Npm1 (nucleophosmin 1) - Rat Genome Database

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Gene: Npm1 (nucleophosmin 1) Rattus norvegicus
Analyze
Symbol: Npm1
Name: nucleophosmin 1
RGD ID: 3192
Description: Enables several functions, including anion binding activity; p53 binding activity; and protein kinase B binding activity. Involved in several processes, including cellular response to testosterone stimulus; negative regulation of apoptotic process; and rRNA metabolic process. Located in nuclear matrix and nucleoplasm. Human ortholog(s) of this gene implicated in acute myeloid leukemia. Orthologous to human NPM1 (nucleophosmin 1); PARTICIPATES IN hypoxia inducible factor pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: B23NP; MGC108517; NPM; nucleolar phosphoprotein B23; nucleolar protein B23.1; nucleolar protein NO38; nucleophosmin; nucleophosmin (nucleolar phosphoprotein B23, numatrin); Nucleoplasmin-related protein (Nuclear protein B23; numatrin
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: Npm1-ps1   Npm1-ps12   Npm1-ps14   Npm1-ps19  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81018,245,739 - 18,255,913 (-)NCBIGRCr8
mRatBN7.21017,741,512 - 17,751,626 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1017,739,941 - 17,751,645 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1022,489,548 - 22,499,561 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01021,978,148 - 21,988,161 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01017,466,819 - 17,476,835 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01018,080,949 - 18,091,062 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1018,080,950 - 18,090,950 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01017,965,977 - 17,975,978 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41018,051,990 - 18,062,714 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11018,053,038 - 18,063,763 (-)NCBI
Celera1017,382,029 - 17,392,033 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-nitrofluorene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
9-cis-retinoic acid  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
Benoxacor  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP,ISO)
bleomycin A2  (EXP)
bortezomib  (ISO)
bromobenzene  (EXP)
busulfan  (ISO)
butyric acid  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
copper(II) sulfate  (ISO)
coumarin  (ISO)
CU-O LINKAGE  (ISO)
deguelin  (ISO)
deoxynivalenol  (ISO)
Di-n-octyl phthalate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
dieldrin  (EXP)
diethylstilbestrol  (EXP)
dihydroartemisinin  (ISO)
doxorubicin  (ISO)
elemental selenium  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
fenthion  (ISO)
flavonoids  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gemcitabine  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
glafenine  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
idarubicin  (ISO)
indometacin  (ISO)
isoflavones  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
josamycin  (ISO)
L-ascorbic acid  (ISO)
lead diacetate  (EXP)
lipopolysaccharide  (ISO)
melatonin  (ISO)
Mesaconitine  (EXP)
methapyrilene  (EXP)
methidathion  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylparaben  (ISO)
Monobutylphthalate  (ISO)
N-(6-acetamidohexyl)acetamide  (ISO)
N-acetyl-L-cysteine  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
nefazodone  (EXP)
nocodazole  (ISO)
NSC 23766  (ISO)
ochratoxin A  (EXP,ISO)
oxaliplatin  (EXP)
paclitaxel  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
parathion  (ISO)
pemetrexed  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
PhIP  (EXP)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
quartz  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
selenium atom  (EXP)
silicon dioxide  (EXP,ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
Soman  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
T-2 toxin  (EXP)
testosterone  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topotecan  (EXP)
Tributyltin oxide  (EXP,ISO)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triphenylstannane  (ISO)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
vinorelbine  (ISO)
vitamin E  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cardiac muscle hypertrophy  (IEP)
cell volume homeostasis  (ISO)
cellular response to hypoxia  (IEP)
cellular response to testosterone stimulus  (IEP)
cellular response to UV  (ISO)
cellular senescence  (ISO,ISS)
centrosome cycle  (ISO,ISS)
chromatin remodeling  (IBA,IEA)
cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)  (IDA)
DNA repair  (ISO,ISS)
liver regeneration  (IEP)
negative regulation of apoptotic process  (ISO,ISS)
negative regulation of cardiac muscle cell apoptotic process  (IMP)
negative regulation of cell population proliferation  (ISO,ISS)
negative regulation of centrosome duplication  (ISO)
negative regulation of epithelial cell proliferation  (IMP)
negative regulation of gene expression  (ISO)
negative regulation of mRNA splicing, via spliceosome  (ISO)
negative regulation of neuron apoptotic process  (IMP)
nucleocytoplasmic transport  (ISO)
nucleosome assembly  (ISO)
positive regulation of catalytic activity  (IDA)
positive regulation of cell cycle G2/M phase transition  (ISO,ISS)
positive regulation of cell population proliferation  (ISO,ISS)
positive regulation of cellular biosynthetic process  (ISO)
positive regulation of centrosome duplication  (ISO)
positive regulation of DNA metabolic process  (IDA)
positive regulation of DNA replication  (IDA)
positive regulation of DNA-directed DNA polymerase activity  (IDA)
positive regulation of DNA-templated transcription  (ISO,ISS)
positive regulation of protein localization to nucleolus  (ISO)
positive regulation of protein ubiquitination  (ISO)
positive regulation of transcription by RNA polymerase II  (IBA,IEA,ISO,ISS)
positive regulation of translation  (ISO,ISS)
post-transcriptional regulation of gene expression  (ISO)
protein destabilization  (ISO)
protein localization  (ISO)
protein stabilization  (ISO)
regulation of cell cycle  (ISO)
regulation of cell growth  (ISO)
regulation of centriole replication  (ISO,ISS)
regulation of centrosome duplication  (IBA,IEA,ISO)
regulation of DNA damage response, signal transduction by p53 class mediator  (ISO)
regulation of eIF2 alpha phosphorylation by dsRNA  (ISO,ISS)
regulation of mRNA stability involved in cellular response to UV  (ISO)
regulation of neuron apoptotic process  (IMP)
regulation of protein stability  (ISO)
ribosomal large subunit biogenesis  (IBA,IEA,ISO)
ribosomal large subunit export from nucleus  (IBA,IEA,ISO)
ribosomal small subunit biogenesis  (IBA,IEA,ISO)
ribosomal small subunit export from nucleus  (IBA,IEA,ISO)
ribosomal subunit export from nucleus  (IBA)
rRNA transcription  (IMP)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Nucleophosmin/B23, a nuclear PI(3,4,5)P(3) receptor, mediates the antiapoptotic actions of NGF by inhibiting CAD. Ahn JY, etal., Mol Cell. 2005 May 13;18(4):435-45.
2. Nucleolar stress is an early response to myocardial damage involving nucleolar proteins nucleostemin and nucleophosmin. Avitabile D, etal., Proc Natl Acad Sci U S A. 2011 Apr 12;108(15):6145-50. doi: 10.1073/pnas.1017935108. Epub 2011 Mar 28.
3. A single gene codes for two forms of rat nucleolar protein B23 mRNA. Chang JH and Olson MO, J Biol Chem 1989 Jul 15;264(20):11732-7.
4. Structure of the gene for rat nucleolar protein B23. Chang JH and Olson MO, J Biol Chem 1990 Oct 25;265(30):18227-33.
5. cDNA and deduced primary structure of rat protein B23, a nucleolar protein containing highly conserved sequences. Chang JH, etal., J Biol Chem 1988 Sep 15;263(26):12824-7.
6. Disruption of ATP binding destabilizes NPM/B23 and inhibits anti-apoptotic function. Choi JW, etal., BMB Rep. 2008 Dec 31;41(12):840-5.
7. A knock-in Npm1 mutation in mice results in myeloproliferation and implies a perturbation in hematopoietic microenvironment. Chou SH, etal., PLoS One. 2012;7(11):e49769. doi: 10.1371/journal.pone.0049769. Epub 2012 Nov 30.
8. Cytoplasmic nucleophosmin in acute myelogenous leukemia with a normal karyotype. Falini B, etal., N Engl J Med. 2005 Jan 20;352(3):254-66.
9. The impact of FLT3 internal tandem duplication mutant level, number, size, and interaction with NPM1 mutations in a large cohort of young adult patients with acute myeloid leukemia. Gale RE, etal., Blood. 2008 Mar 1;111(5):2776-84. Epub 2007 Oct 23.
10. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
12. NPM mutations in acute myelogenous leukemia. Grisendi S and Pandolfi PP, N Engl J Med. 2005 Jan 20;352(3):291-2.
13. Sedimentation analyses of the salt- and divalent metal ion-induced oligomerization of nucleolar protein B23. Herrera JE, etal., Biochemistry. 1996 Feb 27;35(8):2668-73.
14. Altered HLA Class I Profile Associated with Type A/D Nucleophosmin Mutation Points to Possible Anti-Nucleophosmin Immune Response in Acute Myeloid Leukemia. Kuzelova K, etal., PLoS One. 2015 May 20;10(5):e0127637. doi: 10.1371/journal.pone.0127637. eCollection 2015.
15. Nuclear Akt interacts with B23/NPM and protects it from proteolytic cleavage, enhancing cell survival. Lee SB, etal., Proc Natl Acad Sci U S A. 2008 Oct 28;105(43):16584-9. doi: 10.1073/pnas.0807668105. Epub 2008 Oct 17.
16. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
17. Synaptotagmin 11 interacts with components of the RNA-induced silencing complex RISC in clonal pancreatic beta-cells. Milochau A, etal., FEBS Lett. 2014 Jun 27;588(14):2217-22. doi: 10.1016/j.febslet.2014.05.031. Epub 2014 May 29.
18. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
19. Tryptophans 286 and 288 in the C-terminal region of protein B23.1 are important for its nucleolar localization. Nishimura Y, etal., Biosci Biotechnol Biochem. 2002 Oct;66(10):2239-42.
20. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
21. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
22. NPMc+ cooperates with Flt3/ITD mutations to cause acute leukemia recapitulating human disease. Rau R, etal., Exp Hematol. 2014 Feb;42(2):101-13.e5. doi: 10.1016/j.exphem.2013.10.005. Epub 2013 Oct 29.
23. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
24. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
25. Preferential cleavage in pre-ribosomal RNA byprotein B23 endoribonuclease. Savkur RS and Olson MO, Nucleic Acids Res. 1998 Oct 1;26(19):4508-15.
26. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
27. Stimulation of calf thymus DNA polymerase alpha activity by nucleolar protein B23. Takemura M, etal., Biochem Biophys Res Commun. 1994 Feb 28;199(1):46-51.
28. Nucleolar protein B23.1 binds to retinoblastoma protein and synergistically stimulates DNA polymerase alpha activity. Takemura M, etal., J Biochem. 1999 May;125(5):904-9.
29. Androgenic regulation of the expression and phosphorylation of prostatic nucleolar protein B23. Tawfic S, etal., Cell Mol Biol Res. 1993;39(1):43-51.
30. The carboxyl terminal sequence of nucleolar protein B23.1 is important in its DNA polymerase alpha-stimulatory activity. Umekawa H, etal., J Biochem (Tokyo). 2001 Aug;130(2):199-205.
31. Mutant nucleophosmin and cooperating pathways drive leukemia initiation and progression in mice. Vassiliou GS, etal., Nat Genet. 2011 May;43(5):470-5. doi: 10.1038/ng.796. Epub 2011 Mar 27.
32. Protein B23/nucleophosmin/numatrin nuclear dynamics in relation to protein kinase CK2 and apoptotic activity in prostate cells. Wang G, etal., Biochemistry. 2010 May 11;49(18):3842-52. doi: 10.1021/bi9021928.
33. Nucleophosmin/B23 is a proliferate shuttle protein associated with nuclear matrix. Yun JP, etal., J Cell Biochem. 2003 Dec 15;90(6):1140-8.
34. Polyamine depletion induces nucleophosmin modulating stability and transcriptional activity of p53 in intestinal epithelial cells. Zou T, etal., Am J Physiol Cell Physiol. 2005 Sep;289(3):C686-96. Epub 2005 May 4.
Additional References at PubMed
PMID:2100262   PMID:9094689   PMID:9121481   PMID:10211837   PMID:10716735   PMID:11051553   PMID:11420665   PMID:11602260   PMID:12058066   PMID:12080348   PMID:12374805   PMID:12511551  
PMID:12882984   PMID:15087454   PMID:15485902   PMID:15489334   PMID:15596447   PMID:15607978   PMID:15615785   PMID:15989966   PMID:16007073   PMID:16027046   PMID:16041368   PMID:16099430  
PMID:16129783   PMID:16199867   PMID:16297385   PMID:16376875   PMID:16641100   PMID:16648475   PMID:16690610   PMID:16854843   PMID:16855206   PMID:17015463   PMID:17475909   PMID:17951246  
PMID:18023416   PMID:18420587   PMID:18625840   PMID:18809582   PMID:19160485   PMID:19188445   PMID:19208757   PMID:19581374   PMID:19946888   PMID:20352051   PMID:21423176   PMID:21630459  
PMID:22166220   PMID:22528486   PMID:22658674   PMID:22681889   PMID:22720776   PMID:23027902   PMID:24616519   PMID:24625528   PMID:25931508   PMID:25956029   PMID:27510036   PMID:31904090  
PMID:33450132   PMID:35352799  


Genomics

Comparative Map Data
Npm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81018,245,739 - 18,255,913 (-)NCBIGRCr8
mRatBN7.21017,741,512 - 17,751,626 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1017,739,941 - 17,751,645 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1022,489,548 - 22,499,561 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01021,978,148 - 21,988,161 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01017,466,819 - 17,476,835 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01018,080,949 - 18,091,062 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1018,080,950 - 18,090,950 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01017,965,977 - 17,975,978 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41018,051,990 - 18,062,714 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11018,053,038 - 18,063,763 (-)NCBI
Celera1017,382,029 - 17,392,033 (-)NCBICelera
Cytogenetic Map10q12NCBI
NPM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385171,387,116 - 171,410,900 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5171,387,116 - 171,411,810 (+)EnsemblGRCh38hg38GRCh38
GRCh375170,814,120 - 170,837,904 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365170,747,403 - 170,770,493 (+)NCBINCBI36Build 36hg18NCBI36
Build 345170,747,461 - 170,770,492NCBI
Celera5166,847,258 - 166,870,233 (+)NCBICelera
Cytogenetic Map5q35.1NCBI
HuRef5165,912,826 - 165,935,666 (+)NCBIHuRef
CHM1_15170,247,232 - 170,270,413 (+)NCBICHM1_1
T2T-CHM13v2.05171,927,442 - 171,951,228 (+)NCBIT2T-CHM13v2.0
Npm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391133,102,498 - 33,114,143 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1133,102,287 - 33,113,206 (-)EnsemblGRCm39 Ensembl
GRCm381133,152,498 - 33,164,142 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1133,152,287 - 33,163,206 (-)EnsemblGRCm38mm10GRCm38
MGSCv371133,052,511 - 33,063,056 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361133,052,511 - 33,063,056 (-)NCBIMGSCv36mm8
Celera1135,564,831 - 35,575,324 (-)NCBICelera
Cytogenetic Map11A4NCBI
cM Map1119.21NCBI
Npm1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540824,151,070 - 24,218,783 (+)NCBIChiLan1.0ChiLan1.0
NPM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24166,524,239 - 166,544,710 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15164,663,846 - 164,684,265 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05166,735,904 - 166,756,321 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15173,490,197 - 173,510,657 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5173,490,197 - 173,510,656 (+)Ensemblpanpan1.1panPan2
NPM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1440,756,464 - 40,770,174 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl440,756,465 - 40,770,175 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha440,705,264 - 40,718,971 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0441,134,159 - 41,147,850 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl441,134,159 - 41,147,893 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1440,949,115 - 40,962,816 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0441,139,397 - 41,153,096 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0441,649,467 - 41,663,173 (-)NCBIUU_Cfam_GSD_1.0
Npm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721394,989,965 - 95,002,964 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366093,712,628 - 3,725,635 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NPM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1652,765,298 - 52,781,771 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11652,767,263 - 52,781,862 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21656,963,998 - 56,978,524 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NPM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12373,555,020 - 73,575,910 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2373,555,260 - 73,575,925 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660345,065,310 - 5,086,261 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Npm1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473318,645,269 - 18,655,073 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Npm1
81 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:60
Count of miRNA genes:48
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000006591, ENSRNOT00000064744
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
737823Alc12Alcohol consumption QTL 124.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)101724551319388279Rat


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 4 12 12 12 16 12 19
Medium 3 39 45 29 19 29 8 11 58 23 22 11 8
Low
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_012992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767546 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268470 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC060579 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC088088 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213938 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220258 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220615 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225887 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227209 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229578 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230591 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230655 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233299 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J03969 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M25062 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000006591   ⟹   ENSRNOP00000006591
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1017,739,941 - 17,751,645 (-)Ensembl
Rnor_6.0 Ensembl1018,080,950 - 18,090,950 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000064744   ⟹   ENSRNOP00000062356
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1017,743,494 - 17,751,519 (-)Ensembl
Rnor_6.0 Ensembl1018,082,932 - 18,090,932 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118471   ⟹   ENSRNOP00000092710
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1017,739,941 - 17,751,514 (-)Ensembl
RefSeq Acc Id: NM_012992   ⟹   NP_037124
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81018,245,739 - 18,255,741 (-)NCBI
mRatBN7.21017,741,512 - 17,751,514 (-)NCBI
Rnor_6.01018,080,949 - 18,090,950 (-)NCBI
Rnor_5.01017,965,977 - 17,975,978 (-)NCBI
RGSC_v3.41018,051,990 - 18,062,714 (-)RGD
Celera1017,382,029 - 17,392,033 (-)RGD
Sequence:
RefSeq Acc Id: XM_063268470   ⟹   XP_063124540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81018,247,717 - 18,255,913 (-)NCBI
RefSeq Acc Id: NP_037124   ⟸   NM_012992
- UniProtKB: Q63698 (UniProtKB/Swiss-Prot),   Q64269 (UniProtKB/Swiss-Prot),   P13084 (UniProtKB/Swiss-Prot),   A6HDG2 (UniProtKB/TrEMBL),   D3ZXI2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006591   ⟸   ENSRNOT00000006591
RefSeq Acc Id: ENSRNOP00000062356   ⟸   ENSRNOT00000064744
RefSeq Acc Id: ENSRNOP00000092710   ⟸   ENSRNOT00000118471
RefSeq Acc Id: XP_063124540   ⟸   XM_063268470
- Peptide Label: isoform X1
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P13084-F1-model_v2 AlphaFold P13084 1-292 view protein structure

Transcriptome

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

Promoters
RGD ID:13697094
Promoter ID:EPDNEW_R7619
Type:multiple initiation site
Name:Npm1_1
Description:nucleophosmin 1
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_6.01018,090,953 - 18,091,013EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3192 AgrOrtholog
BioCyc Gene G2FUF-25609 BioCyc
Ensembl Genes ENSRNOG00000004616 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000018923 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006591 ENTREZGENE
  ENSRNOT00000006591.8 UniProtKB/TrEMBL
  ENSRNOT00000025575.6 UniProtKB/TrEMBL
  ENSRNOT00000064744.2 UniProtKB/TrEMBL
  ENSRNOT00000118471.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.2100 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleoplasmin core domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6888417 IMAGE-MGC_LOAD
  IMAGE:7382200 IMAGE-MGC_LOAD
InterPro NPM1_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleoplasmin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleoplasmin_core_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleoplasmin_core_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25498 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:108517 IMAGE-MGC_LOAD
  MGC:72897 IMAGE-MGC_LOAD
NCBI Gene 25498 ENTREZGENE
PANTHER NUCLEOPHOSMIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR22747 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam NPM1-C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucleoplasmin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Npm1 PhenoGen
RatGTEx ENSRNOG00000004616 RatGTEx
  ENSRNOG00000018923 RatGTEx
Superfamily-SCOP SSF69203 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AG28_RAT UniProtKB/TrEMBL
  A0A8L2Q2H9_RAT UniProtKB/TrEMBL
  A0A8L2QVX8_RAT UniProtKB/TrEMBL
  A6HDG2 ENTREZGENE, UniProtKB/TrEMBL
  D3ZXI2 ENTREZGENE, UniProtKB/TrEMBL
  NPM_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q63698 ENTREZGENE
  Q64269 ENTREZGENE
UniProt Secondary Q63698 UniProtKB/Swiss-Prot
  Q64269 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-05 Npm1  nucleophosmin 1  Npm1  nucleophosmin (nucleolar phosphoprotein B23, numatrin)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-10 Npm1  nucleophosmin (nucleolar phosphoprotein B23, numatrin)  Npm1  nucleophosmin 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Npm1  nucleophosmin 1    Nucleoplasmin-related protein (Nuclear protein B23  Name updated 625702 APPROVED
2002-06-10 Npm1  Nucleoplasmin-related protein (Nuclear protein B23      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction has a high affinity for silver ions 729271
gene_transcript has two alternative splice forms 728939