Gene info: ID 5976

Gene: UPF1

GENE ID: 5976

Synonyms: HUPF1|NORF1|RENT1|pNORF1|smg-2

Description: UPF1, RNA helicase and ATPase

Gene type: protein-coding

Location: 19p13.11

dbXrefs: Ensembl:ENSG00000005007 MIM:601430 Vega:OTTHUMG00000183025 UniprotKB:Q92900

RefSeq: NC_000019.10

Retrived from: PubMed

SNPs: 0 ANCO-SNPs

Phenotype: ND

# Publications: 2

Sherlock p-value : NA (AD) NA (ND) (Frontal_Cortex)

Pascal p-value : 3.288e-1 (AD) 5.819e-1 (ND)

DNA Methylation

Probe	Locus(GRCh37)	Gene	Region	p-val	Trait	PubMed ID
cg01566552	chr19:18977814	UPF1	3'UTR	4.601e-4	Alcohol use disorders	26763658
cg14207833	chr19:18945153	UPF1		8.110e-8	Maternal smoking in pregnancy	27040690
cg18824330	chr19:18960246	UPF1		7.400e-12	Smoking	27651444
cg18824330	chr19:18960246	UPF1		1.390e-8	Smoking	28686328

Gene Expression in Different Tissues

Temporal and Spatial Expressions (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes average value of the expressions.

Top Co-expressed Genes in Brain-Frontal Cortex (BA9) (GTEx v7)

Top 10 positively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
KHSRP	0.928
ARHGEF18	0.922
SMG5	0.921
ZC3H18	0.92
GAK	0.92
PYGO2	0.913
TADA2B	0.912
SURF4	0.912
TPD52L2	0.912
SYVN1	0.912

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
OR4F5	-0.691
OR4F29	-0.646
KLRB1	-0.346
CETP	-0.319
KLRF1	-0.317
C9orf153	-0.297
CPA3	-0.291
GZMK	-0.288
IL2RB	-0.287
OR6C74	-0.28

There is no DrugBank record for this gene !

ID	Drug Name	Action	PubMed
C524733	17-ethynyl-5-androstene-3, 7, 17-triol	"17-ethynyl-5-androstene-3, 7, 17-triol binds to UPF1 protein"	22384159
D020106	Acrylamide	Acrylamide results in decreased expression of UPF1 mRNA	28959563
D016604	Aflatoxin B1	Aflatoxin B1 results in increased expression of UPF1 mRNA	19770486
D001151	Arsenic	Arsenic affects the methylation of UPF1 gene	25304211
D001280	Atrazine	Atrazine results in decreased expression of UPF1 mRNA	25929836
D001564	Benzo(a)pyrene	AHR protein affects the reaction [Benzo(a)pyrene affects the expression of UPF1 mRNA]	22228805
D001564	Benzo(a)pyrene	Benzo(a)pyrene promotes the reaction [AHR protein binds to UPF1 promoter]	19654925
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in increased expression of UPF1 mRNA	19770486\|2222880
D004958	Estradiol	[Estradiol binds to ESR2 protein] which results in increased expression of UPF1 mRNA	20404318
C044887	beta-methylcholine	beta-methylcholine affects the expression of UPF1 mRNA	21179406
C006780	bisphenol A	bisphenol A affects the expression of UPF1 mRNA	21786754
C006780	bisphenol A	bisphenol A results in increased expression of UPF1 mRNA	25181051
D002166	Camptothecin	UPF1 mRNA results in decreased susceptibility to Camptothecin	25269479
D002330	Carmustine	Carmustine results in decreased expression of UPF1 mRNA	15980968
D002794	Choline	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in decreased methylation of UPF1 gene	20938992
D016572	Cyclosporine	Cyclosporine results in decreased expression of UPF1 mRNA	19770486
D003976	Diazinon	Diazinon results in increased methylation of UPF1 gene	22964155
C000944	dicrotophos	dicrotophos results in increased expression of UPF1 mRNA	28302478
D004041	Dietary Fats	Dietary Fats results in increased expression of UPF1 mRNA	25016146
D004221	Disulfiram	Disulfiram results in decreased expression of UPF1 mRNA	20530235
D004997	Ethinyl Estradiol	Ethinyl Estradiol affects the expression of UPF1 mRNA	17555576
D004997	Ethinyl Estradiol	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of UPF1 mRNA	17942748
D005038	Ethylnitrosourea	Ethylnitrosourea results in increased mutagenesis of UPF1 intron	27776689
D005492	Folic Acid	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in decreased methylation of UPF1 gene	20938992
C475919	hydroxytamoxifen	hydroxytamoxifen results in increased expression of UPF1 mRNA	16849584
C410337	K 7174	K 7174 results in decreased expression of UPF1 mRNA	24086573
D008715	Methionine	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in decreased methylation of UPF1 gene	20938992
D008741	Methyl Methanesulfonate	Methyl Methanesulfonate results in increased expression of UPF1 mRNA	23649840
D018817	N-Methyl-3,4-methylenedioxyamphetamine	"N-Methyl-3,4-methylenedioxyamphetamine results in increased expression of UPF1 mRNA"	20188158
D015741	Metribolone	Metribolone promotes the reaction [NDRG1 protein binds to UPF1 protein]	17220478
C016599	mono-(2-ethylhexyl)phthalate	mono-(2-ethylhexyl)phthalate results in decreased expression of UPF1 mRNA	22401849
C568608	PCI 5002	[PCI 5002 co-treated with Zinc] results in increased expression of UPF1 mRNA	18593933
C023036	perfluorooctanoic acid	perfluorooctanoic acid results in decreased expression of UPF1 protein	26879310
C006253	pirinixic acid	pirinixic acid results in decreased expression of UPF1 mRNA	18445702
D020849	Raloxifene Hydrochloride	Raloxifene Hydrochloride affects the expression of UPF1 mRNA	14699072
D020849	Raloxifene Hydrochloride	[Raloxifene Hydrochloride co-treated with ESR2 protein] results in decreased expression of UPF1 mRNA	19059307
C017947	sodium arsenite	sodium arsenite affects the expression of UPF1 mRNA	29319823
D012969	Sodium Fluoride	Sodium Fluoride results in increased expression of UPF1 mRNA	27862939
D013629	Tamoxifen	Tamoxifen affects the expression of UPF1 mRNA	14699072
D013629	Tamoxifen	[Tamoxifen co-treated with ESR2 protein] results in decreased expression of UPF1 mRNA	19059307
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of UPF1 mRNA	21570461
D013749	Tetrachlorodibenzodioxin	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of UPF1 mRNA	17942748
D013849	Thimerosal	Thimerosal results in decreased expression of UPF1 mRNA	27188386
D013893	Thiram	Thiram results in decreased expression of UPF1 mRNA	20530235
C483909	torcetrapib	torcetrapib results in increased expression of UPF1 mRNA	23228038
C057693	troglitazone	troglitazone results in decreased expression of UPF1 mRNA	28973697
D014520	Urethane	Urethane results in increased expression of UPF1 mRNA	28818685
D014635	Valproic Acid	Valproic Acid affects the expression of UPF1 mRNA	25979313
D014635	Valproic Acid	Valproic Acid results in decreased methylation of UPF1 gene	29154799
C025643	vinclozolin	vinclozolin results in decreased expression of UPF1 mRNA	23034163
D015032	Zinc	[PCI 5002 co-treated with Zinc] results in increased expression of UPF1 mRNA	18593933

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0003682	chromatin binding	-	IDA	16488880
GO:0003723	RNA binding	-	HDA	22658674 22681889
GO:0003723	RNA binding	-	IBA	21873635
GO:0003723	RNA binding	-	NAS	10999600
GO:0004004	ATP-dependent RNA helicase activity	-	IBA	21873635
GO:0004004	ATP-dependent RNA helicase activity	-	IDA	12554878 21419344
GO:0004386	helicase activity	-	NAS	9064659
GO:0005515	protein binding	-	IPI	9620853 11163187 11544179 12417715 12881429 14636577 15680326 16086026 16364915 16488880 16601204 17468741 17469741 17932509 18256688 18362360 18447585 19150429 19417104 19478851 19503078 19556969 19864460 20930030 21829167 23348841 23722113 23788676 24267889 24965446 25225333 26000482 26255671
GO:0005524	ATP binding	-	IEA	-
GO:0008270	zinc ion binding	-	IEA	-
GO:0042162	telomeric DNA binding	-	IDA	17916692 21829167

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	-	IBA	21873635
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	-	IDA	17468741
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	-	IMP	18369367
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	-	NAS	10999600
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	-	TAS	8855285
GO:0000294	nuclear-transcribed mRNA catabolic process, endonucleolytic cleavage-dependent decay	-	IMP	26255671
GO:0000956	nuclear-transcribed mRNA catabolic process	-	IMP	23828042
GO:0006260	DNA replication	-	IMP	16488880
GO:0006281	DNA repair	-	IDA	16488880
GO:0006406	mRNA export from nucleus	-	TAS	16488880
GO:0006449	regulation of translational termination	-	IMP	9620853
GO:0006449	regulation of translational termination	-	NAS	10999600
GO:0009048	dosage compensation by inactivation of X chromosome	-	IEA	-
GO:0032201	telomere maintenance via semi-conservative replication	-	IDA	21829167
GO:0032204	regulation of telomere maintenance	-	IMP	17916692
GO:0044770	cell cycle phase transition	-	IMP	16488880
GO:0061014	positive regulation of mRNA catabolic process	-	IMP	25225333 26255671
GO:0061158	3'-UTR-mediated mRNA destabilization	-	IMP	26255671
GO:0071044	histone mRNA catabolic process	-	IMP	16086026
GO:0071222	cellular response to lipopolysaccharide	-	IDA	26255671
GO:0071347	cellular response to interleukin-1	-	IDA	26255671

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000784	nuclear chromosome, telomeric region	-	IDA	21829167
GO:0000785	chromatin	-	IDA	16488880
GO:0000932	P-body	-	IEA	-
GO:0005634	nucleus	-	IDA	18362360
GO:0005654	nucleoplasm	-	IDA	-
GO:0005737	cytoplasm	-	IBA	21873635
GO:0005737	cytoplasm	-	NAS	9064659
GO:0005829	cytosol	-	TAS	-
GO:0035145	exon-exon junction complex	-	IDA	16601204
GO:0044530	supraspliceosomal complex	-	IDA	18362360

KEGG ID	KEGG Term
hsa03013	RNA transport
hsa03015	mRNA surveillance pathway

Reactome ID	Reactome Term	Evidence
R-HSA-8953854	Metabolism of RNA	TAS
R-HSA-927802	Nonsense-Mediated Decay (NMD)	TAS
R-HSA-975956	Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)	TAS
R-HSA-975957	Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)	TAS

Interactions (STRING v10.5, Interaction Score >= 0.400)

Publications (Co-occurrence of gene symbol strings and ANCO-Dependence terms)

PMID	Title (Year)	Author	Journal
24810251	Alterations of bronchial epithelial metabolome by cigarette smoke are reversible by an antioxidant, O-methyl-L-tyrosinyl-gamma-L-glutamyl-L-cysteinylglycine. (2014 Oct)	Aug A	Am J Respir Cell Mol Biol
26536230	E-Cigarette Affects the Metabolome of Primary Normal Human Bronchial Epithelial Cells. (2015)	Aug A	PLoS One