Bnip3 (BCL2 interacting protein 3) - Rat Genome Database
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Gene: Bnip3 (BCL2 interacting protein 3) Rattus norvegicus
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Symbol: Bnip3
Name: BCL2 interacting protein 3
RGD ID: 620800
Description: Exhibits identical protein binding activity. Involved in several processes, including cardiac muscle cell apoptotic process; central nervous system development; and positive regulation of cell death. Localizes to dendrite; mitochondrion; and nucleoplasm. Used to study congestive heart failure. Biomarker of several diseases, including cerebrovascular disease (multiple); chronic obstructive pulmonary disease; end stage renal disease; obesity; and retinal detachment. Orthologous to human BNIP3 (BCL2 interacting protein 3); PARTICIPATES IN hypoxia inducible factor pathway; intrinsic apoptotic pathway; mitochondrial autophagy pathway; INTERACTS WITH (+)-pilocarpine; (+)-schisandrin B; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: BCL2/adenovirus E1B 19 kDa protein-interacting protein 3; BCL2/adenovirus E1B 19 kDa-interacting protein 3; BCL2/adenovirus E1B 19 kDa-interacting protein 3, nuclear gene for mitochondrial product; BCL2/adenovirus E1B interacting protein 3; MGC93043
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Bnip3-ps1  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01211,248,098 - 211,265,282 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1211,248,098 - 211,265,282 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01218,174,697 - 218,191,883 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41198,683,009 - 198,700,075 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11198,833,000 - 198,850,067 (-)NCBI
Celera1191,399,941 - 191,417,104 (-)NCBICelera
Cytogenetic Map1q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-dexrazoxane  (ISO)
(+)-epicatechin-3-O-gallate  (ISO)
(+)-pilocarpine  (EXP)
(+)-schisandrin B  (EXP)
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (ISO)
1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one  (ISO)
1H-pyrazole  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrobenzenesulfonic acid  (ISO)
2-hydroxypropanoic acid  (ISO)
2-methoxyethanol  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3-methyladenine  (ISO)
4-hydroxynon-2-enal  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (EXP)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
actinomycin D  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (EXP)
ammonium chloride  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (EXP,ISO)
atrazine  (ISO)
bafilomycin A1  (ISO)
benzbromarone  (EXP)
benzene  (EXP)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bezafibrate  (ISO)
bicalutamide  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
buspirone  (EXP)
butan-1-ol  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
capsaicin  (ISO)
captan  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chloroacetaldehyde  (ISO)
chloropicrin  (ISO)
chloroquine  (ISO)
chlorpromazine  (EXP)
ciguatoxin CTX1B  (ISO)
cisplatin  (EXP,ISO)
clodronic acid  (ISO)
clofibrate  (EXP)
cobalt atom  (EXP,ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (ISO)
concanamycin A  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cycloheximide  (ISO)
cyclosporin A  (EXP,ISO)
cyfluthrin  (ISO)
cypermethrin  (ISO)
deoxycholic acid  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (EXP,ISO)
diazinon  (EXP,ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (ISO)
dieldrin  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (EXP,ISO)
dopamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
erlotinib hydrochloride  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fenamidone  (ISO)
fenofibrate  (EXP)
fluoranthene  (ISO)
flurbiprofen  (ISO)
folic acid  (ISO)
folpet  (ISO)
formaldehyde  (ISO)
gallic acid  (ISO)
gallocatechin  (ISO)
gefitinib  (ISO)
genistein  (EXP)
geraniol  (ISO)
glutathione  (ISO)
glyphosate  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
ibuprofen  (EXP)
ifosfamide  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isobutanol  (ISO)
isoflurane  (EXP)
isoprenaline  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
ketoconazole  (EXP)
L-ethionine  (EXP)
lapatinib  (ISO)
leflunomide  (EXP)
lipopolysaccharide  (EXP,ISO)
maneb  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
melatonin  (ISO)
menadione  (ISO)
metformin  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (EXP)
Mitotane  (EXP)
monensin A  (ISO)
motexafin gadolinium  (ISO)
N-[3-(aminomethyl)benzyl]acetamidine  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N1'-[2-[[5-[(dimethylamino)methyl]-2-furanyl]methylthio]ethyl]-N1-methyl-2-nitroethene-1,1-diamine  (EXP)
nefazodone  (EXP)
nickel dichloride  (EXP,ISO)
nickel subsulfide  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
nimesulide  (EXP)
nitric oxide  (EXP,ISO)
nitrogen dioxide  (ISO)
ochratoxin A  (EXP)
omeprazole  (EXP)
oxaliplatin  (ISO)
p-menthan-3-ol  (ISO)
p-toluidine  (EXP)
paeoniflorin  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentobarbital  (EXP)
peroxynitrous acid  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
propofol  (ISO)
quercetin  (EXP,ISO)
quinolone  (ISO)
rac-lactic acid  (ISO)
ranitidine  (EXP)
rotenone  (EXP,ISO)
S-nitrosoglutathione  (ISO)
SB 431542  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
teriflunomide  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloroethene  (ISO)
tetrachloromethane  (EXP,ISO)
tetraethylenepentamine  (ISO)
thapsigargin  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
troglitazone  (EXP)
Tungsten carbide  (ISO)
tunicamycin  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
zinc acetate  (ISO)
zinc oxide  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic process  (ISO)
autophagic cell death  (IMP)
brown fat cell differentiation  (ISO)
cardiac muscle cell apoptotic process  (IMP)
cell death  (IDA)
cellular response to cobalt ion  (ISO)
cellular response to hydrogen peroxide  (IMP)
cellular response to hypoxia  (IEP,ISO)
cellular response to mechanical stimulus  (ISO)
cerebral cortex development  (IEP)
defense response to virus  (ISO,ISS)
granzyme-mediated programmed cell death signaling pathway  (ISO)
intrinsic apoptotic signaling pathway  (ISO)
intrinsic apoptotic signaling pathway in response to hypoxia  (ISO)
mitochondrial fragmentation involved in apoptotic process  (ISO)
mitochondrial outer membrane permeabilization  (IBA,ISO)
mitochondrial protein catabolic process  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of cell death  (ISO)
negative regulation of membrane potential  (ISO,ISS)
negative regulation of mitochondrial fusion  (ISO)
negative regulation of mitochondrial membrane permeability involved in apoptotic process  (IMP)
negative regulation of mitochondrial membrane potential  (IMP)
negative regulation of reactive oxygen species metabolic process  (ISO)
neuron apoptotic process  (IDA)
oligodendrocyte differentiation  (IEP)
positive regulation of apoptotic process  (IMP,ISO,ISS)
positive regulation of autophagy of mitochondrion  (IMP)
positive regulation of cardiac muscle cell apoptotic process  (IDA)
positive regulation of macroautophagy  (ISO)
positive regulation of mitochondrial calcium ion concentration  (IMP)
positive regulation of mitochondrial fission  (ISO)
positive regulation of necrotic cell death  (IMP)
positive regulation of programmed cell death  (IBA,ISO,ISS)
positive regulation of protein-containing complex disassembly  (ISO)
positive regulation of release of cytochrome c from mitochondria  (ISO)
reactive oxygen species metabolic process  (ISO,ISS)
regulation of aerobic respiration  (ISO)
regulation of mitochondrial membrane permeability  (ISO,ISS)
regulation of mitochondrion organization  (ISO)
regulation of programmed cell death  (IBA)
response to axon injury  (IEP)
response to bacterium  (ISO)
response to hyperoxia  (IEP)
response to hypoxia  (IDA)
response to oxygen-glucose deprivation  (IEP)
toxin transport  (ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Byun YJ, etal., Neurosci Lett. 2009 Sep 18;461(2):131-5. Epub 2009 Jun 17.
2. Chaanine AH, etal., Circ Heart Fail. 2013 May;6(3):572-83. doi: 10.1161/CIRCHEARTFAILURE.112.000200. Epub 2013 Mar 18.
3. Cho B, etal., Mol Cells. 2012 Jun;33(6):605-10. doi: 10.1007/s10059-012-0051-0. Epub 2012 May 23.
4. Dhingra R, etal., Proc Natl Acad Sci U S A. 2014 Dec 23;111(51):E5537-44. doi: 10.1073/pnas.1414665111. Epub 2014 Dec 8.
5. Dong Y, etal., BMC Complement Altern Med. 2015 Mar 10;15:51. doi: 10.1186/s12906-015-0559-x.
6. Fedorova LV, etal., BMC Nephrol. 2013 Oct 4;14:209. doi: 10.1186/1471-2369-14-209.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. GOA data from the GO Consortium
9. Hamacher-Brady A, etal., Cell Death Differ. 2007 Jan;14(1):146-57. Epub 2006 Apr 28.
10. Ishihara M, etal., Am J Physiol Renal Physiol. 2013 Aug 15;305(4):F495-509. doi: 10.1152/ajprenal.00642.2012. Epub 2013 May 22.
11. Itoh T, etal., J Neurochem 2003 Jun;85(6):1500-12.
12. Jannig PR, etal., PLoS One. 2014 Jan 10;9(1):e85820. doi: 10.1371/journal.pone.0085820. eCollection 2014.
13. Jian B, etal., Mol Med. 2011 May-Jun;17(5-6):542-9. doi: 10.2119/molmed.2010.00195. Epub 2010 Dec 22.
14. Kubasiak LA, etal., Proc Natl Acad Sci U S A 2002 Oct 1;99(20):12825-30.
15. Kubli DA and Gustafsson AB, Circ Res. 2012 Oct 12;111(9):1208-21. doi: 10.1161/CIRCRESAHA.112.265819.
16. Li R, etal., PLoS One. 2012;7(9):e44907. doi: 10.1371/journal.pone.0044907. Epub 2012 Sep 18.
17. Lomonosova E and Chinnadurai G, Oncogene. 2008 Dec;27 Suppl 1:S2-19.
18. Lu MC, etal., Obesity (Silver Spring). 2007 Nov;15(11):2634-42.
19. MGD data from the GO Consortium
20. Min JJ, etal., Sci Rep. 2014 Jul 3;4:5555. doi: 10.1038/srep05555.
21. NCBI rat LocusLink and RefSeq merged data July 26, 2002
22. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
23. Prabhakaran K, etal., Neuroscience. 2007 Nov 30;150(1):159-67. Epub 2007 Jul 29.
24. Regula KM, etal., Circ Res 2002 Aug 9;91(3):226-31.
25. RGD automated data pipeline
26. RGD automated import pipeline for gene-chemical interactions
27. Sandau US and Handa RJ, Brain Res. 2006 Jul 19;1100(1):55-63. Epub 2006 Jun 12.
28. Schmidt-Kastner R, etal., Brain Res. 2004 Mar 19;1001(1-2):133-42.
29. Shelby SJ, etal., Exp Eye Res. 2015 Aug;137:84-93. doi: 10.1016/j.exer.2015.06.016. Epub 2015 Jun 17.
30. Sowter HM, etal., J Pathol. 2003 Dec;201(4):573-80.
31. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
32. Tea M, etal., J Ocul Biol Dis Infor. 2009 Dec 12;2(4):190-201.
33. Wei H, etal., Biochim Biophys Acta. 2015 Oct;1853(10 Pt B):2784-90. doi: 10.1016/j.bbamcr.2015.03.013. Epub 2015 Apr 1.
34. Wu C, etal., Biochem Biophys Res Commun. 2013 Aug 2;437(3):469-74. doi: 10.1016/j.bbrc.2013.06.107. Epub 2013 Jul 9.
35. Yu D, etal., Neurotox Res. 2013 Nov;24(4):512-22. doi: 10.1007/s12640-013-9397-0. Epub 2013 Apr 30.
36. Zamora R, etal., Am J Physiol Gastrointest Liver Physiol. 2005 Nov;289(5):G822-30. Epub 2005 Jul 7.
37. Zhang X, etal., PLoS One. 2014 Dec 1;9(12):e113642. doi: 10.1371/journal.pone.0113642. eCollection 2014.
38. Zhang Z, etal., Stroke. 2007 May;38(5):1606-13. Epub 2007 Mar 22.
Additional References at PubMed
PMID:7954800   PMID:9396766   PMID:9973195   PMID:10381623   PMID:10891486   PMID:14651853   PMID:16189514   PMID:16291751   PMID:16344406   PMID:16464515   PMID:16954213   PMID:16987017  
PMID:17082476   PMID:17114649   PMID:17274962   PMID:18096822   PMID:18281291   PMID:18337831   PMID:18371312   PMID:18492766   PMID:18790835   PMID:19088195   PMID:19147804   PMID:19255257  
PMID:19273585   PMID:19593445   PMID:19737385   PMID:20025887   PMID:20436456   PMID:20668412   PMID:21122071   PMID:21415393   PMID:21437288   PMID:21575413   PMID:21890690   PMID:22044588  
PMID:22292033   PMID:22403878   PMID:23012479   PMID:23395931   PMID:23648705   PMID:23692407   PMID:23716698   PMID:25416956   PMID:25810259   PMID:26317696   PMID:26471219   PMID:27107012  
PMID:27112557   PMID:27472881   PMID:27886395   PMID:28661226   PMID:28838842   PMID:29538088   PMID:29566574   PMID:30173922   PMID:30851408   PMID:31320615   PMID:31321998   PMID:31607209  
PMID:31657084   PMID:31707369  


Genomics

Comparative Map Data
Bnip3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01211,248,098 - 211,265,282 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1211,248,098 - 211,265,282 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01218,174,697 - 218,191,883 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41198,683,009 - 198,700,075 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11198,833,000 - 198,850,067 (-)NCBI
Celera1191,399,941 - 191,417,104 (-)NCBICelera
Cytogenetic Map1q41NCBI
BNIP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl10131,966,455 - 131,982,013 (-)EnsemblGRCh38hg38GRCh38
GRCh3810131,967,683 - 131,982,013 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh3710133,781,204 - 133,795,435 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3610133,631,194 - 133,645,425 (-)NCBINCBI36hg18NCBI36
Build 3410133,631,193 - 133,645,425NCBI
Celera10127,425,370 - 127,439,605 (-)NCBI
Cytogenetic Map10q26.3NCBI
HuRef10127,330,366 - 127,344,602 (-)NCBIHuRef
CHM1_110134,062,270 - 134,076,612 (-)NCBICHM1_1
Bnip3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397138,492,565 - 138,511,235 (-)NCBIGRCm39mm39
GRCm387138,890,836 - 138,909,506 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7138,890,836 - 138,909,519 (-)EnsemblGRCm38mm10GRCm38
MGSCv377146,082,519 - 146,101,189 (-)NCBIGRCm37mm9NCBIm37
MGSCv367138,729,179 - 138,747,849 (-)NCBImm8
Celera7138,707,907 - 138,726,495 (-)NCBICelera
Cytogenetic Map7F4NCBI
Bnip3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554779,621,812 - 9,638,099 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554779,621,812 - 9,630,406 (-)NCBIChiLan1.0ChiLan1.0
BNIP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.110132,857,375 - 132,871,628 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl10132,858,211 - 132,871,634 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v010128,671,663 - 128,685,952 (-)NCBIMhudiblu_PPA_v0panPan3
BNIP3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2840,038,643 - 40,049,797 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12840,037,681 - 40,050,499 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Bnip3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493648618,449,371 - 18,460,435 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BNIP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl14140,362,127 - 140,371,881 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.114140,362,123 - 140,371,951 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.214152,194,909 - 152,204,744 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BNIP3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl9124,568,695 - 124,585,980 (-)Ensembl
ChlSab1.19124,570,958 - 124,586,002 (-)NCBI
Bnip3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473714,848,355 - 14,863,731 (+)NCBI

Position Markers
Bnip3  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0953,617,317 - 53,617,538NCBIRnor6.0
Rnor_5.0953,285,469 - 53,285,690UniSTSRnor5.0
Celera946,432,519 - 46,432,740UniSTS
Cytogenetic Map1q41UniSTS
Cytogenetic Map9q22UniSTS


QTLs in Region (Rnor_6.0)
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)199983293216325819Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1175447029220447029Rat
619613Bp77Blood pressure QTL 770.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1175447029220447029Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1184419946215097919Rat
619614Bp78Blood pressure QTL 780.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1184419946215097919Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1126240667217054291Rat
631214Bw61Body weight QTL613.40.0001intramuscular adipose amount (VT:0010044)intramuscular fat area (CMO:0001162)1193220385238220385Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1156446196274977688Rat
631260Tcas2Tongue tumor susceptibility QTL 24.93tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1210019247217054418Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1156446196214277437Rat
70163Bw20Body weight QTL 205.1body mass (VT:0001259)body weight (CMO:0000012)1189514504234514504Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1161321152273792054Rat
724559Pancm1Pancreatic morphology QTL 17.1islet of Langerhans morphology trait (VT:0005215)pancreatic islet damage composite score (CMO:0001156)1198585664236763415Rat
724562Rends1Renal damage susceptibility QTL 10.05kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)1137787261236763528Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)199983293216213510Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1156446196243311614Rat
631670Iddm10Insulin dependent diabetes mellitus QTL 101.9blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1189514504214277437Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1197963658242963658Rat
1354580Scort1Serum corticosterone level QTL 13.4blood corticosterone amount (VT:0005345)blood corticosterone level (CMO:0001172)1167394665278228889Rat
1582206Kidm33Kidney mass QTL 336.9kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1205603081244401301Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1100131562236763528Rat
738032Hcas5Hepatocarcinoma susceptibility QTL 53.12liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1191825895279986079Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1130779320219238476Rat
1302787Stl25Serum triglyceride level QTL 252.70.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1197187728230420772Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1153834077232297227Rat
2300161Bmd43Bone mineral density QTL 438.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2300174Bmd42Bone mineral density QTL 428.40.0001lumbar vertebra mineral mass (VT:0010511)bone mineral density (CMO:0001226)1189170900234170900Rat
2300187Bmd41Bone mineral density QTL 418.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1189170900234170900Rat
2293654Bss30Bone structure and strength QTL 3032.650.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1189170900234170900Rat
2293673Bss27Bone structure and strength QTL 2718.630.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)1189170900234170900Rat
2293677Bss41Bone structure and strength QTL 419.380.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1189170900234170900Rat
2293689Bss47Bone structure and strength QTL 477.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)1189170900234170900Rat
2293693Bss22Bone structure and strength QTL 2233.520.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1189170900234170900Rat
631838Niddm36Non-insulin dependent diabetes mellitus QTL 360.01insulin secretion trait (VT:0003564)calculated pancreatic islet insulin release measurement (CMO:0001217)1205195290250195290Rat
634312Bp143Blood pressure QTL 14330.0002arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198446729240017341Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
634321Hc1Hypercalciuria QTL 12.91urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1193968438261264776Rat
634338Hcar4Hepatocarcinoma resistance QTL 44.6liver integrity trait (VT:0010547)liver tumorous lesion number to liver area ratio (CMO:0001210)1210960636236763528Rat
1600363Hc6Hypercalciuria QTL 62.7urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1195598053265002735Rat
1600380Niddm70Non-insulin dependent diabetes mellitus QTL 703.10.0008blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1194554354239554354Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1161321256273791893Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1196395041282763074Rat
1578778Pur4Proteinuria QTL 43.30.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1161321256273791893Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
1300145Rf7Renal function QTL 72.96urine creatinine amount (VT:0010540)urine creatinine level (CMO:0000125)1201146802241482368Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1108986301219232156Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1161784169219232156Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1108986301238830534Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1108986301219232156Rat
1354618Kidm15Kidney mass QTL 155kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)1167394665219232156Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169219232156Rat
1354624Cm35Cardiac mass QTL355.7heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1192639698278228889Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1161784169219232156Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1161784169219232156Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1161784169278228889Rat
1354652Kidm20Kidney mass QTL 204.3kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1192639698278228889Rat
1354653Despr9Despair related QTL 90.00019locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1185390068230390068Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1161784169278228889Rat
1359018Hrtrt20Heart rate QTL 203.08heart pumping trait (VT:2000009)heart rate (CMO:0000002)1201358068221983732Rat
1558658Bw59Body weight QTL 593.50.0003body mass (VT:0001259)body weight (CMO:0000012)1196738546241738546Rat
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1163796316282763074Rat
1358191Ept10Estrogen-induced pituitary tumorigenesis QTL 103.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)1210360774264802828Rat
2292220Bp306Blood pressure QTL 3063.470.00087arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700264802994Rat
2292222Bp307Blood pressure QTL 3073.060.0014arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1174905700233490237Rat
2293083Iddm25Insulin dependent diabetes mellitus QTL 254.18blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1198655722244992610Rat
2312420Pur17Proteinuria QTL 177.10.0001urine protein amount (VT:0005160)urine total protein excretion rate (CMO:0000756)1167394665238830534Rat
2312564Glom18Glomerulus QTL 182.40.003kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)1201358068252480016Rat
2303622Vencon6Ventilatory control QTL 60.001respiration trait (VT:0001943)respiration rate (CMO:0000289)1169971964214971964Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1161784422246226103Rat
1358898Bp255Blood pressure QTL 2553.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1208517798266948272Rat
1549830Bss1Bone structure and strength QTL 14.8femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)1190282646235282646Rat
1358294Bw37Body weight QTL 3750.000011body mass (VT:0001259)body weight (CMO:0000012)1188850303233850303Rat
61341Bp26Blood pressure QTL 26arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1137787261236763528Rat
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1167027868212027868Rat
61347Bp197Blood pressure QTL 1974.2arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)1175462885220462885Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1154337847215828102Rat
61378Bp43Blood pressure QTL 4322.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1198572999214277437Rat
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)1166577232211577232Rat
6480780Insul18Insulin level QTL 184.11blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)1206950905218614387Rat
6903303Scl34Serum cholesterol QTL 342.50.0033blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)1197187728238220385Rat
8655655Arrd2Age-related retinal degeneration QTL 27.79retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1202571665264802994Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1122614824262664716Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1144634295241482368Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1125875758262433692Rat
8552891Epfw5Epididymal fat weight QTL 54.4epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1210652654255652654Rat
8655855Arrd3Age-related retinal degeneration QTL 33.07lens clarity trait (VT:0001304)cataract incidence/prevalence measurement (CMO:0001585)1202571665264802994Rat
10059590Kidm44Kidney mass QTL 443.420.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1210990171255990171Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
10059600Bp378Blood pressure QTL 3783.080.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1194872362239872362Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir145rno-miR-145-5pMirtarbaseexternal_infoLuciferase reporter assay//Western blotFunctional MTI23028672

Predicted Target Of
Summary Value
Count of predictions:464
Count of miRNA genes:241
Interacting mature miRNAs:298
Transcripts:ENSRNOT00000023477
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 13 41 8 11 74 35 38 11 8
Low 6 3
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053420 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAHX01008921 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC131400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF243515 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY095482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC070958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO403082 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212788 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213325 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213448 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215127 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215203 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ217716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221849 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KC660101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000023477   ⟹   ENSRNOP00000023477
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1211,248,098 - 211,265,282 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080041   ⟹   ENSRNOP00000071075
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1211,251,501 - 211,265,161 (-)Ensembl
RefSeq Acc Id: NM_053420   ⟹   NP_445872
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01211,248,098 - 211,265,282 (-)NCBI
Rnor_5.01218,174,697 - 218,191,883 (-)NCBI
RGSC_v3.41198,683,009 - 198,700,075 (-)RGD
Celera1191,399,941 - 191,417,104 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_445872   ⟸   NM_053420
- UniProtKB: Q9ET45 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071075   ⟸   ENSRNOT00000080041
RefSeq Acc Id: ENSRNOP00000023477   ⟸   ENSRNOT00000023477

Transcriptome

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

Promoters
RGD ID:13690506
Promoter ID:EPDNEW_R1025
Type:initiation region
Name:Bnip3_1
Description:BCL2 interacting protein 3
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_6.01211,265,252 - 211,265,312EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/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)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (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
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)
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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/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
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)
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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 (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)
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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)
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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
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)
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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/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
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 (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 (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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:620800 AgrOrtholog
Ensembl Genes ENSRNOG00000017243 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000023477 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000071075 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023477 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080041 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7105707 IMAGE-MGC_LOAD
  IMAGE:7190121 IMAGE-MGC_LOAD
InterPro BNIP3 UniProtKB/TrEMBL
KEGG Report rno:84480 UniProtKB/TrEMBL
MGC_CLONE MGC:91405 IMAGE-MGC_LOAD
  MGC:93043 IMAGE-MGC_LOAD
NCBI Gene 84480 ENTREZGENE
PANTHER PTHR15186 UniProtKB/TrEMBL
Pfam BNIP3 UniProtKB/TrEMBL
PhenoGen Bnip3 PhenoGen
UniGene Rn.2060 ENTREZGENE
UniProt M9VYP0_RAT UniProtKB/TrEMBL
  Q9ET45 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-01-17 Bnip3  BCL2 interacting protein 3  Bnip3  BCL2/adenovirus E1B interacting protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-11-05 Bnip3  BCL2/adenovirus E1B interacting protein 3  Bnip3  BCL2/adenovirus E1B 19 kDa-interacting protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Bnip3  BCL2/adenovirus E1B 19 kDa-interacting protein 3    BCL2/adenovirus E1B 19 kDa-interacting protein 3, nuclear gene for mitochondrial product  Name updated 1299863 APPROVED
2002-08-07 Bnip3  BCL2/adenovirus E1B 19 kDa-interacting protein 3, nuclear gene for mitochondrial product      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_mutations_overexpression overexpression results in membrane insertion and initiation of a cell death pathway with features similar to necrosis  
gene_product member of the BH3-only subfamily of Bcl-2 family proteins