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Gene: Nup50 (nucleoporin 50) Rattus norvegicus

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Symbol:

Nup50

Name:

nucleoporin 50

RGD ID:

3191

Description:

Predicted to be involved in protein import into nucleus. Predicted to act upstream of or within neural tube formation. Part of nuclear pore. Orthologous to human NUP50 (nucleoporin 50); PARTICIPATES IN RNA transport pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dibromophenyl 2,4,5-tribromophenyl ether; 2,4-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

50 kDa nucleoporin; Npap60; nuclear pore associated protein; nuclear pore complex protein Nup50; nuclear pore-associated protein 60 kDa-like; nucleoporin 50 kDa; nucleoporin Nup50; nucleoprotein 50; Nucleoprotein 50kD; Rtp60

RGD Orthologs

Alliance Orthologs

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):	NUP50 (nucleoporin 50)	HGNC	EggNOG, Ensembl, HomoloGene, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Nup50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Nup50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NUP50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NUP50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nup50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NUP50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NUP50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nup50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Nup50 (nucleoporin 50)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	SORCS3 (sortilin related VPS10 domain containing receptor 3)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	NUP50 (nucleoporin 50)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Nup50 (nucleoporin 50)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	nup50 (nucleoporin 50)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Nup50	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	npp-16	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	npp-16	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	nup50	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	nup50	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER\|PhylomeDB)

Related Pseudogenes:

Nup50-ps1

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	117,927,882 - 117,945,155 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	117,925,716 - 117,946,959 (+)	Ensembl				GRCr8
mRatBN7.2	7	116,047,960 - 116,065,231 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	116,048,021 - 116,066,905 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	117,798,266 - 117,815,526 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	120,023,994 - 120,041,254 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	119,993,435 - 120,010,695 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	125,833,557 - 125,850,830 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	125,833,557 - 125,850,827 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	125,547,680 - 125,566,758 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	122,945,879 - 122,963,152 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	112,345,858 - 112,363,874 (+)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

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

2,4-dibromophenyl 2,4,5-tribromophenyl ether (EXP)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

acrolein (ISO)

aflatoxin B1 (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

antimycin A (ISO)

aristolochic acids (EXP)

arsane (ISO)

arsenic atom (ISO)

benzatropine (ISO)

benzo[a]pyrene (ISO)

beta-lapachone (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

Brodifacoum (EXP)

cadmium atom (ISO)

cadmium dichloride (ISO)

caffeine (ISO)

cannabidiol (ISO)

carbon nanotube (ISO)

chlorpyrifos (ISO)

clozapine (ISO)

cobalt dichloride (EXP,ISO)

copper(II) sulfate (ISO)

coumarin (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

cylindrospermopsin (ISO)

dexamethasone (ISO)

dibutyl phthalate (ISO)

diethylstilbestrol (ISO)

doxorubicin (ISO)

enzyme inhibitor (ISO)

estriol (ISO)

FR900359 (ISO)

gentamycin (EXP)

hexadecanoic acid (ISO)

hydrogen peroxide (ISO)

indometacin (ISO)

ivermectin (ISO)

methapyrilene (EXP)

methidathion (ISO)

methotrexate (ISO)

N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine (ISO)

N-methyl-4-phenylpyridinium (ISO)

nickel atom (ISO)

nitrates (ISO)

ochratoxin A (EXP)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (ISO)

perfluorohexanesulfonic acid (ISO)

perfluorooctane-1-sulfonic acid (EXP)

pirinixic acid (ISO)

piroxicam (ISO)

quercetin (ISO)

rotenone (EXP)

serpentine asbestos (ISO)

sodium arsenite (ISO)

tebufenpyrad (ISO)

tetrachloromethane (ISO)

theophylline (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

topotecan (EXP)

trichostatin A (ISO)

trimellitic anhydride (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mRNA transport (IEA)

neural tube formation (ISO)

protein import into nucleus (IBA)

protein transport (IEA)

Cellular Component

nuclear envelope (IEA,ISO)

nuclear membrane (IEA,ISO,ISS)

nuclear pore (IBA,IDA,IEA,ISO)

nucleoplasm (IEA,ISO)

Molecular Function

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

RNA transport pathway (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	cDNA cloning and characterization of Npap60: a novel rat nuclear pore-associated protein with an unusual subcellular localization during male germ cell differentiation.	Fan F, etal., Genomics 1997 Mar 15;40(3):444-53.
2.	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.
3.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
4.	Nup50, a nucleoplasmically oriented nucleoporin with a role in nuclear protein export.	Guan T, etal., Mol Cell Biol 2000 Aug;20(15):5619-30.
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
7.	GOA pipeline	RGD automated data pipeline
8.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
9.	Tentative Sequence Identification Numbers	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

Additional References at PubMed

PMID:10891500	PMID:12477932	PMID:12802065	PMID:30361391

Genomics

Comparative Map Data

Nup50
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	117,927,882 - 117,945,155 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	117,925,716 - 117,946,959 (+)	Ensembl				GRCr8
mRatBN7.2	7	116,047,960 - 116,065,231 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	116,048,021 - 116,066,905 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	117,798,266 - 117,815,526 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	120,023,994 - 120,041,254 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	119,993,435 - 120,010,695 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	125,833,557 - 125,850,830 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	125,833,557 - 125,850,827 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	125,547,680 - 125,566,758 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	122,945,879 - 122,963,152 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	112,345,858 - 112,363,874 (+)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

NUP50
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	22	45,163,925 - 45,188,017 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	22	45,163,925 - 45,188,017 (+)	Ensembl			hg38	GRCh38
GRCh37	22	45,559,806 - 45,583,898 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	43,938,390 - 43,962,556 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	22	43,880,262 - 43,901,242	NCBI
Celera	22	29,471,176 - 29,495,330 (+)	NCBI		Celera
Cytogenetic Map	22	q13.31	NCBI
HuRef	22	28,504,879 - 28,528,999 (+)	NCBI		HuRef
CHM1_1	22	45,518,475 - 45,542,587 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	22	45,648,418 - 45,672,453 (+)	NCBI		T2T-CHM13v2.0

Nup50
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	84,800,100 - 84,827,164 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	84,807,612 - 84,827,164 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	15	84,923,428 - 84,942,963 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	84,923,411 - 84,942,963 (+)	Ensembl			mm10	GRCm38
MGSCv37	15	84,753,858 - 84,773,393 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	15	84,751,194 - 84,770,729 (+)	NCBI		MGSCv36	mm8
Celera	15	87,057,804 - 87,077,342 (+)	NCBI		Celera
Cytogenetic Map	15	E2	NCBI
cM Map	15	40.25	NCBI

Nup50
(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_004955413	29,607,494 - 29,617,535 (+)	Ensembl
ChiLan1.0	NW_004955413	29,595,498 - 29,615,167 (+)	NCBI	ChiLan1.0	ChiLan1.0

NUP50
(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-v2	23	54,982,567 - 55,012,125 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	22	57,683,094 - 57,707,379 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	22	26,049,671 - 26,073,847 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	22	44,231,571 - 44,254,935 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	44,232,743 - 44,254,913 (+)	Ensembl			panPan2	panpan1.1

NUP50
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	20,828,879 - 20,846,539 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	20,825,574 - 20,844,617 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	20,751,101 - 20,771,376 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	21,563,761 - 21,584,081 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	21,560,456 - 21,584,299 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	21,284,362 - 21,304,284 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	21,597,797 - 21,618,019 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	21,778,397 - 21,798,651 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Nup50
(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_024404945	4,496,486 - 4,516,966 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936629	4,496,720 - 4,511,399 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936629	4,499,105 - 4,511,437 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NUP50
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	4,197,544 - 4,219,230 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	5	4,194,308 - 4,219,410 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	1,512,765 - 1,530,890 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NUP50
(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	19	27,632,467 - 27,656,892 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	19	27,632,545 - 27,653,563 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666045	97,682,814 - 97,707,737 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nup50
(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_female_1.0 Ensembl	NW_004624752	4,433,365 - 4,449,769 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624752	4,429,650 - 4,449,507 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Nup50
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	1	254,305,843 - 254,324,975 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Nup50
134 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	163
Count of miRNA genes:	113
Interacting mature miRNAs:	137
Transcripts:	ENSRNOT00000018155
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	92388565	119280177	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	82111245	123048330	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	104186212	135371468	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	73618702	118618702	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	93302009	131686183	Rat
61397	Bw17	Body weight QTL 17	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	7	95485047	137014596	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	115313999	136544683	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	46307490	127866166	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	85043242	130043242	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	85497398	130497398	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	92362341	137014596	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	83626689	128626689	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	82111382	132099989	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	98549867	137014596	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	77807807	122807807	Rat
631201	Panci1	Pancreas inflammation QTL 1	0	0.001	pancreas integrity trait (VT:0010560)	percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)	7	73557047	118557047	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	82111245	123048330	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	40540077	123682549	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	96700404	118618702	Rat
1331748	Bp215	Blood pressure QTL 215	4.043		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	110725024	135371468	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	100548246	137014596	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	82111245	134948181	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	77807807	122807807	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	116269196	132020414	Rat
10402855	Bp379	Blood pressure QTL 379		0.21	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	78682549	123682549	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	71621154	119349044	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	71827901	136544683	Rat

Markers in Region

RH128216

Rat Assembly	Chr	Position (strand)	Source	JBrowse
RH 3.4 Map	7	907.5	UniSTS
Cytogenetic Map	7	q34	UniSTS

Nup50

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	116,059,555 - 116,059,828 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	125,845,155 - 125,845,427	NCBI	Rnor6.0
Rnor_5.0	7	125,559,278 - 125,559,550	UniSTS	Rnor5.0
RGSC_v3.4	7	122,957,477 - 122,957,749	UniSTS	RGSC3.4
Celera	7	112,358,199 - 112,358,471	UniSTS
Cytogenetic Map	7	q34	UniSTS

RH128347

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	116,064,813 - 116,065,008 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	125,850,413 - 125,850,607	NCBI	Rnor6.0
Rnor_5.0	7	125,564,536 - 125,564,730	UniSTS	Rnor5.0
RGSC_v3.4	7	122,962,735 - 122,962,929	UniSTS	RGSC3.4
Celera	7	112,363,457 - 112,363,651	UniSTS
RH 3.4 Map	7	911.9	UniSTS
Cytogenetic Map	7	q34	UniSTS

RH143791

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	116,048,001 - 116,048,107 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	125,833,599 - 125,833,704	NCBI	Rnor6.0
Rnor_5.0	7	125,547,722 - 125,547,827	UniSTS	Rnor5.0
RGSC_v3.4	7	122,945,921 - 122,946,026	UniSTS	RGSC3.4
Celera	7	112,345,900 - 112,346,005	UniSTS
RH 3.4 Map	7	906.5	UniSTS
Cytogenetic Map	7	q34	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	163	91	90	59	92	59	6	356	192	11	142	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_012991	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC097337	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U41845	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000018155 ⟹ ENSRNOP00000018155

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	117,928,168 - 117,946,959 (+)	Ensembl
mRatBN7.2 Ensembl	7	116,048,021 - 116,066,905 (+)	Ensembl
Rnor_6.0 Ensembl	7	125,833,557 - 125,850,827 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000080933 ⟹ ENSRNOP00000075457

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	117,932,693 - 117,946,959 (+)	Ensembl
mRatBN7.2 Ensembl	7	116,052,769 - 116,066,905 (+)	Ensembl
Rnor_6.0 Ensembl	7	125,833,987 - 125,849,770 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000140228 ⟹ ENSRNOP00000110427

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	117,925,716 - 117,943,051 (+)	Ensembl

RefSeq Acc Id:

NM_012991 ⟹ NP_037123

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	117,927,882 - 117,945,155 (+)	NCBI
mRatBN7.2	7	116,047,960 - 116,065,231 (+)	NCBI
Rnor_6.0	7	125,833,557 - 125,850,830 (+)	NCBI
Rnor_5.0	7	125,547,680 - 125,566,758 (+)	NCBI
RGSC_v3.4	7	122,945,879 - 122,963,152 (+)	RGD
Celera	7	112,345,858 - 112,363,874 (+)	RGD

Sequence:

show sequence

GGCAGTAGCTGGATGAGGGCGTTGCTTGCCTCCTCCCTTTTTTTTCTCCGATTGGTTCTGAGGG
GTATATTCGAGTTGCAAAATGGCGGCCCCGAGCGCTCTCTTCAGCGTTCAGTAGCAGCTTCAGG
CTGAGCGGATGTCTCTTCTCCTCAGTTTCGGACTCAGAGACACGCGGCTCCCTACTCCTGCTGA
TCACGAAGTCCTTGAAGGCGCTCAACGCACCGGAATCTCCCAGCGGCCGCGACCGCCGCCTCGG
CCCTGCTCTCCGCGGCGCCGGAACTCAGCGTGATCTGCGGCGGCCGTCTAGGAGGTTCACAAAA
ATGGCGAAGAGAGTTGCGGAGAAGGAATTAACAGATAGGAATTGGGATGAAGAAGATGAAGTTG
AAGAGATGGGAACATTCTCAGTGGCCAGTGAGGAAGTCATGAAGAACAGAGCCGTGAAGAAGGC
AAAGCGTAGGAATATTGGCTTTGAATCTGATAGCGGAGGAGCCTTTAAAGGTTTCAAAGGGTTG
GTTGTGCCTTCTGGAGGAGGAGGGTTTTCTGGATTTGGTGGTGGCTCTGGAGGGAAGCCTCTGG
AAGGACTGACAAATGGAAACAGCACAGACAGTGCCACGCCCTTCTCCAGTGCAAAGACAGCAGC
GGAGCCTAAGGCAGCCTTTGGTTCTTTTGCTGTGAATGGCCCTACTACTTTGGTGGATAAAAAG
ATCTCCAGTCCTAAATGCAATAGCAGCAATCAGCCGCCCTCCTCCGGCCCAGCCTCCAGTACCT
CCTGCACTGGGAATACCTATCATAAGCAGTTGGCTGGCTTGAACTGCTCTGTCCGGGATTGGAT
AGTGAAGCATGTTAACACAAACCCACTTTGTGACCTGACGCCCATTTTTAAAGACTACGAGAGA
TACTTAGCGACGATCGAGAAGCAGCTGGAGAATGGGGGTAGCAGCAGCTCAGAGAGACAGACAG
ACAGGGCGACGGCTGCAATGGAGCCTCCTTCCCTTTTTGGTTCAACAAAACTACAGCAAGATTC
ACCATTTTCATTTCATGGCAACAAAGCGGAGGACACATCTGAAAAGTTGGAGTTTACAGCAGAA
AAGAAATCGGACGCAGCACAAGGAGCAACAAGTGCCTCGTTTAATTTTGGCAAGAAAATTGAGA
GCTCAGTTTTGGGCTCTTTAAGCTCTGGCTCCCTAACTGGGTTTTCATTCTCTCCTGGAAACTC
TAGTTTATTTGGTAAAGATGCTGCCCAGAGTAAAGCAGCCTCTTCACCGTTTTCTGCTAAAGCA
TCCGAGAGTCAAGCAGGAGGCAGCAGCAGTGAGTGCAGAGATGGTGAAGAAGAGGAGAGTGATG
AGCCACCCAAGGTGGTGGTGACTGAAGTGAAGGAAGAGGATGCTTTCTACTCCAAAAAATGTAA
ACTATTTTACAAGAAAGACAATGAATTTAAAGAGAAGGGTGTGGGGACCCTGCATTTAAAACCC
ACAGCAACTCAGAAGACCCAGCTCTTGGTGCGGGCAGACACCAACCTAGGCAACATTCTGCTGA
ATGTTCTGATCCCACCCAATATGCCGTGCACCCGGACAGGGAAGAACAATGTCCTTATCGTCTG
TGTCCCCAACCCCCCACTTGATGAGAAGCAGCCCACTCTCCCGGTCACCATGCTGATTCGGGTG
AAGACGAGCGAGGATGCTGATGAGTTGCACAAGATTTTACTGCAGAAAAAGGACGTCTGAGCAC
TGAGGCTGACCAGGGCACGTCACCATGTTGCTGCTTCCCTTTGCCCCTAAACTTAGTCACATTC
TTTCCTCTTTGTACTGTGACATTCTGAGAACTTCTAGGTAACTTGAAACTTTTGTGAGGAAGAT
TAAGGCCAATAAATCCTTTCAGTGTGTCGAAGCTGTTCTCCCTTCCTAAGAACTAAGCAAAATA
CATTGGAGTGAAAAGTTTGGGAAGATTTTTTAATGTCGATTCATTGAGTAAACTAACCTAAGTG
ATTCTTACGGACTGTAATCAGGGTACCAGTTAGCTCTCCAAAGGCTCCCTCAGGCAGCCACGGG
TGCCACTCTCTTCCTGCCCTGGGAGACTCAATGGCAGTGTCCACAGAGTTCCAGAAGACGCCTG
CTCCCCTCCTGTGGGCTTGTTTGGTCCGTGACTAGCACTCCTGCCAAATACCACACCGGCACAC
TGTAACCGCGCTTGTTCTGTTTCCTTCTGAGCGGAACTGTGGGTCCTGGGGATCTCTGTCCTTA
GCCTGTTTTTGACAGGTGCTGGCCTTTGACCTGGAACTGCTTGACTGAACCAGGCACTGCCTTT
CCATGGGAAGAGAGGGCAGGTAGTGGCTTGTCGGGGAGCTGGCGAGGTATAGACTGGGTTTTGT
CGTTTATCCATGAGGTGCTCTTACTTGCTTACCTCCCTAGTTAACATGGATGGGGGCTGTCAGG
AATAATGGATTTTATTAAAAGCACAAATTTGGTAGCATTTTTTAAATATCATTTCTATACCACA
AACAAGCCTTTATTTTAAAAGAAAAAAGTGAAATTGTGCTGAAAAGGGTTGTATGCTCGTGGCC
GTTTGTGCCCCGGGGACCTGGTGGTCACAGTCTGAATGGAGCCCTGTCAGAGGGTGCTCGTGAG
AAGGAAGAGTGTGGGAGTGGAGACGGCTCATTCGGCCTGTGACTTCAGACAGCAGCATGTTATT
CAGCGTCTGAAAAGVCCAATTTCATTTTTACCTTTTTACGGATGAGGTATTCTTGAGTCTGCCC
ACTTGGAAGAGAGCCATGGTTCTACACGCCATTCATGCCACTTGAGAGCGGTGAGGTTACCGAT
ACTAGCATTCTCTCAAGGCCAGACATCAGTTAAATGCAAGGTTTGTTGACGAGCTGGTCACGGC
TCCCTCCTAACCCCAGTGCCGGAAAGCTGAGGCAGGAAGACCGTGTGAGTTCACAACAGCCTGA
GCTACGCAGTAGGAACCCCTCCCCCTAAAATAAAATAAAAGTTTGGTGTCTAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_037123	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC53278	(Get FASTA)	NCBI Sequence Viewer
	AAH97337	(Get FASTA)	NCBI Sequence Viewer
	EDL91417	(Get FASTA)	NCBI Sequence Viewer
	EDM15595	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000018155
GenBank Protein	O08587	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_037123 ⟸ NM_012991

- UniProtKB:

Q4QR93 (UniProtKB/Swiss-Prot), O08587 (UniProtKB/Swiss-Prot), G3V7R1 (UniProtKB/TrEMBL), A6HTC6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAKRVAEKELTDRNWDEEDEVEEMGTFSVASEEVMKNRAVKKAKRRNIGFESDSGGAFKGFKGL
VVPSGGGGFSGFGGGSGGKPLEGLTNGNSTDSATPFSSAKTAAEPKAAFGSFAVNGPTTLVDKK
ISSPKCNSSNQPPSSGPASSTSCTGNTYHKQLAGLNCSVRDWIVKHVNTNPLCDLTPIFKDYER
YLATIEKQLENGGSSSSERQTDRATAAMEPPSLFGSTKLQQDSPFSFHGNKAEDTSEKLEFTAE
KKSDAAQGATSASFNFGKKIESSVLGSLSSGSLTGFSFSPGNSSLFGKDAAQSKAASSPFSAKA
SESQAGGSSSECRDGEEEESDEPPKVVVTEVKEEDAFYSKKCKLFYKKDNEFKEKGVGTLHLKP
TATQKTQLLVRADTNLGNILLNVLIPPNMPCTRTGKNNVLIVCVPNPPLDEKQPTLPVTMLIRV
KTSEDADELHKILLQKKDV

hide sequence

Ensembl Acc Id:

ENSRNOP00000018155 ⟸ ENSRNOT00000018155

Ensembl Acc Id:

ENSRNOP00000075457 ⟸ ENSRNOT00000080933

Ensembl Acc Id:

ENSRNOP00000110427 ⟸ ENSRNOT00000140228

Protein Domains

RanBD1

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-O08587-F1-model_v2	AlphaFold	O08587	1-467	view protein structure

Transcriptome

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

Promoters

RGD ID:

13695560

Promoter ID:

EPDNEW_R6085

Type:

multiple initiation site

Name:

Nup50_1

Description:

nucleoporin 50

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	7	125,833,613 - 125,833,673	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:3191	AgrOrtholog
BioCyc Gene	G2FUF-32568	BioCyc
Ensembl Genes	ENSRNOG00000013423	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000018155	ENTREZGENE
Gene3D-CATH	2.30.29.30	UniProtKB/Swiss-Prot
InterPro	NUP2/50/61	UniProtKB/Swiss-Prot
	PH-like_dom_sf	UniProtKB/Swiss-Prot
	Ran_bind_dom	UniProtKB/Swiss-Prot
	RanBP1-like	UniProtKB/Swiss-Prot
KEGG Report	rno:25497	UniProtKB/Swiss-Prot
NCBI Gene	25497	ENTREZGENE
PANTHER	NUCLEAR PORE COMPLEX PROTEIN NUP50	UniProtKB/Swiss-Prot
	PTHR23138	UniProtKB/Swiss-Prot
Pfam	NUP50	UniProtKB/Swiss-Prot
	Ran_BP1	UniProtKB/Swiss-Prot
PhenoGen	Nup50	PhenoGen
PROSITE	RANBD1	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000013423	RatGTEx
SMART	RanBD	UniProtKB/Swiss-Prot
Superfamily-SCOP	PH domain-like	UniProtKB/Swiss-Prot
TIGR	TC219343
UniProt	A0A0G2KAM9_RAT	UniProtKB/TrEMBL
	A0ABK0LVW0_RAT	UniProtKB/TrEMBL
	A6HTC6	ENTREZGENE, UniProtKB/TrEMBL
	G3V7R1	ENTREZGENE, UniProtKB/TrEMBL
	NUP50_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
	Q4QR93	ENTREZGENE
UniProt Secondary	Q4QR93	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-07-21	Nup50	nucleoporin 50	Npap60	nuclear pore associated protein	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2002-06-10	Npap60	nuclear pore associated protein			Symbol and Name status set to approved	70586	APPROVED
2001-03-05	Nup50	Nucleoporin 50			Symbol withdrawn, duplicate loading error, correct object RGD:3191	61033	WITHDRAWN

RGD Curation Notes

Note Type	Note	Reference
gene_cellular_localization	localized in the nuclear pore complex	633381

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)

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Imported Annotations - KEGG (archival)