Advanced Search (OLGA)

Gene: Upf2 (UPF2, regulator of nonsense mediated mRNA decay) Rattus norvegicus

Subscribe to Updates

Analyze

Symbol:

Upf2

Name:

UPF2, regulator of nonsense mediated mRNA decay

RGD ID:

1309178

Description:

Predicted to enable telomeric DNA binding activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to act upstream of or within animal organ regeneration and liver development. Predicted to be located in cytoplasmic ribonucleoprotein granule; cytosol; and nucleus. Predicted to be part of exon-exon junction complex. Predicted to be active in cytoplasm. Orthologous to human UPF2 (UPF2 regulator of nonsense mediated mRNA decay); PARTICIPATES IN mRNA decay pathway; RNA transport pathway; INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; amitrole.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC361271; regulator of nonsense transcripts 2; UPF2 regulator of nonsense transcripts homolog; UPF2 regulator of nonsense transcripts homolog (yeast)

RGD Orthologs

Alliance Orthologs

More Info

more info ...

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	17	77,133,975 - 77,245,266 (-)	NCBI		GRCr8
mRatBN7.2	17	72,224,575 - 72,335,896 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	72,225,316 - 72,335,855 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	75,733,527 - 75,843,307 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	79,554,976 - 79,664,754 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	73,605,249 - 73,715,022 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	76,176,379 - 76,287,246 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	76,175,643 - 76,287,186 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	77,816,922 - 77,925,240 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	83,350,525 - 83,377,185 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	83,357,903 - 83,393,695 (-)	NCBI
Celera	17	71,679,973 - 71,791,085 (-)	NCBI		Celera
Cytogenetic Map	17	q12.3	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Upf2	Rat	autism spectrum disorder		ISO	UPF2 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Autism spectrum disorder	ClinVar	PMID:30504930
Upf2	Rat	hypoparathyroidism-deafness-renal disease syndrome		ISO	UPF2 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Hypoparathyroidism more ...	ClinVar	PMID:25741868

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Upf2	Rat	(1->4)-beta-D-glucan	multiple interactions	ISO	Upf2 (Mus musculus)	6480464	[perfluorooctane sulfonic acid co-treated with Cellulose] results in decreased expression of UPF2 mRNA	CTD	PMID:36331819
Upf2	Rat	17beta-estradiol	affects expression	ISO	UPF2 (Homo sapiens)	6480464	Estradiol affects the expression of UPF2 mRNA	CTD	PMID:22574217
Upf2	Rat	17beta-estradiol	decreases expression	EXP		6480464	Estradiol results in decreased expression of UPF2 mRNA	CTD	PMID:32145629
Upf2	Rat	2,2',4,4'-Tetrabromodiphenyl ether	affects expression	ISO	Upf2 (Mus musculus)	6480464	2 more ...	CTD	PMID:30294300
Upf2	Rat	2,4,6-tribromophenol	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	2 more ...	CTD	PMID:31675489
Upf2	Rat	2-methylcholine	affects expression	ISO	UPF2 (Homo sapiens)	6480464	beta-methylcholine affects the expression of UPF2 mRNA	CTD	PMID:21179406
Upf2	Rat	3,3',5,5'-tetrabromobisphenol A	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	tetrabromobisphenol A results in decreased expression of UPF2 protein	CTD	PMID:31675489
Upf2	Rat	4,4'-sulfonyldiphenol	increases expression	ISO	Upf2 (Mus musculus)	6480464	bisphenol S results in increased expression of UPF2 mRNA	CTD	PMID:39298647
Upf2	Rat	4,4'-sulfonyldiphenol	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	[bisphenol S co-treated with Fulvestrant] results in decreased methylation of UPF2 gene	CTD	PMID:31601247
Upf2	Rat	6-propyl-2-thiouracil	decreases expression	EXP		6480464	Propylthiouracil results in decreased expression of UPF2 mRNA	CTD	PMID:30047161
Upf2	Rat	aflatoxin B1	increases expression	ISO	Upf2 (Mus musculus)	6480464	Aflatoxin B1 results in increased expression of UPF2 mRNA	CTD	PMID:19770486
Upf2	Rat	aflatoxin B1	decreases methylation	ISO	UPF2 (Homo sapiens)	6480464	Aflatoxin B1 results in decreased methylation of UPF2 intron	CTD	PMID:30157460
Upf2	Rat	amitrole	decreases expression	EXP		6480464	Amitrole results in decreased expression of UPF2 mRNA	CTD	PMID:30047161
Upf2	Rat	antirheumatic drug	increases expression	ISO	UPF2 (Homo sapiens)	6480464	Antirheumatic Agents results in increased expression of UPF2 mRNA	CTD	PMID:24449571
Upf2	Rat	Aroclor 1254	decreases expression	ISO	Upf2 (Mus musculus)	6480464	Chlorodiphenyl (54% Chlorine) results in decreased expression of UPF2 mRNA	CTD	PMID:23650126
Upf2	Rat	arsenite(3-)	increases expression	ISO	Upf2 (Mus musculus)	6480464	arsenite results in increased expression of UPF2 protein	CTD	PMID:37955338
Upf2	Rat	arsenous acid	increases expression	ISO	UPF2 (Homo sapiens)	6480464	Arsenic Trioxide results in increased expression of UPF2 mRNA	CTD	PMID:20458559
Upf2	Rat	benzo[a]pyrene	increases expression	ISO	Upf2 (Mus musculus)	6480464	Benzo(a)pyrene results in increased expression of UPF2 mRNA	CTD	PMID:22228805
Upf2	Rat	benzo[a]pyrene	affects methylation	ISO	UPF2 (Homo sapiens)	6480464	Benzo(a)pyrene affects the methylation of UPF2 intron	CTD	PMID:30157460
Upf2	Rat	benzo[a]pyrene diol epoxide I	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	7 more ...	CTD	PMID:19150397
Upf2	Rat	benzo[e]pyrene	decreases methylation	ISO	UPF2 (Homo sapiens)	6480464	benzo(e)pyrene results in decreased methylation of UPF2 intron	CTD	PMID:30157460
Upf2	Rat	beta-lapachone	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	beta-lapachone results in decreased expression of UPF2 mRNA	CTD	PMID:38218311
Upf2	Rat	bis(2-ethylhexyl) phthalate	decreases expression	ISO	Upf2 (Mus musculus)	6480464	Diethylhexyl Phthalate results in decreased expression of UPF2 mRNA	CTD	PMID:33754040
Upf2	Rat	bisphenol A	increases expression	ISO	Upf2 (Mus musculus)	6480464	bisphenol A results in increased expression of UPF2 mRNA	CTD	PMID:26063408
Upf2	Rat	bisphenol A	increases methylation	ISO	UPF2 (Homo sapiens)	6480464	bisphenol A results in increased methylation of UPF2 promoter	CTD	PMID:36572933
Upf2	Rat	bisphenol A	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	bisphenol A results in decreased expression of UPF2 protein	CTD	PMID:31675489
Upf2	Rat	bisphenol A	decreases expression	ISO	Upf2 (Mus musculus)	6480464	bisphenol A results in decreased expression of UPF2 mRNA	CTD	PMID:33221593
Upf2	Rat	bisphenol A	increases expression	ISO	UPF2 (Homo sapiens)	6480464	bisphenol A results in increased expression of UPF2 mRNA	CTD	PMID:36572933
Upf2	Rat	bisphenol A	decreases expression	EXP		6480464	bisphenol A results in decreased expression of UPF2 mRNA	CTD	PMID:32145629
Upf2	Rat	bisphenol A	affects expression	EXP		6480464	bisphenol A affects the expression of UPF2 mRNA	CTD	PMID:25181051
Upf2	Rat	butan-1-ol	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	[[Gasoline co-treated with 1-Butanol] results in increased abundance of [Particulate Matter co-treated with Polycyclic Aromatic Hydrocarbons]] which results in decreased expression of UPF2 mRNA	CTD	PMID:29432896
Upf2	Rat	carbon nanotube	increases expression	ISO	Upf2 (Mus musculus)	6480464	Nanotubes and Carbon results in increased expression of UPF2 mRNA	CTD	PMID:25620056
Upf2	Rat	clofibrate	decreases expression	ISO	Upf2 (Mus musculus)	6480464	Clofibrate results in decreased expression of UPF2 mRNA	CTD	PMID:17585979
Upf2	Rat	clotrimazole	decreases expression	EXP		6480464	Clotrimazole results in decreased expression of UPF2 mRNA	CTD	PMID:30047161
Upf2	Rat	crocidolite asbestos	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	Asbestos and Crocidolite results in decreased expression of UPF2 mRNA	CTD	PMID:29523930
Upf2	Rat	cyclosporin A	decreases expression	ISO	Upf2 (Mus musculus)	6480464	Cyclosporine results in decreased expression of UPF2 mRNA	CTD	PMID:19770486
Upf2	Rat	cytochalasin D	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	Cytochalasin D inhibits the reaction [UPF2 protein binds to ACTG1 protein]	CTD	PMID:28743738
Upf2	Rat	deoxynivalenol	increases expression	ISO	UPF2 (Homo sapiens)	6480464	deoxynivalenol results in increased expression of UPF2 mRNA	CTD	PMID:31863870
Upf2	Rat	diarsenic trioxide	increases expression	ISO	UPF2 (Homo sapiens)	6480464	Arsenic Trioxide results in increased expression of UPF2 mRNA	CTD	PMID:20458559
Upf2	Rat	Dibutyl phosphate	affects expression	ISO	UPF2 (Homo sapiens)	6480464	di-n-butylphosphoric acid affects the expression of UPF2 mRNA	CTD	PMID:37042841
Upf2	Rat	dicrotophos	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	dicrotophos results in decreased expression of UPF2 mRNA	CTD	PMID:28302478
Upf2	Rat	doxorubicin	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	Doxorubicin results in decreased expression of UPF2 mRNA	CTD	PMID:29803840
Upf2	Rat	folic acid	decreases expression	ISO	Upf2 (Mus musculus)	6480464	Folic Acid results in decreased expression of UPF2 mRNA	CTD	PMID:25629700
Upf2	Rat	FR900359	increases phosphorylation	ISO	UPF2 (Homo sapiens)	6480464	FR900359 results in increased phosphorylation of UPF2 protein	CTD	PMID:37730182
Upf2	Rat	fulvestrant	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	[bisphenol S co-treated with Fulvestrant] results in decreased methylation of UPF2 gene	CTD	PMID:31601247
Upf2	Rat	hydrogen peroxide	affects expression	ISO	UPF2 (Homo sapiens)	6480464	Hydrogen Peroxide affects the expression of UPF2 mRNA	CTD	PMID:20044591
Upf2	Rat	ivermectin	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	Ivermectin results in decreased expression of UPF2 protein	CTD	PMID:32959892
Upf2	Rat	jaspamide	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	jasplakinolide inhibits the reaction [UPF2 protein binds to ACTG1 protein]	CTD	PMID:28743738
Upf2	Rat	leflunomide	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	leflunomide results in decreased expression of UPF2 mRNA	CTD	PMID:28988120
Upf2	Rat	methapyrilene	decreases methylation	ISO	UPF2 (Homo sapiens)	6480464	Methapyrilene results in decreased methylation of UPF2 intron	CTD	PMID:30157460
Upf2	Rat	methimazole	decreases expression	EXP		6480464	Methimazole results in decreased expression of UPF2 mRNA	CTD	PMID:30047161
Upf2	Rat	methoxychlor	affects methylation	EXP		6480464	Methoxychlor affects the methylation of UPF2 gene	CTD	PMID:35440735
Upf2	Rat	nitrates	multiple interactions	ISO	Upf2 (Mus musculus)	6480464	[Particulate Matter results in increased abundance of Nitrates] which results in increased expression of UPF2 mRNA	CTD	PMID:35964746
Upf2	Rat	paracetamol	affects expression	ISO	Upf2 (Mus musculus)	6480464	Acetaminophen affects the expression of UPF2 mRNA	CTD	PMID:17562736
Upf2	Rat	PCB138	decreases expression	EXP		6480464	2 more ...	CTD	PMID:23829299
Upf2	Rat	pentachlorophenol	increases expression	ISO	Upf2 (Mus musculus)	6480464	Pentachlorophenol results in increased expression of UPF2 mRNA	CTD	PMID:23892564
Upf2	Rat	perfluorooctane-1-sulfonic acid	decreases expression	ISO	UPF2 (Homo sapiens)	6480464	perfluorooctane sulfonic acid results in decreased expression of UPF2 mRNA	CTD	PMID:27153767
Upf2	Rat	perfluorooctane-1-sulfonic acid	multiple interactions	ISO	Upf2 (Mus musculus)	6480464	[perfluorooctane sulfonic acid co-treated with Cellulose] results in decreased expression of UPF2 mRNA and [perfluorooctane sulfonic acid co-treated with Pectins] results in decreased expression of UPF2 mRNA	CTD	PMID:36331819
Upf2	Rat	pirinixic acid	decreases expression	ISO	Upf2 (Mus musculus)	6480464	pirinixic acid results in decreased expression of UPF2 mRNA	CTD	PMID:17950772
Upf2	Rat	pirinixic acid	multiple interactions	ISO	Upf2 (Mus musculus)	6480464	PPARA protein promotes the reaction [pirinixic acid results in decreased expression of UPF2 mRNA]	CTD	PMID:17950772
Upf2	Rat	resveratrol	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	[Plant Extracts co-treated with Resveratrol] results in increased expression of UPF2 mRNA	CTD	PMID:23557933
Upf2	Rat	sodium arsenite	increases expression	ISO	UPF2 (Homo sapiens)	6480464	sodium arsenite results in increased expression of UPF2 mRNA	CTD	PMID:38568856
Upf2	Rat	succimer	multiple interactions	ISO	Upf2 (Mus musculus)	6480464	[Succimer binds to Magnetite Nanoparticles] which results in decreased expression of UPF2 mRNA	CTD	PMID:21641980
Upf2	Rat	sulfadimethoxine	decreases expression	EXP		6480464	Sulfadimethoxine results in decreased expression of UPF2 mRNA	CTD	PMID:30047161
Upf2	Rat	sunitinib	increases expression	ISO	UPF2 (Homo sapiens)	6480464	Sunitinib results in increased expression of UPF2 mRNA	CTD	PMID:31533062
Upf2	Rat	thioacetamide	increases expression	EXP		6480464	Thioacetamide results in increased expression of UPF2 mRNA	CTD	PMID:23411599
Upf2	Rat	titanium dioxide	increases expression	ISO	Upf2 (Mus musculus)	6480464	titanium dioxide results in increased expression of UPF2 mRNA	CTD	PMID:23557971
Upf2	Rat	titanium dioxide	decreases methylation	ISO	Upf2 (Mus musculus)	6480464	titanium dioxide results in decreased methylation of UPF2 promoter alternative form	CTD	PMID:35295148
Upf2	Rat	troglitazone	decreases expression	ISO	Upf2 (Mus musculus)	6480464	troglitazone results in decreased expression of UPF2 mRNA	CTD	PMID:28973697
Upf2	Rat	tungsten	decreases expression	ISO	Upf2 (Mus musculus)	6480464	Tungsten results in decreased expression of UPF2 mRNA	CTD	PMID:30912803
Upf2	Rat	vinclozolin	increases methylation	EXP		6480464	vinclozolin results in increased methylation of UPF2 gene	CTD	PMID:31682807
Upf2	Rat	zinc atom	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	[PCI 5002 co-treated with Zinc] results in increased expression of UPF2 mRNA	CTD	PMID:18593933
Upf2	Rat	zinc(0)	multiple interactions	ISO	UPF2 (Homo sapiens)	6480464	[PCI 5002 co-treated with Zinc] results in increased expression of UPF2 mRNA	CTD	PMID:18593933

Biological Process

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Upf2	Rat	animal organ regeneration	acts_upstream_of_or_within	ISO	Upf2 (Mus musculus)	1624291	MGI:3790198 PMID:20657840	RGD	PMID:20657840
Upf2	Rat	liver development	acts_upstream_of_or_within	ISO	Upf2 (Mus musculus)	1624291	MGI:3790198 PMID:20657840	RGD	PMID:20657840
Upf2	Rat	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	involved_in	ISO	UPF2 (Homo sapiens)	1624291	PMID:18369367 and PMID:19556969	RGD	PMID:18369367 and PMID:19556969
Upf2	Rat	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	involved_in	IEA	InterPro:IPR039762	1600115	GO_REF:0000002	InterPro	GO_REF:0000002
Upf2	Rat	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	involved_in	IBA	FB:FBgn0029992 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033

Cellular Component

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Upf2	Rat	cytoplasm	located_in	ISO	UPF2 (Homo sapiens)	1624291	PMID:14636577	RGD	PMID:14636577
Upf2	Rat	cytoplasm	is_active_in	IBA	PANTHER:PTN000303405 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Upf2	Rat	cytoplasm	located_in	IEA	UniProtKB-KW:KW-0963	1600115	GO_REF:0000043	UniProt	GO_REF:0000043
Upf2	Rat	cytoplasm	located_in	IEA	UniProtKB-SubCell:SL-0086	1600115	GO_REF:0000044	UniProt	GO_REF:0000044
Upf2	Rat	cytoplasmic ribonucleoprotein granule	located_in	ISO	UPF2 (Homo sapiens)	1624291		RGD	GO_REF:0000052
Upf2	Rat	cytosol	located_in	ISO	UPF2 (Homo sapiens)	1624291		RGD	GO_REF:0000052
Upf2	Rat	exon-exon junction complex	part_of	ISO	UPF2 (Homo sapiens)	1624291	PMID:16601204	RGD	PMID:16601204
Upf2	Rat	exon-exon junction complex	part_of	IBA	PANTHER:PTN000303405 and UniProtKB:Q9HAU5	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Upf2	Rat	nucleus	located_in	ISO	UPF2 (Homo sapiens)	1624291	PMID:14636577 and PMID:21829167	RGD	PMID:14636577 and PMID:21829167

Molecular Function

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Upf2	Rat	protein binding	enables	ISO	UPF2 (Homo sapiens)	1624291	UniProtKB:P17844 more ...	RGD	PMID:11163187 more ...
Upf2	Rat	RNA binding	enables	IEA	InterPro:IPR003890	1600115	GO_REF:0000002	InterPro	GO_REF:0000002
Upf2	Rat	telomeric DNA binding	enables	ISO	UPF2 (Homo sapiens)	1624291	PMID:17916692	RGD	PMID:17916692

Imported Annotations - KEGG (archival)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Upf2	Rat	mRNA decay pathway		IEA		6907045		KEGG	rno:03015
Upf2	Rat	RNA transport pathway		IEA		6907045		KEGG	rno:03013

#	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.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
3.	GOA pipeline	RGD automated data pipeline
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

PMID:14636577	PMID:16601204	PMID:17916692	PMID:18369367	PMID:20657840	PMID:21829167

Upf2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	77,133,975 - 77,245,266 (-)	NCBI		GRCr8
mRatBN7.2	17	72,224,575 - 72,335,896 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	72,225,316 - 72,335,855 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	75,733,527 - 75,843,307 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	79,554,976 - 79,664,754 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	73,605,249 - 73,715,022 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	76,176,379 - 76,287,246 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	76,175,643 - 76,287,186 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	77,816,922 - 77,925,240 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	83,350,525 - 83,377,185 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	83,357,903 - 83,393,695 (-)	NCBI
Celera	17	71,679,973 - 71,791,085 (-)	NCBI		Celera
Cytogenetic Map	17	q12.3	NCBI

UPF2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	11,920,022 - 12,043,170 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	11,920,022 - 12,043,170 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	11,962,021 - 12,085,169 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	12,002,027 - 12,125,029 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	12,002,027 - 12,125,029	NCBI
Celera	10	11,890,782 - 12,013,775 (-)	NCBI		Celera
Cytogenetic Map	10	p14	NCBI
HuRef	10	11,879,153 - 12,002,622 (-)	NCBI		HuRef
CHM1_1	10	11,961,725 - 12,085,128 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	11,931,338 - 12,054,461 (-)	NCBI		T2T-CHM13v2.0

Upf2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	5,956,218 - 6,061,514 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	5,956,280 - 6,061,514 (+)	Ensembl		GRCm39 Ensembl
GRCm38	2	5,951,447 - 6,056,703 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	5,951,469 - 6,056,703 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	5,872,515 - 5,977,749 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	5,868,741 - 5,973,975 (+)	NCBI		MGSCv36	mm8
Celera	2	5,891,444 - 5,996,766 (+)	NCBI		Celera
Cytogenetic Map	2	A1	NCBI
cM Map	2	3.62	NCBI

Upf2
(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_004955421	27,861,958 - 27,952,835 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955421	27,867,663 - 27,962,809 (-)	NCBI	ChiLan1.0	ChiLan1.0

UPF2
(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	8	24,446,477 - 24,569,667 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	24,451,809 - 24,574,999 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	10	11,924,483 - 12,047,617 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	10	11,916,893 - 12,028,126 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	11,916,893 - 12,020,760 (-)	Ensembl	panpan1.1		panPan2

UPF2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	24,370,961 - 24,473,437 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	24,371,058 - 24,472,140 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	21,395,035 - 21,497,504 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	24,741,631 - 24,844,097 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	2	24,741,678 - 24,844,088 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	2	21,868,023 - 21,970,539 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	22,711,026 - 22,813,613 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	23,426,047 - 23,528,882 (+)	NCBI		UU_Cfam_GSD_1.0

Upf2
(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_024409344	27,100,999 - 27,216,320 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936484	3,266,190 - 3,381,526 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936484	3,266,196 - 3,381,511 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

UPF2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	10	59,898,922 - 60,090,229 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	10	59,893,106 - 59,993,403 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

UPF2
(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	9	11,967,294 - 12,094,120 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	11,967,269 - 12,093,709 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666051	17,469,821 - 17,596,515 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Upf2
(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_004624775	7,142,411 - 7,249,637 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants in Upf2
490 total Variants

Predicted Target Of

	Summary Value
Count of predictions:	131
Count of miRNA genes:	101
Interacting mature miRNAs:	110
Transcripts:	ENSRNOT00000058070
Prediction methods:	Microtar, 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.

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1358295	Aocep1	Aortic cell protein QTL 1	6.1	7e-07	thoracic aorta cellular protein amount (VT:0010598)	aortic cell percentage	17	40990005	85990005	Rat
152023626	Bp403	Blood pressure QTL 403	3.86		arterial blood pressure trait (VT:2000000)		17	23930421	79524188	Rat
7411575	Bw140	Body weight QTL 140	30.2	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	48560935	86533673	Rat
2301412	Kidm40	Kidney mass QTL 40		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	17	37479847	82479847	Rat
631502	Cm26	Cardiac mass QTL 26	3.71		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	65703580	81153923	Rat
1354588	Bvd4	Brain ventricular dilatation QTL 4	5.31	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	53498828	82479847	Rat
7411577	Bw141	Body weight QTL 141		0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	62619516	86533673	Rat
9590107	Sffal7	Serum free fatty acids level QTL 7	4.81	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	17	28409147	73409147	Rat
2317038	Ginf3	Gastrointestinal inflammation QTL 3	2.89	0.005	liver integrity trait (VT:0010547)	liver granuloma severity score (CMO:0002157)	17	49920154	86533673	Rat
724549	Niddm56	Non-insulin dependent diabetes mellitus QTL 56		0.03	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	31990784	76990784	Rat
1598871	Memor5	Memory QTL 5	5.3		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	17	40540041	80387013	Rat
2317045	Aia11	Adjuvant induced arthritis QTL 11	4.06		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	60781426	86533673	Rat
152025238	Slep14	Serum leptin concentration QTL 14	4.62		blood leptin amount (VT:0005667)		17	24184890	79524188	Rat
2317054	Aia12	Adjuvant induced arthritis QTL 12	4.24		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	17	38281509	83281509	Rat
8694181	Bw151	Body weight QTL 151	4.36	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	17	48560935	86533673	Rat
8552928	Pigfal9	Plasma insulin-like growth factor 1 level QTL 9	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	17	28409147	73409147	Rat
12904736	Cm121	Cardiac mass QTL 121		0.043	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	17	71774621	82479847	Rat
1300148	Bp192	Blood pressure QTL 192	3.47		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	17	34550843	73951021	Rat
2317060	Aia26	Adjuvant induced arthritis QTL 26	3.22		joint integrity trait (VT:0010548)	right rear ankle joint diameter (CMO:0002150)	17	38281509	83281509	Rat
4889894	Eae33	Experimental allergic encephalomyelitis QTL 33	5.2	0.0001	nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	17	50909099	86022412	Rat
2324621	Coatc5	Coat color QTL 5			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	17	31368391	73951021	Rat
1300131	Bp193	Blood pressure QTL 193	3.3		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	63640009	73951021	Rat
7488963	Bp369	Blood pressure QTL 369		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	59005649	77910000	Rat
1300129	Rf25	Renal function QTL 25	3.03		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	17	71003325	81153923	Rat
152023740	Bp406	Blood pressure QTL 406	6.06		arterial blood pressure trait (VT:2000000)		17	23930421	79524188	Rat
1354663	Bvd5	Brain ventricular dilatation QTL 5	3.51	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	17	31990784	81292925	Rat
152023737	Bp405	Blood pressure QTL 405	5.06		arterial blood pressure trait (VT:2000000)			23930421	79524188	Rat
152023736	Bp404	Blood pressure QTL 404	3.78		arterial blood pressure trait (VT:2000000)		17	23930421	79524188	Rat
2302365	Gluco40	Glucose level QTL 40	4.79		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	17	57246843	82046127	Rat
2303580	Gluco49	Glucose level QTL 49	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	50040271	86533673	Rat

RH133224

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	17	77,245,785 - 77,246,190 (+)	Marker Load Pipeline
mRatBN7.2	17	72,336,426 - 72,336,832 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	76,287,818 - 76,288,222	NCBI	Rnor6.0
Rnor_5.0	17	77,925,812 - 77,926,216	UniSTS	Rnor5.0
RGSC_v3.4	17	83,377,757 - 83,378,161	UniSTS	RGSC3.4
Celera	17	71,791,657 - 71,792,061	UniSTS
RH 3.4 Map	17	717.6	UniSTS
Cytogenetic Map	17	q12.3	UniSTS

BI278109

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	17	72,300,251 - 72,300,440 (+)	MAPPER	mRatBN7.2
Rnor_6.0	17	76,249,841 - 76,250,029	NCBI	Rnor6.0
Rnor_5.0	17	77,889,977 - 77,890,165	UniSTS	Rnor5.0
Celera	17	71,754,990 - 71,755,178	UniSTS
RH 3.4 Map	17	717.0	UniSTS
Cytogenetic Map	17	q12.3	UniSTS

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

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
9	11	49	113	91	90	59	25	59	6	218	97	93	45	60	31


RefSeq Transcripts	NM_001108421	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095923	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095924	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095926	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095928	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095929	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039095930	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276631	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276632	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276633	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063276634	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC141220	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473990	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000058070 ⟹ ENSRNOP00000054878

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	72,233,740 - 72,335,855 (-)	Ensembl
Rnor_6.0 Ensembl	17	76,184,928 - 76,281,660 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092442 ⟹ ENSRNOP00000075770

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	76,175,643 - 76,188,979 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092452 ⟹ ENSRNOP00000075866

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	72,225,316 - 72,335,855 (-)	Ensembl
Rnor_6.0 Ensembl	17	76,260,636 - 76,287,186 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000092693 ⟹ ENSRNOP00000075795

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	17	72,227,685 - 72,335,855 (-)	Ensembl
Rnor_6.0 Ensembl	17	76,198,959 - 76,250,537 (-)	Ensembl

RefSeq Acc Id:

NM_001108421 ⟹ NP_001101891

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,134,716 - 77,245,214 (-)	NCBI
mRatBN7.2	17	72,225,316 - 72,335,855 (-)	NCBI
Rnor_6.0	17	76,176,379 - 76,287,246 (-)	NCBI
Rnor_5.0	17	77,816,922 - 77,925,240 (-)	NCBI
RGSC_v3.4	17	83,350,525 - 83,377,185 (-)	RGD
Celera	17	71,679,973 - 71,791,085 (-)	RGD

Sequence:

show sequence

GGAAGGCGGGCCCTCGGCTGCGAGATAGGTGGGGGGAGGGGAGGGGAGAGCCCGAGCTCTGGAGTTGGTGCTGGGAAACCCGGGGCTAATGTTGACAACAGGCACTAGATTGTCCTGGGTCACATAAT
GCCAGCTGAGCGGAAAAAGTCAGCAAGTATGGAGGAAAAAGAATCTTTACTAAACAACAAGGAAAAAGACTGCAGTGAGAGGCGGCCAGTGAGCAGCAAGGAGAAATCAAAAGACGATCTCAAGATCA
CTGCCAAGAAGGAGGTCAGTAAGGTCCCAGAAGACAAAAAGAAGAAACTGGAAGAAGATAAGAGAAAAAAGGAAGACAAGGAACGTAAGAAAAAAGAGGAAGAGAAGGTGAAGGCAGAGGAAGAGTTG
AAGAAGAAGGAAGAGGAAGAAAAGAAAAAACAGGAAGAGGAAGAGAGGAAAAAGCAGGAGGAGCAGGCCAAGCGGCAGCAGGAAGAAGCAGCTGCCCAGCTGAAAGAGAAAGAAGAATCTCTTCAGCT
TCATCAGGAGGCGTGGGAACGCCATCAACTACGAAAGGAACTCCGTAGCAAAAACCAAAATGCTCCAGACAACCGACCAGAGGAAAATTTCTTTAGCCGCCTAGATTCGAGCTTAAAGAAAAATACTG
CTTTTGTCAAGAAACTAAAAACAATTACAGAACAACAGAGAGACTCCTTGTCTCATGATTTTAATGGCCTGAATTTAAGCAAATATATTGGGGAAGCCGTAGCTTCCATTGTGGAAGCAAAATTAAAA
ATCTCTGACGTGAACTGTGCCGTGCACCTCTGCTCTCTCTTTCACCAGCGGTACGCTGACTTTGCACCCTCACTTCTTCAGGTGTGGAAAAAACATTTTGAAGCAAGGAAAGAGGAGAAAACGCCCAA
CATTACCAAGCTAAGAACTGACTTGCGTTTCATTGCAGAATTGACAATAGTGGGAATCTTCACTGACAAGGAAGGTCTTTCCTTAATCTATGAACAGCTAAAAAGTATTATTAATGCTGATCGAGAAT
CCCACACTCATGTGTCTGTGGTGATTAGTTTCTGTCGTCATTGTGGAGATGATATTGCTGGACTTGTACCGAGGAAAGTAAAGAGTGCTGCAGAGAAGTTTAATTTGAACTTTCCTCCTAGTGAGATA
ATTAGCCCAGAGAAGCAGCAGCCTTTCCAGAATCTTTTAAAAGAGTACTTTACGTCTCTGACCAAACACCTGAAAAGGGACCACAGGGAGCTTCAGAATACTGAGAGGCAAAACAGGCGTATTCTGCA
CTCTAAAGGCGAGCTAAGTGAAGACAGGCATAAACAGTATGAAGAGTTCGCCATGTCTTACCAGAAGCTGCTGGCAAATTCTCAATCCTTAGCCGACCTTTTGGATGAAAATATGCCAGATCTTCCTC
AGGACAAACCGACACCAGAAGAGCATGGACCTGGAATCGATATATTTACACCTGGAAAACCTGGAGAATATGACTTAGAAGGTGGCATATGGGAAGACGAAGACGCTCGGAATTTTTATGAAAACCTC
ATCGATTTGAAAGCATTTGTTCCAGCCATCTTGTTTAAAGACAATGAAAAAAGTCAGAACAAAGATTCTAGCAAAGATGATTCCAAAGAGGCAAAAGAACCAAAGGATAATAAGGAAGCATCAAGTCC
CGATGATTTGGAACTTGAGTTGGAGAATTTAGAAATTAATGATGACACACTGGAGTTAGAAGGTGGAGATGAAGCTGAAGATCTTACAAAGAAACTCCTTGATGAACAAGAACAAGAAGATGAAGAAG
CCAGCACTGGATCTCACCTCAAACTCATAGTGGATGCTTTCCTCCAGCAGCTGCCCAACTGTGTCAACCGAGACCTGATTGACAAGGCAGCCATGGACTTTTGCATGAACATGAACACAAAGGCAAAC
AGGAAGAAGTTGGTTCGGGCGCTCTTCATAGTTCCTAGGCAAAGGTTGGATTTGCTCCCATTTTATGCAAGATTGGTTGCTACATTGCATCCCTGCATGTCTGATGTAGCAGAGGATCTTTGTTCCAT
GCTGAGGGGGGATTTCAGATTTCATGTTCGAAAAAAGGACCAGATCAACATTGAAACAAAGAATAAAACTGTCCGTTTTATTGGAGAACTAACCAAGTTTAAGATGTTCACCAAAAATGATACACTGC
ATTGTCTAAAGATGCTTCTGTCAGACTTTTCTCATCATCATATTGAAATGGCATGTACCCTACTGGAGACCTGTGGACGGTTTCTTTTCCGATCTCCAGAATCACACCTGAGGACCAGTGTGCTTTTG
GAGCAAATGATGAGAAAGAAGCAAGCAATGCACCTGGACGCGCGCTACGTTACAATGGTGGAGAACGCGTATTACTACTGCAACCCACCACCAGCCGAGAAGACAGTGAGAAGGAAGCGGCCTCCTCT
TCAGGAGTATGTCCGCAAACTTCTGTACAAGGATCTCTCTAAGGTCACCACGGAAAAGGTTTTGAGACAGATGCGAAAGTTGCCCTGGCAGGACCAAGAAGTTAAAGACTATGTCATTTGTTGTATGA
TAAACATTTGGAATGTGAAATACAATAGTATTCACTGTGTAGCCAACCTCCTAGCAGGACTAGTGCTTTACCAGGAGGATGTTGGGATCCACGTTGTGGACGGAGTACTTGAAGATATTCGATTGGGA
ATGGAGGTTAATCAACCTAAATTTAACCAGAGGCGCATCAGTAGTGCCAAGTTCTTAGGAGAACTTTATAATTACAGAATGGTCGAATCGGCTGTTATTTTCAGAACTCTTTATTCTTTTACTTCATT
TGGTGTCAACCCTGACGGGTCTCCAAGTTCCCTGGACCCTCCTGAGCATCTGTTTAGAATTAGACTAGTCTGCACTATTTTGGATACCTGTGGCCAGTACTTTGACAGAGGTTCCAGTAAAAGAAAAC
TTGACTGCTTCCTTGTATATTTTCAGCGTTATGTTTGGTGGAAGAAAAGTTTGGAGGTTTGGACAAAAGACCATCCATTTCCTATTGATATAGATTACATGATCAGTGATACACTAGAACTGCTAAGA
CCAAAGATCAAACTCTGTAATTCTCTGGAAGAATCCATCAGGCAGGTACAAGACTTGGAACGAGAATTCTTAATAAAACTAGGCCTAGTAAATGACAAAGAGTCCAAAGATTCTATGACAGAAGGGGA
AAATCTTGAAGAGGATGAAGAAGAAGAAGAAGGAGGAGCTGAGACAGAGGAACAGTCTGGAAATGAGAGTGAAGTAAACGAGCCAGAAGAAGAAGAGGGTTCTGATGATGAAGACGAGGGAGAGGAGG
AGGAAGAAGAGAATACAGATTACCTCACAGATTCCAACAAGGAGAACGAGACTGATGAAGAGAATGCTGAGGTGATGATTAAGGGAGGCGGACTGAAGCATGTTCCTTGTGTAGAAGATGAGGACTTC
ATTCAAGCTCTGGACAAAATGATGCTAGAAAACCTTCAGCGAAGTGGTGAATCTGTGAAAGTACACCAACTTGATGTTGCTATTCCTTTGCATCTCAAAAGCCAGCTGAGGAAAGGGCCCCCACTTGG
TGGTGGGGAAGGAGAGACAGAGTCTGCAGACACGATGCCGTTTGTCATGCTGACAAGGAAAGGCAATAAACAGCAGTTTAAGATTCTCAATGTGCCCATGTCATCCCAACTTGCTGCAAATCACTGGA
ACCAGCAACAAGCAGAACAAGAGGAGAGGATGAGGATGAAAAAGCTCACCTTAGACATCAACGAACGACAAGAACAAGAAGATTATCAAGAAATGTTGCAGTCTCTCGCACAGCGCCCAGCTCCAGCG
AACACTAATCGTGAGCGGCGGCCTCGTTACCAACATCCAAAGGGAGCGCCTAATGCAGATCTAATCTTTAAGACTGGTGGGAGGAGACGTTGATCCAGCAGCACGTGTCATTTCATTAGGTCCTGTAT
CTGATGTTGTGGATAGTGGAGTCCTCCAGCAATTGAATGAGAGCAGCGGACACATCTCAGCATGTCGGTCTAGAGAGTTGCGAATCTAAACCTGGGACAGGCTGGGGCCATGAGGCAGAAACACCAGC
CTCTGCCAACACCGGAACAAGCCGACGCTTCCAGACAAGGCAGAAAGGCCTTTTGTAATGGAAATCACGTGAGGGTTAATCTTCTCTTGAGAATGGCAGTCAAGAAATGAGAAGGTTCACTTGACTGC
TGAGAGCTACACCAGGAAGAGCGTCCGTGAGGTGACTGAGCCGGAGAGGAAACGGTTGAGATGGGATGGTATGGGGGAAATGAACTTGAGTTTTAAACTTGATTTAAGTTACAGTGTCTCTGAATTGA
ACATCCCATGTTGGAAGAAGATACATTTGGGGGCTCCAGGACTACAGTAGAACAGTATAGAGCAAGCAGTAAAATCTTCTAGTAAAACTTCCA

hide sequence

RefSeq Acc Id:

XM_039095923 ⟹ XP_038951851

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,245,266 (-)	NCBI
mRatBN7.2	17	72,224,575 - 72,335,896 (-)	NCBI

RefSeq Acc Id:

XM_039095924 ⟹ XP_038951852

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,245,259 (-)	NCBI
mRatBN7.2	17	72,224,575 - 72,335,856 (-)	NCBI

RefSeq Acc Id:

XM_039095926 ⟹ XP_038951854

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,242,493 (-)	NCBI
mRatBN7.2	17	72,224,575 - 72,333,150 (-)	NCBI

RefSeq Acc Id:

XM_039095928 ⟹ XP_038951856

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,143,311 - 77,245,245 (-)	NCBI
mRatBN7.2	17	72,233,910 - 72,335,896 (-)	NCBI

RefSeq Acc Id:

XM_039095929 ⟹ XP_038951857

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,231,075 (-)	NCBI
mRatBN7.2	17	72,224,575 - 72,321,713 (-)	NCBI

RefSeq Acc Id:

XM_039095930 ⟹ XP_038951858

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,192,006 - 77,245,245 (-)	NCBI
mRatBN7.2	17	72,282,641 - 72,335,896 (-)	NCBI

RefSeq Acc Id:

XM_063276631 ⟹ XP_063132701

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,244,490 (-)	NCBI

RefSeq Acc Id:

XM_063276632 ⟹ XP_063132702

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,245,020 (-)	NCBI

RefSeq Acc Id:

XM_063276633 ⟹ XP_063132703

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,133,975 - 77,245,207 (-)	NCBI

RefSeq Acc Id:

XM_063276634 ⟹ XP_063132704

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	17	77,180,777 - 77,245,245 (-)	NCBI


Protein RefSeqs	NP_001101891	(Get FASTA)	NCBI Sequence Viewer
	XP_038951851	(Get FASTA)	NCBI Sequence Viewer
	XP_038951852	(Get FASTA)	NCBI Sequence Viewer
	XP_038951854	(Get FASTA)	NCBI Sequence Viewer
	XP_038951856	(Get FASTA)	NCBI Sequence Viewer
	XP_038951857	(Get FASTA)	NCBI Sequence Viewer
	XP_038951858	(Get FASTA)	NCBI Sequence Viewer
	XP_063132701	(Get FASTA)	NCBI Sequence Viewer
	XP_063132702	(Get FASTA)	NCBI Sequence Viewer
	XP_063132703	(Get FASTA)	NCBI Sequence Viewer
	XP_063132704	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL78652	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000054878
	ENSRNOP00000054878.5
	ENSRNOP00000075795
	ENSRNOP00000075795.2
	ENSRNOP00000075866
	ENSRNOP00000075866.2

RefSeq Acc Id:

NP_001101891 ⟸ NM_001108421

- UniProtKB:

A6JLX5 (UniProtKB/TrEMBL), A0A0U1RRS6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MPAERKKSASMEEKESLLNNKEKDCSERRPVSSKEKSKDDLKITAKKEVSKVPEDKKKKLEEDKRKKEDKERKKKEEEKVKAEEELKKKEEEEKKKQEEEERKKQEEQAKRQQEEAAAQLKEKEESLQ
LHQEAWERHQLRKELRSKNQNAPDNRPEENFFSRLDSSLKKNTAFVKKLKTITEQQRDSLSHDFNGLNLSKYIGEAVASIVEAKLKISDVNCAVHLCSLFHQRYADFAPSLLQVWKKHFEARKEEKTP
NITKLRTDLRFIAELTIVGIFTDKEGLSLIYEQLKSIINADRESHTHVSVVISFCRHCGDDIAGLVPRKVKSAAEKFNLNFPPSEIISPEKQQPFQNLLKEYFTSLTKHLKRDHRELQNTERQNRRIL
HSKGELSEDRHKQYEEFAMSYQKLLANSQSLADLLDENMPDLPQDKPTPEEHGPGIDIFTPGKPGEYDLEGGIWEDEDARNFYENLIDLKAFVPAILFKDNEKSQNKDSSKDDSKEAKEPKDNKEASS
PDDLELELENLEINDDTLELEGGDEAEDLTKKLLDEQEQEDEEASTGSHLKLIVDAFLQQLPNCVNRDLIDKAAMDFCMNMNTKANRKKLVRALFIVPRQRLDLLPFYARLVATLHPCMSDVAEDLCS
MLRGDFRFHVRKKDQINIETKNKTVRFIGELTKFKMFTKNDTLHCLKMLLSDFSHHHIEMACTLLETCGRFLFRSPESHLRTSVLLEQMMRKKQAMHLDARYVTMVENAYYYCNPPPAEKTVRRKRPP
LQEYVRKLLYKDLSKVTTEKVLRQMRKLPWQDQEVKDYVICCMINIWNVKYNSIHCVANLLAGLVLYQEDVGIHVVDGVLEDIRLGMEVNQPKFNQRRISSAKFLGELYNYRMVESAVIFRTLYSFTS
FGVNPDGSPSSLDPPEHLFRIRLVCTILDTCGQYFDRGSSKRKLDCFLVYFQRYVWWKKSLEVWTKDHPFPIDIDYMISDTLELLRPKIKLCNSLEESIRQVQDLEREFLIKLGLVNDKESKDSMTEG
ENLEEDEEEEEGGAETEEQSGNESEVNEPEEEEGSDDEDEGEEEEEENTDYLTDSNKENETDEENAEVMIKGGGLKHVPCVEDEDFIQALDKMMLENLQRSGESVKVHQLDVAIPLHLKSQLRKGPPL
GGGEGETESADTMPFVMLTRKGNKQQFKILNVPMSSQLAANHWNQQQAEQEERMRMKKLTLDINERQEQEDYQEMLQSLAQRPAPANTNRERRPRYQHPKGAPNADLIFKTGGRRR

hide sequence

Ensembl Acc Id:

ENSRNOP00000075795 ⟸ ENSRNOT00000092693

Ensembl Acc Id:

ENSRNOP00000075866 ⟸ ENSRNOT00000092452

Ensembl Acc Id:

ENSRNOP00000075770 ⟸ ENSRNOT00000092442

Ensembl Acc Id:

ENSRNOP00000054878 ⟸ ENSRNOT00000058070

Protein Domains

MIF4G

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZT03-F1-model_v2	AlphaFold	D3ZT03	1-1272	view protein structure

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

RGD ID:

13700569

Promoter ID:

EPDNEW_R11090

Type:

initiation region

Name:

Upf2_1

Description:

UPF2, regulator of nonsense mediated mRNA decay

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	17	76,287,193 - 76,287,253	EPDNEW

Database	Acc Id	Source(s)
BioCyc Gene	G2FUF-8710	BioCyc
Ensembl Genes	ENSRNOG00000023593	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000058070	ENTREZGENE
	ENSRNOT00000058070.5	UniProtKB/TrEMBL
	ENSRNOT00000092452	ENTREZGENE
	ENSRNOT00000092452.2	UniProtKB/TrEMBL
	ENSRNOT00000092693	ENTREZGENE
	ENSRNOT00000092693.2	UniProtKB/TrEMBL
Gene3D-CATH	1.25.40.180	UniProtKB/TrEMBL
	4.10.80.160	UniProtKB/TrEMBL
	6.10.250.770	UniProtKB/TrEMBL
InterPro	ARM-type_fold	UniProtKB/TrEMBL
	MIF4G-like_typ-3	UniProtKB/TrEMBL
	Nmd2/UPF2	UniProtKB/TrEMBL
	Upf2/Nmd2_C	UniProtKB/TrEMBL
KEGG Report	rno:361271	UniProtKB/TrEMBL
NCBI Gene	361271	ENTREZGENE
PANTHER	PTHR12839	UniProtKB/TrEMBL
	REGULATOR OF NONSENSE TRANSCRIPTS 2	UniProtKB/TrEMBL
Pfam	MIF4G	UniProtKB/TrEMBL
	Upf2	UniProtKB/TrEMBL
PhenoGen	Upf2	PhenoGen
RatGTEx	ENSRNOG00000023593	RatGTEx
SMART	MIF4G	UniProtKB/TrEMBL
Superfamily-SCOP	SSF48371	UniProtKB/TrEMBL
UniProt	A0A0U1RRS6	ENTREZGENE, UniProtKB/TrEMBL
	A0A0U1RRY8	ENTREZGENE, UniProtKB/TrEMBL
	A6JLX5	ENTREZGENE, UniProtKB/TrEMBL
	D3ZT03_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-05-24	Upf2	UPF2, regulator of nonsense mediated mRNA decay	Upf2	UPF2 regulator of nonsense transcripts homolog (yeast)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Upf2	UPF2 regulator of nonsense transcripts homolog (yeast)	Upf2_predicted	UPF2 regulator of nonsense transcripts homolog (yeast) (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Upf2_predicted	UPF2 regulator of nonsense transcripts homolog (yeast) (predicted)			Symbol and Name status set to approved	70820	APPROVED

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


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


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

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

Send us a Message

Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)