol Cell Biochem. 1992 May 13;112(1):89-95.
43. Expression of calcium-binding protein regucalcin mRNA in fetal rat liver is stimulated by calcium administration. Yamaguchi M and Ueoka S, Mol Cell Biochem. 1998 Jan;178(1-2):283-7.
44. Purification of calcium binding substance from soluble fraction of normal rat liver. Yamaguchi M and Yamamoto T, Chem Pharm Bull (Tokyo). 1978 Jun;26(6):1915-8.
45. Expression of Ca(2+)-binding protein regucalcin in rat brain neurons: inhibitory effect on protein phosphatase activity. Yamaguchi M, etal., Brain Res Bull. 2000 Jul 15;52(5):343-8.
46. Role of endogenous regucalcin in bone metabolism: bone loss is induced in regucalcin transgenic rats. Yamaguchi M, etal., Int J Mol Med. 2002 Oct;10(4):377-83.
47. Hyperlipidemia is induced in regucalcin transgenic rats with increasing age. Yamaguchi M, etal., Int J Mol Med. 2004 Oct;14(4):647-51.
48. Role of endogenous regucalcin in transgenic rats: suppression of kidney cortex cytosolic protein phosphatase activity and enhancement of heart muscle microsomal Ca2+-ATPase activity. Yamaguchi M, etal., J Cell Biochem 2002;86(3):520-9.
49. Novel protein RGPR-p117: the gene expression in physiologic state and the binding activity to regucalcin gene promoter region in rat liver. Yamaguchi M, etal., J Cell Biochem 2003 Apr 15;88(6):1092-100.
Additional References at PubMed
PMID:8569761   PMID:8979263   PMID:11936841   PMID:11967991   PMID:12368201   PMID:12647304   PMID:12851718   PMID:12851719   PMID:12964038   PMID:14767576   PMID:15108356   PMID:15251439  
PMID:15254778   PMID:15289895   PMID:15289899   PMID:15340235   PMID:15489334   PMID:15578574   PMID:16052480   PMID:16273285   PMID:16676356   PMID:16677110   PMID:16767692   PMID:17334641  
PMID:17671736   PMID:17912465   PMID:18157649   PMID:18181158   PMID:18442420   PMID:20329768   PMID:21347421   PMID:21431902   PMID:21680783   PMID:22652898   PMID:23349732   PMID:24519986  
PMID:26171977   PMID:26553531   PMID:27553527   PMID:29602294   PMID:33137709   PMID:35041836  


Genomics

Comparative Map Data
Rgn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X1,619,030 - 1,634,456 (-)NCBImRatBN7.2
mRatBN7.2 EnsemblX1,619,032 - 1,634,450 (-)Ensembl
Rnor_6.0X1,833,484 - 1,848,904 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX1,833,492 - 1,848,904 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X2,626,525 - 2,641,949 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X13,037,171 - 13,052,846NCBIRGSC3.4rn4RGSC3.4
CeleraX2,182,952 - 2,198,371 (-)NCBICelera
Cytogenetic MapXq11NCBI
RGN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X47,078,443 - 47,093,313 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 EnsemblX47,078,355 - 47,093,314 (+)EnsemblGRCh38hg38GRCh38
GRCh37X46,937,842 - 46,952,712 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X46,822,719 - 46,837,656 (+)NCBINCBI36hg18NCBI36
Build 34X46,696,510 - 46,708,966NCBI
CeleraX51,129,720 - 51,148,035 (+)NCBI
Cytogenetic MapXp11.3NCBI
HuRefX44,651,176 - 44,667,384 (+)NCBIHuRef
CHM1_1X46,969,564 - 46,984,507 (+)NCBICHM1_1
T2T-CHM13v2.0X46,485,437 - 46,503,065 (+)NCBI
Rgn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X20,416,005 - 20,428,328 (+)NCBIGRCm39mm39
GRCm39 EnsemblX20,416,026 - 20,428,328 (+)Ensembl
GRCm38X20,549,766 - 20,562,089 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX20,549,787 - 20,562,089 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X20,126,944 - 20,139,213 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X19,706,777 - 19,719,046 (+)NCBImm8
CeleraX18,681,357 - 18,693,626 (+)NCBICelera
Cytogenetic MapXA1.3NCBI
Rgn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955516955,680 - 978,910 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955516958,416 - 978,829 (-)NCBIChiLan1.0ChiLan1.0
RGN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X47,371,225 - 47,388,881 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX47,371,226 - 47,388,881 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X39,513,135 - 39,530,188 (+)NCBIMhudiblu_PPA_v0panPan3
RGN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X40,697,292 - 40,715,491 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX40,698,768 - 40,715,490 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX15,074,578 - 15,090,960 (+)NCBI
ROS_Cfam_1.0X40,818,343 - 40,849,916 (+)NCBI
ROS_Cfam_1.0 EnsemblX40,833,166 - 40,849,918 (+)Ensembl
UMICH_Zoey_3.1X40,806,174 - 40,837,694 (+)NCBI
UNSW_CanFamBas_1.0X40,793,810 - 40,825,378 (+)NCBI
UU_Cfam_GSD_1.0X40,886,864 - 40,918,439 (+)NCBI
Rgn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X33,032,122 - 33,050,817 (+)NCBI
SpeTri2.0NW_00493650212,872,938 - 12,891,270 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RGN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX41,726,526 - 41,749,726 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X41,725,660 - 41,749,736 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X46,902,494 - 46,926,414 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RGN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X44,282,825 - 44,299,027 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 EnsemblX44,285,601 - 44,299,258 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660769,539,184 - 9,555,388 (+)NCBIVero_WHO_p1.0
Rgn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248873,883,213 - 3,899,277 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248873,881,624 - 3,900,144 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
DXWox11  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X1,623,715 - 1,623,851 (+)MAPPERmRatBN7.2
Rnor_6.0X1,838,166 - 1,838,301NCBIRnor6.0
Rnor_5.0X2,631,211 - 2,631,346UniSTSRnor5.0
RGSC_v3.4X13,041,853 - 13,041,988UniSTSRGSC3.4
CeleraX2,187,634 - 2,187,769UniSTS
Cytogenetic MapXq11-q12UniSTS
RH142290  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X1,620,629 - 1,621,248 (+)MAPPERmRatBN7.2
Rnor_6.0X1,835,084 - 1,835,702NCBIRnor6.0
Rnor_5.0X2,628,129 - 2,628,747UniSTSRnor5.0
RGSC_v3.4X13,038,771 - 13,039,389UniSTSRGSC3.4
CeleraX2,184,552 - 2,185,170UniSTS
Cytogenetic MapXq11-q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
70166Bp65Blood pressure QTL 655.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144797211374346Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat


Related Rat Strains
The following Strains have been annotated to Rgn

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:588
Count of miRNA genes:268
Interacting mature miRNAs:337
Transcripts:ENSRNOT00000010984
Prediction methods:Microtar, Miranda, Pita
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 3 3 3
Medium 44 36 36 25 3 1
Low 3 43 10 2 13 2 8 11 70 10 36 10 8
Below cutoff 6 4 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000010984   ⟹   ENSRNOP00000010984
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX1,619,032 - 1,634,450 (-)Ensembl
Rnor_6.0 EnsemblX1,833,492 - 1,848,904 (-)Ensembl
RefSeq Acc Id: NM_031546   ⟹   NP_113734
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2X1,619,030 - 1,634,456 (-)NCBI
Rnor_6.0X1,833,484 - 1,848,904 (-)NCBI
Rnor_5.0X2,626,525 - 2,641,949 (-)NCBI
RGSC_v3.4X13,037,171 - 13,052,846 (-)RGD
CeleraX2,182,952 - 2,198,371 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_113734   ⟸   NM_031546
- UniProtKB: Q03336 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000010984   ⟸   ENSRNOT00000010984

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q03336-F1-model_v2 AlphaFold Q03336 1-299 view protein structure

Transcriptome

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

Promoters
RGD ID:13701698
Promoter ID:EPDNEW_R12222
Type:multiple initiation site
Name:Rgn_1
Description:regucalcin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X1,848,910 - 1,848,970EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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
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
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
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
BUF/N (2020)
Visual CSV TAB Printer
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
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
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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
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
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
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/Stm (2019)
Visual CSV TAB Printer
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
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
GK/FarMcwi (2019)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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
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
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
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
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)
Visual CSV TAB Printer
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
LEW/Crl (2019)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
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
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
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
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/NRrrcMcwi (2019)
Visual CSV TAB Printer
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
MR/N (2020)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
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
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
SR/JrHsd (2020)
Visual CSV TAB Printer
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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
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
WAG/RijCrl (2020)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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/NCrl (2019)
Visual CSV TAB Printer
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
WN/N (2020)
Visual CSV TAB Printer
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3560 AgrOrtholog
BioCyc Gene G2FUF-3182 BioCyc
BioCyc Pathway PWY3DJ-35471 [L-ascorbate biosynthesis IV (animals, D-glucuronate pathway)] BioCyc
Ensembl Genes ENSRNOG00000007949 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000010984 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000010984 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.120.10.30 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7126233 IMAGE-MGC_LOAD
InterPro 6-blade_b-propeller_TolB-like UniProtKB/Swiss-Prot
  Regucalcin UniProtKB/Swiss-Prot
  SGL UniProtKB/Swiss-Prot
  SMP-30 UniProtKB/Swiss-Prot
KEGG Report rno:25106 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93360 IMAGE-MGC_LOAD
NCBI Gene 25106 ENTREZGENE
Pfam SGL UniProtKB/Swiss-Prot
PhenoGen Rgn PhenoGen
PRINTS REGUCALCIN UniProtKB/Swiss-Prot
  SMP30FAMILY UniProtKB/Swiss-Prot
UniProt Q03336 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q63496 UniProtKB/Swiss-Prot
  Q925W3 UniProtKB/Swiss-Prot
  Q9QWP2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-07 Rgn  regucalcin  Rgn  regucalcin (senescence marker protein-30)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Rgn  regucalcin (senescence marker protein-30)  Rgn  regucalcin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Rgn  Regucalcin      Symbol and Name status set to approved 70586 APPROVED