Grn (granulin precursor) - Rat Genome Database

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Gene: Grn (granulin precursor) Rattus norvegicus
Analyze
Symbol: Grn
Name: granulin precursor
RGD ID: 61983
Description: Predicted to have chaperone binding activity. Involved in several processes, including chondrocyte proliferation; positive regulation of dendritic spine development; and response to estradiol. Predicted to localize to several cellular components, including late endosome; lysosomal membrane; and trans-Golgi network. Biomarker of status epilepticus. Human ortholog(s) of this gene implicated in dementia (multiple); neurodegenerative disease (multiple); and neuronal ceroid lipofuscinosis 11. Orthologous to human GRN (granulin precursor); INTERACTS WITH 1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane; 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: acrogranin; epithelin; granulin; granulins; PEPI; PGRN; proepithelin; progranulin; progranulin ; prostate cancer cell-derived growth factor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21087,387,672 - 87,393,777 (+)NCBI
Rnor_6.0 Ensembl1090,376,933 - 90,383,205 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01090,377,103 - 90,383,207 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01090,165,634 - 90,171,738 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41091,536,135 - 91,542,239 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11091,552,883 - 91,556,599 (+)NCBI
Celera1086,096,583 - 86,102,687 (+)NCBICelera
Cytogenetic Map10q32.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-methylcholine  (ISO)
3',5'-cyclic AMP  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
astaxanthin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) adipate  (EXP)
bisphenol A  (EXP,ISO)
butan-1-ol  (ISO)
butyric acid  (EXP)
carbon nanotube  (ISO)
carmustine  (ISO)
chlorogenic acid  (ISO)
chloropicrin  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diisononyl phthalate  (EXP)
dimethyl sulfoxide  (ISO)
dimethylarsinic acid  (EXP)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
felbamate  (EXP)
fenamidone  (ISO)
flavonoids  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fumonisin B1  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (EXP)
hypochlorous acid  (ISO)
L-ascorbic acid  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
lithium chloride  (ISO)
LY294002  (EXP)
menadione  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
N-nitrosodimethylamine  (EXP)
nickel dichloride  (EXP)
nimesulide  (EXP)
nitroglycerin  (EXP)
Osajin  (ISO)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
Pomiferin  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
selenium atom  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulindac  (ISO)
sulindac sulfide  (ISO)
T-2 toxin  (ISO)
tacrolimus hydrate  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
wortmannin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
astrocyte activation involved in immune response  (ISO,ISS)
blastocyst hatching  (ISO)
chondrocyte proliferation  (IMP)
embryo implantation  (ISO)
locomotory exploration behavior  (ISO)
lysosomal lumen acidification  (IEA,ISO,ISS)
lysosomal protein catabolic process  (ISO)
lysosomal transport  (IEA,ISO,ISS)
lysosome organization  (ISO,ISS)
male mating behavior  (IMP)
microglial cell activation involved in immune response  (ISO,ISS)
negative regulation of hydrolase activity  (ISO)
negative regulation of inflammatory response  (ISO,ISS)
negative regulation of innate immune response  (ISO,ISS)
negative regulation of microglial cell activation  (ISO,ISS)
negative regulation of neuron apoptotic process  (IEA,ISO,ISS)
negative regulation of neutrophil activation  (IEA,ISO,ISS)
negative regulation of respiratory burst involved in inflammatory response  (IEA,ISO,ISS)
neural precursor cell proliferation  (IMP)
positive regulation of angiogenesis  (ISO,ISS)
positive regulation of aspartic-type peptidase activity  (IEA,ISO,ISS)
positive regulation of axon regeneration  (ISO,ISS)
positive regulation of cell migration  (IEA,ISO)
positive regulation of cell population proliferation  (ISO,ISS)
positive regulation of defense response to bacterium  (ISO,ISS)
positive regulation of dendritic spine development  (IMP)
positive regulation of endothelial cell migration  (ISO,ISS)
positive regulation of epithelial cell proliferation  (IEA,ISO,ISS)
positive regulation of inflammatory response to wounding  (ISO,ISS)
positive regulation of lysosome organization  (IEA,ISO,ISS)
positive regulation of neuron apoptotic process  (ISO,ISS)
positive regulation of neuron projection development  (IMP)
positive regulation of protein folding  (ISO,ISS)
protein stabilization  (IEA,ISO,ISS)
regulation of inflammatory response  (IBA)
regulation of lysosome organization  (ISO)
response to estradiol  (IDA)
retina development in camera-type eye  (ISO)
signal transduction  (IEA)
synaptic vesicle endocytosis  (IMP)

Cellular Component
cellular_component  (ND)
endoplasmic reticulum  (IEA,ISO,ISS)
endosome  (ISO)
extracellular region  (IBA,IEA,ISO,ISS)
extracellular space  (IEA,ISO)
Golgi apparatus  (IEA,ISO,ISS)
late endosome  (IEA,ISO,ISS)
lysosomal membrane  (IEA,ISO,ISS)
lysosome  (ISO,ISS)
membrane  (ISO,ISS)
plasma membrane  (IEA,ISO,ISS)
presynapse  (IEA)
trans-Golgi network  (ISO,ISS)
vesicle  (ISO,ISS)

Molecular Function
chaperone binding  (IEA,ISO,ISS)
cytokine activity  (IEA)
protein binding  (IPI,ISO)

References

References - curated
1. Al-Ayadhi LY and Mostafa GA, J Neuroinflammation. 2011 Sep 5;8:111.
2. Baker M, etal., Nature. 2006 Aug 24;442(7105):916-9. Epub 2006 Jul 16.
3. Bhandari V, etal., Endocrinology 1993 Dec;133(6):2682-9.
4. Bronner IF, etal., Eur J Hum Genet. 2007 Mar;15(3):369-74. Epub 2007 Jan 17.
5. Brouwers N, etal., Neurology. 2008 Aug 26;71(9):656-64. Epub 2008 Jun 18.
6. Chen-Plotkin AS, etal., Acta Neuropathol. 2010 Jan;119(1):111-22. Epub 2009 Aug 2.
7. Chiang HH, etal., Alzheimers Dement. 2008 Nov;4(6):414-20.
8. Chiba S, etal., J Reprod Dev. 2007 Apr;53(2):297-307. Epub 2006 Dec 20.
9. Cruchaga C, etal., Arch Neurol. 2011 May;68(5):581-6. Epub 2011 Jan 10.
10. Dickson DW, etal., Neurodegener Dis. 2010;7(1-3):170-4. Epub 2010 Mar 3.
11. Egashira Y, etal., J Neuroinflammation. 2013 Aug 23;10:105. doi: 10.1186/1742-2094-10-105.
12. Fenoglio C, etal., Genes Immun. 2010 Sep;11(6):497-503. Epub 2010 May 13.
13. Finch N, etal., Brain. 2009 Mar;132(Pt 3):583-91. doi: 10.1093/brain/awn352. Epub 2009 Jan 21.
14. Galimberti D, etal., Neurol Sci. 2013 Jun;34(6):899-903. doi: 10.1007/s10072-012-1151-5. Epub 2012 Jul 14.
15. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
16. Ghoshal N, etal., Neurobiol Dis. 2011 Sep 10.
17. Jasinska-Myga B, etal., Eur J Neurol. 2009 Aug;16(8):909-11. doi: 10.1111/j.1468-1331.2009.02621.x. Epub 2009 Mar 31.
18. Kelley BJ, etal., Arch Neurol. 2010 Feb;67(2):171-7.
19. Kittel-Schneider S, etal., J Affect Disord. 2014 Mar;157:87-91. doi: 10.1016/j.jad.2014.01.006. Epub 2014 Jan 25.
20. Kojima Y, etal., Atherosclerosis. 2009 Sep;206(1):102-8. Epub 2009 Feb 23.
21. Lopez de Munain A, etal., Biol Psychiatry. 2008 May 15;63(10):946-52. Epub 2007 Oct 22.
22. Mateo I, etal., Eur J Neurol. 2013 Dec;20(12):1571-3. doi: 10.1111/ene.12090. Epub 2013 Feb 9.
23. MGD data from the GO Consortium
24. Mukherjee O, etal., Ann Neurol. 2006 Sep;60(3):314-22.
25. Naphade SB, etal., Acta Neuropathol. 2010 Jan;119(1):123-33. Epub 2009 Nov 28.
26. NCBI rat LocusLink and RefSeq merged data July 26, 2002
27. OMIM Disease Annotation Pipeline
28. Pereson S, etal., J Pathol. 2009 Oct;219(2):173-81.
29. Philips T, etal., J Neuropathol Exp Neurol. 2010 Dec;69(12):1191-200.
30. Pickering-Brown SM, etal., Brain. 2008 Mar;131(Pt 3):721-31. doi: 10.1093/brain/awm331. Epub 2008 Jan 11.
31. Plowman GD, etal., J Biol Chem 1992 Jun 25;267(18):13073-8.
32. RGD automated data pipeline
33. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
34. RGD automated import pipeline for gene-chemical interactions
35. RGD comprehensive gene curation
36. Skoglund L, etal., Neurogenetics. 2009 Feb;10(1):27-34. Epub 2008 Oct 15.
37. Sleegers K, etal., Neurology. 2008 Jul 22;71(4):253-9. Epub 2008 Jan 9.
38. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
39. Suzuki M, etal., Physiol Behav. 2000 Mar;68(5):707-13.
40. Tang W, etal., Science. 2011 Apr 22;332(6028):478-84. Epub 2011 Mar 10.
41. Tapia L, etal., J Neurosci. 2011 Aug 3;31(31):11126-32.
42. Vercellino M, etal., Mult Scler. 2011 Oct;17(10):1194-201. Epub 2011 May 25.
43. Viswanathan J, etal., Am J Med Genet B Neuropsychiatr Genet. 2009 Jul 5;150B(5):747-50. doi: 10.1002/ajmg.b.30889.
44. Xu K, etal., J Biol Chem. 2007 Apr 13;282(15):11347-55. Epub 2007 Feb 15.
45. Zhu S, etal., Brain Res. 2013 Sep 12;1530:54-65. doi: 10.1016/j.brainres.2013.07.023. Epub 2013 Jul 22.
Additional References at PubMed
PMID:2236009   PMID:2268320   PMID:11068878   PMID:12524533   PMID:12526812   PMID:14651853   PMID:15901638   PMID:16493179   PMID:18378771   PMID:20026663   PMID:20479936   PMID:21092856  
PMID:22206666   PMID:22658674   PMID:23041626   PMID:23376485   PMID:23533145   PMID:24006456   PMID:24046442   PMID:24625528   PMID:26370502   PMID:27571908   PMID:27789271   PMID:28073925  
PMID:28453791   PMID:28541286   PMID:28609022   PMID:28743268   PMID:29665049   PMID:29992506   PMID:31640144  


Genomics

Comparative Map Data
Grn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21087,387,672 - 87,393,777 (+)NCBI
Rnor_6.0 Ensembl1090,376,933 - 90,383,205 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01090,377,103 - 90,383,207 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01090,165,634 - 90,171,738 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41091,536,135 - 91,542,239 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11091,552,883 - 91,556,599 (+)NCBI
Celera1086,096,583 - 86,102,687 (+)NCBICelera
Cytogenetic Map10q32.1NCBI
GRN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1744,345,246 - 44,353,106 (+)EnsemblGRCh38hg38GRCh38
GRCh381744,345,302 - 44,353,106 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371742,422,670 - 42,430,474 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361739,778,017 - 39,785,996 (+)NCBINCBI36hg18NCBI36
Build 341739,778,016 - 39,785,996NCBI
Celera1739,132,112 - 39,140,095 (+)NCBI
Cytogenetic Map17q21.31NCBI
HuRef1738,186,768 - 38,194,753 (+)NCBIHuRef
CHM1_11742,658,129 - 42,666,150 (+)NCBICHM1_1
Grn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911102,321,333 - 102,327,635 (+)NCBIGRCm39mm39
GRCm39 Ensembl11102,321,141 - 102,327,874 (+)Ensembl
GRCm3811102,430,507 - 102,436,809 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11102,430,315 - 102,437,048 (+)EnsemblGRCm38mm10GRCm38
MGSCv3711102,291,636 - 102,298,123 (+)NCBIGRCm37mm9NCBIm37
MGSCv3611102,246,597 - 102,252,895 (+)NCBImm8
Celera11114,140,482 - 114,146,970 (+)NCBICelera
Cytogenetic Map11DNCBI
cM Map1166.29NCBI
Grn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545117,368,428 - 17,372,377 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545117,368,600 - 17,371,981 (+)NCBIChiLan1.0ChiLan1.0
GRN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11713,211,784 - 13,219,793 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1713,211,784 - 13,219,609 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01713,046,329 - 13,054,236 (-)NCBIMhudiblu_PPA_v0panPan3
GRN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1919,077,430 - 19,085,443 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl919,077,427 - 19,082,268 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha918,467,174 - 18,474,620 (-)NCBI
ROS_Cfam_1.0919,771,801 - 19,779,240 (-)NCBI
UMICH_Zoey_3.1918,625,608 - 18,633,045 (-)NCBI
UNSW_CanFamBas_1.0918,808,582 - 18,816,025 (-)NCBI
UU_Cfam_GSD_1.0918,952,849 - 18,960,290 (-)NCBI
Grn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560218,390,156 - 18,401,106 (-)NCBI
SpeTri2.0NW_004936541793,548 - 800,271 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GRN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1218,893,770 - 18,900,446 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11218,893,772 - 18,900,444 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21219,212,414 - 19,216,283 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GRN
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11662,037,344 - 62,045,765 (-)NCBI
ChlSab1.1 Ensembl1662,036,412 - 62,045,614 (-)Ensembl
Vero_WHO_p1.0NW_02366607732,804,031 - 32,812,724 (-)NCBI
Grn
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624795704,066 - 708,721 (-)NCBI

Position Markers
D10Wox31  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21087,393,632 - 87,393,760 (+)MAPPER
Rnor_6.01090,383,063 - 90,383,190NCBIRnor6.0
Rnor_5.01090,171,594 - 90,171,721UniSTSRnor5.0
RGSC_v3.41091,542,095 - 91,542,222UniSTSRGSC3.4
Celera1086,102,543 - 86,102,670UniSTS
Cytogenetic Map10q32.1UniSTS
D10Wox30  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21087,393,676 - 87,393,763 (+)MAPPER
Rnor_6.01090,383,107 - 90,383,193NCBIRnor6.0
Rnor_5.01090,171,638 - 90,171,724UniSTSRnor5.0
RGSC_v3.41091,542,139 - 91,542,225UniSTSRGSC3.4
Celera1086,102,587 - 86,102,673UniSTS
Cytogenetic Map10q32.1UniSTS
RH128403  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21087,393,473 - 87,393,670 (+)MAPPER
Rnor_6.01090,382,904 - 90,383,100NCBIRnor6.0
Rnor_5.01090,171,435 - 90,171,631UniSTSRnor5.0
RGSC_v3.41091,541,936 - 91,542,132UniSTSRGSC3.4
Celera1086,102,384 - 86,102,580UniSTS
Cytogenetic Map10q32.1UniSTS
D16195  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21087,393,599 - 87,393,772 (+)MAPPER
Rnor_6.01090,383,030 - 90,383,202NCBIRnor6.0
Rnor_5.01090,171,561 - 90,171,733UniSTSRnor5.0
RGSC_v3.41091,542,062 - 91,542,234UniSTSRGSC3.4
Celera1086,102,510 - 86,102,682UniSTS
Cytogenetic Map10q32.1UniSTS
RH138782  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21087,389,133 - 87,389,267 (+)MAPPER
Rnor_6.01090,378,564 - 90,378,697NCBIRnor6.0
Rnor_5.01090,167,095 - 90,167,228UniSTSRnor5.0
RGSC_v3.41091,537,596 - 91,537,729UniSTSRGSC3.4
Celera1086,098,044 - 86,098,177UniSTS
RH 3.4 Map10879.99UniSTS
Cytogenetic Map10q32.1UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104684834691848346Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104684834691848346Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104684834691848346Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)105063833795638337Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105310471898104718Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1053621375112626471Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1053621375112626471Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105362581598939209Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105363748594807701Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)1055224855100224855Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1055678976112626471Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)1055679084102427604Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1056698730101698730Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1060450007105450007Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1060875260105875260Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1060875260105875260Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1060875260105875260Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1062096293107096293Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)1064648175101691360Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)1064648175102149713Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1064648175102149713Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1065590122110590122Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1065992275110992275Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1065992275110992275Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1067880046112626471Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1067988218110992091Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1069123603101482600Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1069385595112626471Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1069385595112626471Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1070166960112626471Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1070800069112626471Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1071692298112626471Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1073008136112626471Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1073008136112626471Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1073008136112626471Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1073467158112626471Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107504539197308358Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1075544754112626471Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1075544754112626471Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107598380599492217Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107598380599492217Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107705574198282519Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107897027998282519Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1078970279112626471Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1079927661112626471Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1080239190112626471Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)1081515116101758478Rat
631555Bp134Blood pressure QTL 1340.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)108338982894488181Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1083389828104994768Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1085079943112626471Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108551382295638337Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1086566908112626471Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108696256399303173Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108696256399303173Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)108697786197308569Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1088544136107545372Rat
631538Oia5Oil induced arthritis QTL 5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1090041957112626471Rat
2313856Bp342Blood pressure QTL 3424.40.0001life span trait (VT:0005372)age at time of death (CMO:0001193)109029689799492409Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1090296897112626471Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:249
Count of miRNA genes:145
Interacting mature miRNAs:169
Transcripts:ENSRNOT00000028557, ENSRNOT00000040472
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000028557   ⟹   ENSRNOP00000028557
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1090,376,933 - 90,383,205 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000040472   ⟹   ENSRNOP00000043881
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1090,377,103 - 90,383,205 (+)Ensembl
RefSeq Acc Id: NM_001145842   ⟹   NP_001139314
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21087,387,672 - 87,393,777 (+)NCBI
Rnor_6.01090,377,103 - 90,383,207 (+)NCBI
Rnor_5.01090,165,634 - 90,171,738 (+)NCBI
RGSC_v3.41091,536,135 - 91,542,239 (+)RGD
Celera1086,096,583 - 86,102,687 (+)RGD
Sequence:
RefSeq Acc Id: NM_017113   ⟹   NP_058809
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21087,387,672 - 87,393,777 (+)NCBI
Rnor_6.01090,377,103 - 90,383,207 (+)NCBI
Rnor_5.01090,165,634 - 90,171,738 (+)NCBI
RGSC_v3.41091,536,135 - 91,542,239 (+)RGD
Celera1086,096,583 - 86,102,687 (+)RGD
Sequence:
RefSeq Acc Id: XM_008767981   ⟹   XP_008766203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21087,387,752 - 87,393,762 (+)NCBI
Rnor_6.01090,377,173 - 90,383,103 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_058809   ⟸   NM_017113
- Peptide Label: isoform a precursor
- UniProtKB: P23785 (UniProtKB/Swiss-Prot),   G3V8V1 (UniProtKB/TrEMBL),   Q6IN42 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001139314   ⟸   NM_001145842
- Peptide Label: isoform b precursor
- UniProtKB: F1LMP7 (UniProtKB/TrEMBL),   Q6IN42 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008766203   ⟸   XM_008767981
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000028557   ⟸   ENSRNOT00000028557
RefSeq Acc Id: ENSRNOP00000043881   ⟸   ENSRNOT00000040472
Protein Domains
GRANULINS

Transcriptome

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

Promoters
RGD ID:13697788
Promoter ID:EPDNEW_R8312
Type:initiation region
Name:Grn_1
Description:granulin precursor
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_6.01090,377,118 - 90,377,178EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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
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/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
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/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/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (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
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (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:61983 AgrOrtholog
Ensembl Genes ENSRNOG00000021031 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000028557 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000043881 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000028557 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000040472 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.10.20.500 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7098196 IMAGE-MGC_LOAD
InterPro Granulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Granulin_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Granulin_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29143 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:91745 IMAGE-MGC_LOAD
NCBI Gene 29143 ENTREZGENE
PANTHER PTHR12274 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Granulin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Grn PhenoGen
PROSITE GRANULINS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART GRAN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1LMP7 ENTREZGENE, UniProtKB/TrEMBL
  G3V8V1 ENTREZGENE, UniProtKB/TrEMBL
  GRN_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6IN42 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-10-20 Grn  granulin precursor  Grn  granulin  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Grn  granulin      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein epithelin precursor is processed to epithelin 1 and epithelin 2 proteins 61623