Nop9 (NOP9 nucleolar protein) - Rat Genome Database

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Gene: Nop9 (NOP9 nucleolar protein) Mus musculus
Analyze
Symbol: Nop9
Name: NOP9 nucleolar protein
RGD ID: 1318143
MGI Page MGI
Description: Predicted to enable RNA binding activity. Predicted to be involved in ribosome biogenesis. Predicted to be part of 90S preribosome and preribosome, small subunit precursor. Predicted to be active in nucleolus. Orthologous to human NOP9 (NOP9 nucleolar protein).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 2610027L16Rik; nucleolar protein 9; pumilio domain-containing protein C14orf21 homolog; pumilio domain-containing protein NOP9
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391455,983,150 - 55,993,091 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1455,983,150 - 55,992,957 (+)EnsemblGRCm39 Ensembl
GRCm381455,745,693 - 55,755,634 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,745,693 - 55,755,500 (+)EnsemblGRCm38mm10GRCm38
MGSCv371456,364,530 - 56,374,471 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,699,784 - 54,708,135 (+)NCBIMGSCv36mm8
Celera1453,550,741 - 53,560,682 (+)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
RNA binding  (IBA)

References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Database resources of the National Center for Biotechnology Information. Wheeler DL, etal., Nucleic Acids Res 2001 Jan 1;29(1):11-6.
Additional References at PubMed
PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:12477932   PMID:12520002   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073   PMID:21677750   PMID:21873635  
PMID:24457600   PMID:28378742  


Genomics

Comparative Map Data
Nop9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391455,983,150 - 55,993,091 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1455,983,150 - 55,992,957 (+)EnsemblGRCm39 Ensembl
GRCm381455,745,693 - 55,755,634 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1455,745,693 - 55,755,500 (+)EnsemblGRCm38mm10GRCm38
MGSCv371456,364,530 - 56,374,471 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361454,699,784 - 54,708,135 (+)NCBIMGSCv36mm8
Celera1453,550,741 - 53,560,682 (+)NCBICelera
Cytogenetic Map14C3NCBI
cM Map1428.19NCBI
NOP9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381424,271,203 - 24,309,124 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1424,299,850 - 24,309,124 (+)EnsemblGRCh38hg38GRCh38
GRCh371424,769,056 - 24,778,330 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361423,838,938 - 23,844,214 (+)NCBINCBI36Build 36hg18NCBI36
Build 341423,838,937 - 23,844,214NCBI
Celera144,633,722 - 4,639,003 (+)NCBICelera
Cytogenetic Map14q12NCBI
HuRef144,884,260 - 4,889,541 (+)NCBIHuRef
CHM1_11424,767,698 - 24,772,974 (+)NCBICHM1_1
T2T-CHM13v2.01418,498,194 - 18,507,467 (+)NCBIT2T-CHM13v2.0
Nop9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81533,213,786 - 33,222,147 (+)NCBIGRCr8
mRatBN7.21529,243,853 - 29,252,220 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1529,243,862 - 29,252,220 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1531,089,539 - 31,097,897 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01532,236,751 - 32,245,109 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01530,479,099 - 30,487,448 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01534,431,357 - 34,439,861 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1534,431,357 - 34,439,861 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01538,320,522 - 38,328,222 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41533,908,034 - 33,916,489 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11533,923,804 - 33,931,934 (+)NCBI
Celera1528,819,509 - 28,826,943 (+)NCBICelera
Cytogenetic Map15p13NCBI
Nop9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540935,992,160 - 36,002,459 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540935,996,918 - 36,002,460 (-)NCBIChiLan1.0ChiLan1.0
LOC100979193
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21525,654,963 - 25,667,203 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11424,871,389 - 24,880,710 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0145,076,270 - 5,085,596 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11423,199,608 - 23,208,877 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1423,199,608 - 23,208,877 (+)Ensemblpanpan1.1panPan2
NOP9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.184,270,192 - 4,275,722 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl84,270,243 - 4,275,677 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha84,191,860 - 4,197,386 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.084,381,002 - 4,386,524 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl84,381,048 - 4,386,513 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.184,071,346 - 4,076,867 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.084,133,176 - 4,138,695 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.084,395,760 - 4,401,279 (+)NCBIUU_Cfam_GSD_1.0
Nop9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864036,133,040 - 36,139,009 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936722249,358 - 256,192 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936722250,001 - 255,908 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NOP9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl774,985,753 - 74,992,946 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1774,985,748 - 74,992,108 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2780,256,688 - 80,263,045 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NOP9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1241,282,877 - 1,288,265 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl241,282,873 - 1,288,148 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603612,967,398 - 12,976,701 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nop9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248208,199,110 - 8,204,612 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248208,199,350 - 8,204,619 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nop9
191 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:727
Count of miRNA genes:452
Interacting mature miRNAs:539
Transcripts:ENSMUST00000019441
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143322195759437449Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse
4141484Hcbip1_mhexachlorobenzene induced porphyria 1 (mouse)Not determined4733525059962593Mouse
1300605El5_mepilepsy 5 (mouse)Not determined144945542583455556Mouse
4142364Pbwg18_mpostnatal body weight growth 18 (mouse)Not determined145228198486282125Mouse
1301489Lbm10_mlean body mass 10 (mouse)Not determined145376129687761529Mouse
12880432Fgf23lq3_mFGF23 serum level QTL 3 (mouse)145393744087937440Mouse

Markers in Region
AI790179  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381455,754,134 - 55,754,232UniSTSGRCm38
MGSCv371456,372,971 - 56,373,069UniSTSGRCm37
Celera1453,559,182 - 53,559,280UniSTS
Cytogenetic Map14C1UniSTS
Whitehead/MRC_RH14422.58UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_026403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC098877 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK011570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK015585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK032873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK037831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK050912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK083861 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK139689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK146020 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK146687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK152732 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK154387 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK159798 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK178392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK185037 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK208092 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK219900 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AW700995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC018523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CJ098414 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000019441   ⟹   ENSMUSP00000019441
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,983,150 - 55,992,957 (+)Ensembl
GRCm38.p6 Ensembl1455,745,693 - 55,755,500 (+)Ensembl
RefSeq Acc Id: ENSMUST00000227300
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1455,986,683 - 55,990,015 (+)Ensembl
GRCm38.p6 Ensembl1455,749,226 - 55,752,558 (+)Ensembl
RefSeq Acc Id: NM_026403   ⟹   NP_080679
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391455,983,150 - 55,993,091 (+)NCBI
GRCm381455,745,693 - 55,755,634 (+)NCBI
MGSCv371456,364,530 - 56,374,471 (+)RGD
Celera1453,550,741 - 53,560,682 (+)RGD
cM Map14 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_080679   ⟸   NM_026403
- UniProtKB: Q9D0C6 (UniProtKB/Swiss-Prot),   Q8VEF9 (UniProtKB/Swiss-Prot),   Q8BYV4 (UniProtKB/Swiss-Prot),   Q8BKR9 (UniProtKB/Swiss-Prot),   Q3TW87 (UniProtKB/Swiss-Prot),   Q9D5A8 (UniProtKB/Swiss-Prot),   Q8BMC4 (UniProtKB/Swiss-Prot),   Q3U480 (UniProtKB/TrEMBL),   Q3U7B7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000019441   ⟸   ENSMUST00000019441

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8BMC4-F1-model_v2 AlphaFold Q8BMC4 1-636 view protein structure

Promoters
RGD ID:8682468
Promoter ID:EPDNEW_M19265
Type:initiation region
Name:Nop9_1
Description:Mus musculus NOP9 nucleolar protein , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381455,745,717 - 55,745,777EPDNEW
RGD ID:6824554
Promoter ID:MM_KWN:16987
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:NM_026403,   NM_026819_DHRS1,   OTTMUST00000068964
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361456,364,126 - 56,364,632 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1915092 AgrOrtholog
Ensembl Genes ENSMUSG00000019297 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000019441 ENTREZGENE
  ENSMUST00000019441.9 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NOP9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pumilio_RNA-bd_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:67842 UniProtKB/Swiss-Prot
MGD MGI:1915092 ENTREZGENE
NCBI Gene 67842 ENTREZGENE
PANTHER NUCLEOLAR PROTEIN 9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR13102 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Nop9 PhenoGen
SMART Pumilio UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt NOP9_MOUSE UniProtKB/Swiss-Prot
  Q3TW87 ENTREZGENE
  Q3U480 ENTREZGENE, UniProtKB/TrEMBL
  Q3U7B7 ENTREZGENE, UniProtKB/TrEMBL
  Q8BKR9 ENTREZGENE
  Q8BMC4 ENTREZGENE
  Q8BYV4 ENTREZGENE
  Q8VEF9 ENTREZGENE
  Q9D0C6 ENTREZGENE
  Q9D5A8 ENTREZGENE
UniProt Secondary Q3TW87 UniProtKB/Swiss-Prot
  Q8BKR9 UniProtKB/Swiss-Prot
  Q8BYV4 UniProtKB/Swiss-Prot
  Q8VEF9 UniProtKB/Swiss-Prot
  Q9D0C6 UniProtKB/Swiss-Prot
  Q9D5A8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-27 Nop9  NOP9 nucleolar protein  2610027L16Rik  RIKEN cDNA 2610027L16 gene  Symbol and/or name change 5135510 APPROVED