Nop58 (NOP58 ribonucleoprotein) - Rat Genome Database

Name: Nop58
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Nop58 (NOP58 ribonucleoprotein) Rattus norvegicus

Analyze

Symbol:

Nop58

Name:

NOP58 ribonucleoprotein

RGD ID:

620484

Description:

Predicted to enable ATPase binding activity; TFIID-class transcription factor complex binding activity; and snoRNA binding activity. Predicted to be involved in ribosomal small subunit biogenesis and snoRNA localization. Predicted to be located in Cajal body; cytosol; and fibrillar center. Predicted to be part of box C/D RNP complex; pre-snoRNP complex; and small-subunit processome. Orthologous to human NOP58 (NOP58 ribonucleoprotein); PARTICIPATES IN ribosome biogenesis pathway; INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 3,3',4,4',5-pentachlorobiphenyl.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

MGC105440; Nap65; Nol5; NOP58 ribonucleoprotein homolog; NOP58 ribonucleoprotein homolog (yeast); Nopp140 associated protein; nopp140-associated protein of 65 kDa; nucleolar protein 5; nucleolar protein 58; nucleolar protein NOP58

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	NOP58 (NOP58 ribonucleoprotein)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Nop58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Nop58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NOP58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NOP58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nop58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NOP58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NOP58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nop58 (NOP58 ribonucleoprotein)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	NOP58 (NOP58 ribonucleoprotein)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Nop58 (NOP58 ribonucleoprotein)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	nop58 (NOP58 ribonucleoprotein homolog (yeast))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	NOP58	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	nol-58	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	nop5	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	nop58	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	9	61,120,939 - 61,144,810 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	61,120,929 - 61,144,810 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	9	69,615,623 - 69,639,722 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	9	74,731,599 - 74,755,698 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	9	73,049,892 - 73,073,989 (+)	NCBI	Rnor_WKY
Rnor_6.0	9	66,495,881 - 66,520,521 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	66,495,832 - 66,519,788 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	66,300,036 - 66,323,766 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	9	58,255,685 - 58,279,522 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	9	58,402,666 - 58,426,502 (+)	NCBI
Celera	9	58,555,582 - 58,579,638 (+)	NCBI		Celera
Cytogenetic Map	9	q31	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Animal Disease Models (ISO)

autoimmune lymphoproliferative syndrome type 2B (ISO)

Autoimmune Lymphoproliferative Syndrome, Type V (ISO)

common variable immunodeficiency 1 (ISO)

genetic disease (ISO)

lung adenocarcinoma (ISO)

Neurodevelopmental Disorders (ISO)

primary pulmonary hypertension (ISO)

Primary Pulmonary Hypertension, 1 (ISO)

Pulmonary Arterial Hypertension (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

(1->4)-beta-D-glucan (ISO)

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

2,4-dinitrotoluene (EXP)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3,4-methylenedioxymethamphetamine (EXP)

3-chloropropane-1,2-diol (EXP)

3-methylcholanthrene (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

acetamide (EXP)

acrylamide (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

antimycin A (ISO)

antirheumatic drug (ISO)

aristolochic acid A (ISO)

Aroclor 1254 (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

buspirone (EXP)

cadmium dichloride (EXP)

caffeine (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

casticin (ISO)

chloropicrin (ISO)

chloroprene (EXP)

chromium(6+) (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

cyclosporin A (ISO)

deguelin (ISO)

dibutyl phthalate (EXP,ISO)

dicrotophos (ISO)

dioxygen (ISO)

disodium selenite (ISO)

enzyme inhibitor (ISO)

ethyl methanesulfonate (ISO)

fenthion (ISO)

fluoranthene (ISO)

flutamide (EXP)

folic acid (ISO)

furan (ISO)

gamma-hexachlorocyclohexane (EXP)

gentamycin (EXP)

glafenine (EXP)

hydrogen peroxide (ISO)

hydroxyurea (ISO)

indole-3-methanol (EXP)

ivermectin (ISO)

menadione (ISO)

mercury dichloride (EXP)

metformin (EXP)

methidathion (ISO)

Monobutylphthalate (ISO)

N-methyl-4-phenylpyridinium (ISO)

N-nitrosodiethylamine (EXP)

ozone (ISO)

p-anisidine (ISO)

paclitaxel (ISO)

paracetamol (ISO)

paraquat (EXP)

PCB138 (ISO)

pentachlorophenol (ISO)

perfluorooctane-1-sulfonic acid (ISO)

phenobarbital (EXP)

phorone (EXP)

picoxystrobin (ISO)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (ISO)

pyrimidifen (ISO)

resveratrol (ISO)

rotenone (EXP,ISO)

silicon dioxide (ISO)

sodium arsenate (ISO)

sodium dichromate (EXP)

sodium fluoride (ISO)

tamoxifen (ISO)

tebufenpyrad (ISO)

testosterone (ISO)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

Tributyltin oxide (ISO)

triphenyl phosphate (EXP)

Triptolide (ISO)

triptonide (ISO)

valproic acid (ISO)

vinclozolin (EXP)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

ribosomal small subunit biogenesis (ISO,ISS)

ribosome biogenesis (IEA)

snoRNA localization (ISO)

Cellular Component

box C/D RNP complex (IBA,IEA,ISO)

Cajal body (ISO)

cytosol (IEA,ISO)

fibrillar center (IEA,ISO)

nucleolus (IEA,ISO)

nucleoplasm (ISO)

pre-snoRNP complex (ISO)

small-subunit processome (IBA,IEA,ISO,ISS)

sno(s)RNA-containing ribonucleoprotein complex (ISO)

Molecular Function

ATPase binding (ISO)

protein binding (IPI,ISO)

snoRNA binding (IBA,IEA,ISO)

TFIID-class transcription factor complex binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

ribosome biogenesis pathway (IEA,ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	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.
2.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
4.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
7.	Comprehensive gene review and curation	RGD comprehensive gene curation
8.	The box C/D and H/ACA snoRNPs: key players in the modification, processing and the dynamic folding of ribosomal RNA.	Watkins NJ and Bohnsack MT, Wiley Interdiscip Rev RNA. 2012 May-Jun;3(3):397-414. doi: 10.1002/wrna.117. Epub 2011 Nov 7.
9.	Conserved composition of mammalian box H/ACA and box C/D small nucleolar ribonucleoprotein particles and their interaction with the common factor Nopp140.	Yang Y, etal., Mol Biol Cell 2000 Feb;11(2):567-77.

Additional References at PubMed

PMID:10925205	PMID:12477932	PMID:16687569	PMID:17636026	PMID:19946888	PMID:22082260	PMID:22658674	PMID:22681889

Genomics

Comparative Map Data

Nop58
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	9	61,120,939 - 61,144,810 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	61,120,929 - 61,144,810 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	9	69,615,623 - 69,639,722 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	9	74,731,599 - 74,755,698 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	9	73,049,892 - 73,073,989 (+)	NCBI	Rnor_WKY
Rnor_6.0	9	66,495,881 - 66,520,521 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	66,495,832 - 66,519,788 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	9	66,300,036 - 66,323,766 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	9	58,255,685 - 58,279,522 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	9	58,402,666 - 58,426,502 (+)	NCBI
Celera	9	58,555,582 - 58,579,638 (+)	NCBI		Celera
Cytogenetic Map	9	q31	NCBI

NOP58
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	202,265,763 - 202,303,661 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	2	202,265,736 - 202,303,661 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	203,130,486 - 203,168,384 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	202,838,760 - 202,876,629 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	202,956,020 - 202,993,888	NCBI
Celera	2	196,882,417 - 196,920,291 (+)	NCBI		Celera
Cytogenetic Map	2	q33.1	NCBI
HuRef	2	194,979,023 - 195,015,805 (+)	NCBI		HuRef
CHM1_1	2	203,136,987 - 203,174,808 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	202,746,796 - 202,784,682 (+)	NCBI		T2T-CHM13v2.0

Nop58
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	59,724,134 - 59,750,669 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	59,724,130 - 59,758,203 (+)	Ensembl		GRCm39 Ensembl
GRCm38	1	59,684,961 - 59,711,510 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	59,684,971 - 59,719,044 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	59,741,850 - 59,768,354 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	1	59,629,645 - 59,656,054 (+)	NCBI		MGSCv36	mm8
Celera	1	60,199,706 - 60,226,206 (+)	NCBI		Celera
Cytogenetic Map	1	C2	NCBI

Nop58
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955457	12,479,965 - 12,511,678 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955457	12,481,467 - 12,511,678 (-)	NCBI	ChiLan1.0	ChiLan1.0

NOP58
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1	2B	104,905,239 - 104,943,091 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2B	89,520,961 - 89,558,794 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2B	207,674,433 - 207,707,763 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	207,674,654 - 207,707,763 (+)	Ensembl	panpan1.1		panPan2

NOP58
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	37	11,255,562 - 11,287,325 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	37	11,255,589 - 11,287,279 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	37	12,138,970 - 12,170,731 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	37	11,191,615 - 11,223,536 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	37	11,191,646 - 11,223,757 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	37	11,142,546 - 11,173,876 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	37	11,121,045 - 11,152,921 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	37	11,114,468 - 11,146,228 (+)	NCBI		UU_Cfam_GSD_1.0

Nop58
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405303	159,486,721 - 159,517,681 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936726	1,457,002 - 1,486,530 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936726	1,457,038 - 1,487,374 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NOP58
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	15	105,893,637 - 105,930,459 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	105,893,589 - 105,930,458 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	117,351,116 - 117,380,896 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NOP58
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	10	87,989,687 - 88,026,774 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	10	87,989,699 - 88,026,904 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666040	111,362,208 - 111,399,710 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nop58
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624765	14,139,815 - 14,172,413 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Nop58
135 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	22
Count of miRNA genes:	19
Interacting mature miRNAs:	22
Transcripts:	ENSRNOT00000022676
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
10054125	Srcrt7	Stress Responsive Cort QTL 7	3.33	0.0011	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	9	1	87073594	Rat
1331757	Cdexp1	CD45RC expression in CD8 T cells QTL 1	4.3		CD8-positive T cell quantity (VT:0008077)	blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)	9	1024537	67509080	Rat
631680	Cm11	Cardiac mass QTL 11	3.1	0.00089	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	9	20430519	65430519	Rat
70186	Niddm26	Non-insulin dependent diabetes mellitus QTL 26	3.87		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	9	22071169	86369743	Rat
631643	Bp120	Blood pressure QTL 120	3	0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	22071200	67071200	Rat
1300180	Bw14	Body weight QTL 14	3.776		body mass (VT:0001259)	body weight (CMO:0000012)	9	23754024	61381613	Rat
7207814	Bmd91	Bone mineral density QTL 91	3.5		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	9	23754144	83851531	Rat
70218	Cm28	Cardiac mass QTL 28	8.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	9	25268044	79271759	Rat
724544	Uae9	Urinary albumin excretion QTL 9	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	9	25268044	114175309	Rat
731164	Uae25	Urinary albumin excretion QTL 25	3.5	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	25661188	100929786	Rat
1641894	Alcrsp12	Alcohol response QTL 12			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	27468639	72468639	Rat
7411656	Foco26	Food consumption QTL 26	9.8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	32535505	77535505	Rat
7411571	Bw138	Body weight QTL 138	14.3	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	9	32535505	77535505	Rat
1598834	Memor11	Memory QTL 11	2.5		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	9	36962359	77814038	Rat
8662828	Vetf6	Vascular elastic tissue fragility QTL 6	3.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	9	36962359	92058970	Rat
2290450	Scl57	Serum cholesterol level QTL 57	4.15		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	9	36962359	95410867	Rat
6903941	Pur31	Proteinuria QTL 31		0.036	urine total protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	9	40194188	85194188	Rat
11353949	Bp393	Blood pressure QTL 393			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	40194188	85194188	Rat
61352	Bp34	Blood pressure QTL 34	5		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	42495343	79271511	Rat
10058949	Gmadr5	Adrenal mass QTL 5	2	0.014	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	9	42791513	87976209	Rat
11353951	Bp394	Blood pressure QTL 394			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	44649921	89649921	Rat
12879506	Pur33	Proteinuria QTL 33			urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	9	44649921	89649921	Rat
11353957	Bmd92	Bone mineral density QTL 92		0.01	tibia mineral mass (VT:1000283)	volumetric bone mineral density (CMO:0001553)	9	46114199	91114199	Rat
631656	Bp108	Blood pressure QTL 108	5.97	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	48598251	93598251	Rat
1598849	Memor17	Memory QTL 17	2.2		exploratory behavior trait (VT:0010471)	difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	9	49968546	71098346	Rat
2303170	Bp332	Blood pressure QTL 332	3.73	0.027	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	55847841	77026453	Rat
2303180	Bp333	Blood pressure QTL 333		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	56627713	78595166	Rat
2303180	Bp333	Blood pressure QTL 333		0.001	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	9	56627713	78595166	Rat
2303180	Bp333	Blood pressure QTL 333		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	56627713	78595166	Rat
1578760	Cm53	Cardiac mass QTL 53	3.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	9	56771635	101771635	Rat
724515	Uae16	Urinary albumin excretion QTL 16	8		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	58163035	100929646	Rat

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	37	56	40	19	40	5	7	74	35	41	11	5
Low		6	1	1		1	3	4					3
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_021754	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006245013	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039084153	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039084154	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF194371	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC087637	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473965	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225580	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ230388	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000214	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000022676 ⟹ ENSRNOP00000022676

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	61,120,942 - 61,144,810 (+)	Ensembl
Rnor_6.0 Ensembl	9	66,495,832 - 66,519,769 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000091283 ⟹ ENSRNOP00000073311

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	61,120,929 - 61,144,806 (+)	Ensembl
Rnor_6.0 Ensembl	9	66,495,840 - 66,519,788 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000099256 ⟹ ENSRNOP00000082410

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	9	61,121,671 - 61,144,810 (+)	Ensembl

RefSeq Acc Id:

NM_021754 ⟹ NP_068522

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	9	61,120,970 - 61,144,810 (+)	NCBI
Rnor_6.0	9	66,495,881 - 66,519,790 (+)	NCBI
Rnor_5.0	9	66,300,036 - 66,323,766 (+)	NCBI
RGSC_v3.4	9	58,255,685 - 58,279,522 (+)	RGD
Celera	9	58,555,582 - 58,579,638 (+)	RGD

Sequence:

show sequence

GGCACGAGGGAACGTCTAGGCAACGTGGTCTCCCCGCCCGCGGGTAGGCAAAGGCGTTTGCGCT
TCCCAGCGTCTGAGGCCTAGGGAGCCTTCAGTAGCCGAAAGTTAGTCTTTTGCAGTGGAGTAAG
GGCTCGCGGTTAGCCGCGTAGCGCCCGGATCTGGCCTCACCATGTTGGTCCTATTTGAAACGTC
CGTTGGCTACGCCATCTTTAAGGTTCTGAATGAGAAGAAACTTCAAGAGGTTGATAGTTTGTGG
AAAGAATTTGAAACTCCAGAGAAAGCAAATAAAATAGTAAAGCTAAAACATTTTGAGAAATTTC
AGGATACAGCAGAAGCATTAGCAGCGTTCACAGCTCTGATGGAAGGCAAGATCAATAAGCAGCT
GAAAAAAGTTTTGAAGAAAATAGTCAAAGAAGCCCATGAACCTCTGGCTGTAGCTGATGCTAAG
CTAGGAGGGGTCATAAAGGAAAAATTGAATCTCAGCTGTATCCATAGTCCTGTTGTTAATGAAC
TTATGAGAGGAATACGATCACAAATGGATGGCTTGATTCCTGGGGTAGAACCACGGGAGATGGC
AGCCATGTGTCTTGGACTAGCCCACAGCCTATCTCGATACAGATTGAAATTCAGTGCTGATAAA
GTAGACACAATGATCGTTCAGGCAATTTCCTTGTTAGATGACTTGGATAAAGAACTAAACAACT
ACATTATGCGGTGTAGGGAATGGTATGGCTGGCATTTTCCTGAGTTAGGGAAAATTATTTCAGA
TAATTTGACATACTGCAAGTGTTTACAGAAAGTTGGAGACAGGAAGAACTATGCATCTGCCACT
CTTTCTGAATTCCTGTCAGAGGAAGTAGAAGCTGAAGTGAAAGCAGCTGCAGAGATCTCTATGG
GAACAGAGGTTTCTGAAGAAGATATTTGCAACATTCTACATCTGTGTACTCAGGTCATTGAAAT
TTCTGAATATAGAACTCAGCTGTATGAATATCTGCAAAACCGAATGATGGCCATTGCACCCAAT
GTTACAGTCATGGTTGGGGAGTTGGTTGGAGCGCGGCTTATTGCTCATGCAGGTTCTCTTTTGA
ATTTGGCCAAGCATGCAGCTTCTACAGTTCAGATTCTGGGAGCAGAAAAGGCACTTTTCAGGGC
CCTCAAATCTAGACGAGACACACCTAAATATGGGCTTATTTATCATGCTTCTCTTGTAGGCCAG
ACGAGTCCCAAACACAAAGGAAAGATTTCACGAATGCTGGCGGCCAAAACTGTGTTGGCTATCA
GATACGACGCCTTTGGTGAAGATTCCAGCTCTGCAATGGGAGCTGAGAACAGAGCCAAATTAGA
GGCCAGATTGAGGATTTTGGAGGACAGAGGGATAAGAAAAATAAGTGGAACGGGAAAGGCATTA
GCAAAAGCAGAAAAGTATGAACACAAAAGTGAAGTGAAGACTTACGATCCCTCTGGTGACTCCA
CACTTCCAACTTGTTCTAAAAAACGCAAAATAGAAGAGGTTGATAAAGAGGATGAAATTACTGA
AAAGAAAGCAAAAAAAGCCAAGATTAAAATTAAAGCTGAAGTAGAGGAGGAGATGGAGGAGGCG
GAGGAAGAACAGGTAGTAGAAGAGGAGCCGACTGTAAAGAAGAAAAAGAAGAAGGATAAAAAGA
AACACATAAAGGAAGAGCCACTTTCCGAGGAGGAGCCATGCACCAGCACAGCAGTTCCTAGTCC
AGAGAAAAAGAAGAAAAAGAAAAAAAAGAAAGATGCTGAAGACTAATGTAAAGGAACCGTAATC
CTGTCACCTGAACACATCATGCTTAAGATTCAGTTGGGAGCATATCAGACGCTCTAACATAATC
AAGGGAGGTTGATTAGCTTTAGCTTTTCAAACCTTTTTGTGTCTTGACATCAACTGTTAACCTT
AGAGTCTTTGATACACAAATAAAAATATTTTCTTTGTATTATAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_039084153 ⟹ XP_038940081

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	9	61,120,939 - 61,144,804 (+)	NCBI

RefSeq Acc Id:

XM_039084154 ⟹ XP_038940082

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	9	61,120,944 - 61,144,658 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_068522	(Get FASTA)	NCBI Sequence Viewer
	XP_038940081	(Get FASTA)	NCBI Sequence Viewer
	XP_038940082	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAF05769	(Get FASTA)	NCBI Sequence Viewer
	AAH87637	(Get FASTA)	NCBI Sequence Viewer
	EDL98947	(Get FASTA)	NCBI Sequence Viewer
	EDL98948	(Get FASTA)	NCBI Sequence Viewer
	Q9QZ86	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_068522 ⟸ NM_021754

- UniProtKB:

O88525 (UniProtKB/Swiss-Prot), Q9QZ86 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MLVLFETSVGYAIFKVLNEKKLQEVDSLWKEFETPEKANKIVKLKHFEKFQDTAEALAAFTALM
EGKINKQLKKVLKKIVKEAHEPLAVADAKLGGVIKEKLNLSCIHSPVVNELMRGIRSQMDGLIP
GVEPREMAAMCLGLAHSLSRYRLKFSADKVDTMIVQAISLLDDLDKELNNYIMRCREWYGWHFP
ELGKIISDNLTYCKCLQKVGDRKNYASATLSEFLSEEVEAEVKAAAEISMGTEVSEEDICNILH
LCTQVIEISEYRTQLYEYLQNRMMAIAPNVTVMVGELVGARLIAHAGSLLNLAKHAASTVQILG
AEKALFRALKSRRDTPKYGLIYHASLVGQTSPKHKGKISRMLAAKTVLAIRYDAFGEDSSSAMG
AENRAKLEARLRILEDRGIRKISGTGKALAKAEKYEHKSEVKTYDPSGDSTLPTCSKKRKIEEV
DKEDEITEKKAKKAKIKIKAEVEEEMEEAEEEQVVEEEPTVKKKKKKDKKKHIKEEPLSEEEPC
TSTAVPSPEKKKKKKKKKDAED

hide sequence

RefSeq Acc Id:

ENSRNOP00000073311 ⟸ ENSRNOT00000091283

RefSeq Acc Id:

ENSRNOP00000022676 ⟸ ENSRNOT00000022676

RefSeq Acc Id:	XP_038940081 ⟸ XM_039084153
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038940082 ⟸ XM_039084154
- Peptide Label:	isoform X1

RefSeq Acc Id:

ENSRNOP00000082410 ⟸ ENSRNOT00000099256

Protein Domains

Nop

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q9QZ86-F1-model_v2	AlphaFold	Q9QZ86	1-534	view protein structure

Transcriptome

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

Promoters

RGD ID:

13696709

Promoter ID:

EPDNEW_R7228

Type:

initiation region

Name:

Nop58_1

Description:

NOP58 ribonucleoprotein

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	9	66,495,853 - 66,495,913	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620484	AgrOrtholog
BioCyc Gene	G2FUF-27403	BioCyc
Ensembl Genes	ENSRNOG00000016486	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000022676	ENTREZGENE
	ENSRNOP00000022676.3	UniProtKB/Swiss-Prot
	ENSRNOP00000073311.1	UniProtKB/TrEMBL
	ENSRNOP00000082410.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000022676	ENTREZGENE
	ENSRNOT00000022676.7	UniProtKB/Swiss-Prot
	ENSRNOT00000091283.2	UniProtKB/TrEMBL
	ENSRNOT00000099256.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.246.90	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	1.10.287.4070	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7309062	IMAGE-MGC_LOAD
InterPro	Nop56/Nop58	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	NOP5_N	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nop_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nop_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nop_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	NOSIC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:60373	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105440	IMAGE-MGC_LOAD
NCBI Gene	60373	ENTREZGENE
PANTHER	NUCLEOLAR PROTEIN 58	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR10894	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Nop	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	NOP5NT	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Nop58	PhenoGen
PROSITE	NOP	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	NOSIC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF89124	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I5ZV87_RAT	UniProtKB/TrEMBL
	NOP58_RAT	UniProtKB/Swiss-Prot
	O88525	ENTREZGENE
	Q5PPK6_RAT	UniProtKB/TrEMBL
	Q9QZ86	ENTREZGENE
UniProt Secondary	O88525	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2012-12-18	Nop58	NOP58 ribonucleoprotein	Nop58	NOP58 ribonucleoprotein homolog (yeast)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-05-03	Nop58	NOP58 ribonucleoprotein homolog (yeast)	Nop58	nucleolar protein NOP58	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2009-10-22	Nop58	nucleolar protein NOP58	Nol5	nucleolar protein 5	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-20	Nol5	nucleolar protein 5	Nap65	Nopp140 associated protein	Symbol and Name updated	1299863	APPROVED
2002-08-07	Nap65	Nopp140 associated protein			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_homology	has homology with yeast Nop5/58p	633515
gene_physical_interaction	interacts with Nopp140	633515

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)