NPM1 (nucleophosmin 1) - Rat Genome Database

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Pathways
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Gene: NPM1 (nucleophosmin 1) Canis lupus familiaris
Analyze
Symbol: NPM1
Name: nucleophosmin 1
RGD ID: 12415538
Description: ENCODES a protein that exhibits ATP binding (ortholog); core promoter sequence-specific DNA binding (ortholog); DNA binding (ortholog); INVOLVED IN cardiac muscle hypertrophy (ortholog); cell volume homeostasis (ortholog); cellular response to hypoxia (ortholog); PARTICIPATES IN hypoxia inducible factor pathway; ASSOCIATED WITH Acute Erythroleukemia (ortholog); acute myeloid leukemia (ortholog); acute promyelocytic leukemia (ortholog); FOUND IN cytosol (ortholog); granular component (ortholog); large ribosomal subunit (ortholog)
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: nucleophosmin
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: LOC475722   LOC606906  
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202   PMID:37756605  


Genomics

Comparative Map Data
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
(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
(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
(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
(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
124 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000026771   ⟹   ENSCAFP00000024874
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl440,756,465 - 40,770,174 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000085644   ⟹   ENSCAFP00000066319
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl440,760,289 - 40,770,175 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000086878   ⟹   ENSCAFP00000051641
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl440,756,465 - 40,770,174 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845003251   ⟹   ENSCAFP00845002579
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl441,134,159 - 41,147,893 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845003264   ⟹   ENSCAFP00845002590
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl441,134,159 - 41,147,893 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845003277   ⟹   ENSCAFP00845002600
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl441,137,962 - 41,147,858 (-)Ensembl
RefSeq Acc Id: NM_001252171   ⟹   NP_001239100
RefSeq Status: VALIDATED
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1440,756,464 - 40,770,174 (-)NCBI
Dog10K_Boxer_Tasha440,705,264 - 40,718,971 (-)NCBI
ROS_Cfam_1.0441,134,159 - 41,147,850 (-)NCBI
UMICH_Zoey_3.1440,949,115 - 40,962,816 (-)NCBI
UNSW_CanFamBas_1.0441,139,397 - 41,153,096 (-)NCBI
UU_Cfam_GSD_1.0441,649,467 - 41,663,173 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001239100   ⟸   NM_001252171
- UniProtKB: A0A8C0PRY9 (UniProtKB/TrEMBL),   A0A8I3MEU8 (UniProtKB/TrEMBL),   A0A8C0TJ52 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000051641   ⟸   ENSCAFT00000086878
RefSeq Acc Id: ENSCAFP00000024874   ⟸   ENSCAFT00000026771
RefSeq Acc Id: ENSCAFP00000066319   ⟸   ENSCAFT00000085644
RefSeq Acc Id: ENSCAFP00845002590   ⟸   ENSCAFT00845003264
RefSeq Acc Id: ENSCAFP00845002600   ⟸   ENSCAFT00845003277
RefSeq Acc Id: ENSCAFP00845002579   ⟸   ENSCAFT00845003251
Protein Domains
Nucleophosmin C-terminal   Nucleoplasmin core

Promoters
RGD ID:13682983
Promoter ID:EPDNEW_C1053
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:
Dog AssemblyChrPosition (strand)Source
CanFam3.1440,770,184 - 40,770,244EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000016912 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030001054 UniProtKB/TrEMBL
  ENSCAFG00040000937 UniProtKB/TrEMBL
  ENSCAFG00040023451 UniProtKB/TrEMBL
  ENSCAFG00845001853 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000026771.5 UniProtKB/TrEMBL
  ENSCAFT00030001813.1 UniProtKB/TrEMBL
  ENSCAFT00030001838.1 UniProtKB/TrEMBL
  ENSCAFT00030001852.1 UniProtKB/TrEMBL
  ENSCAFT00040001703.1 UniProtKB/TrEMBL
  ENSCAFT00040001712.1 UniProtKB/TrEMBL
  ENSCAFT00040001722.1 UniProtKB/TrEMBL
  ENSCAFT00040043586.1 UniProtKB/TrEMBL
  ENSCAFT00845003251 ENTREZGENE
  ENSCAFT00845003251.1 UniProtKB/TrEMBL
  ENSCAFT00845003264.1 UniProtKB/TrEMBL
  ENSCAFT00845003277.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.2100 UniProtKB/TrEMBL
  Nucleoplasmin core domain UniProtKB/TrEMBL
InterPro NPM1_C UniProtKB/TrEMBL
  Nucleoplasmin UniProtKB/TrEMBL
  Nucleoplasmin_core_dom UniProtKB/TrEMBL
  Nucleoplasmin_core_dom_sf UniProtKB/TrEMBL
KEGG Report cfa:479292 UniProtKB/TrEMBL
NCBI Gene NPM1 ENTREZGENE
PANTHER NUCLEOPHOSMIN UniProtKB/TrEMBL
  PTHR22747 UniProtKB/TrEMBL
Pfam NPM1-C UniProtKB/TrEMBL
  Nucleoplasmin UniProtKB/TrEMBL
Superfamily-SCOP SSF69203 UniProtKB/TrEMBL
UniProt A0A8C0LXI2_CANLF UniProtKB/TrEMBL
  A0A8C0PRY9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0RUX0_CANLF UniProtKB/TrEMBL
  A0A8C0TJ52 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MEU8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MH65_CANLF UniProtKB/TrEMBL
  A0A8I3MLI4_CANLF UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-07-11 NPM1  nucleophosmin 1    nucleophosmin  Symbol and/or name change 5135510 APPROVED