SZGR2

Summary ?

GeneID	9972
Symbol	NUP153
Synonyms	HNUP153\|N153
Description	nucleoporin 153kDa
Reference	MIM:603948\|HGNC:HGNC:8062\|Ensembl:ENSG00000124789\|HPRD:04899\|Vega:OTTHUMG00000014312
Gene type	protein-coding
Map location	6p22.3
Pascal p-value	0.753
Fetal beta	0.61
DMG	1 (# studies)
eGene	Myers' cis & trans

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Wockner_2014	Genome-wide DNA methylation analysis	This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24).	1
GSMA_I	Genome scan meta-analysis	Psr: 0.033

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg24823638	6	17707018	NUP153	4.16E-5	-0.205	0.021	DMG:Wockner_2014

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs17000249	chr4	76031156	NUP153	9972		0.1		trans
rs6534803	chr4	76064608	NUP153	9972		0.13		trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (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 the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003677	DNA binding	IEA		-
GO:0005515	protein binding	IPI		11896061
GO:0005215	transporter activity	TAS		8110839
GO:0008270	zinc ion binding	IEA		-
GO:0015078	hydrogen ion transmembrane transporter activity	IEA		-
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0051028	mRNA transport	IEA		-
GO:0015031	protein transport	IEA		-
GO:0065002	intracellular protein transmembrane transport	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005622	intracellular	IEA		-
GO:0005634	nucleus	IEA		-
GO:0005643	nuclear pore	TAS		8110839
GO:0005654	nucleoplasm	EXP		12228227
GO:0016469	proton-transporting two-sector ATPase complex	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
BRCA1	BRCAI \| BRCC1 \| IRIS \| PSCP \| RNF53	breast cancer 1, early onset	Protein-peptide	BioGRID	14578343
IPO5	DKFZp686O1576 \| FLJ43041 \| IMB3 \| KPNB3 \| MGC2068 \| RANBP5	importin 5	-	HPRD,BioGRID	9114010
KPNB1	IMB1 \| IPOB \| Impnb \| MGC2155 \| MGC2156 \| MGC2157 \| NTF97	karyopherin (importin) beta 1	-	HPRD	9275187\|10749866
KPNB1	IMB1 \| IPOB \| Impnb \| MGC2155 \| MGC2156 \| MGC2157 \| NTF97	karyopherin (importin) beta 1	Reconstituted Complex	BioGRID	10202161 \|10749866 \|11266456
NFX1	DKFZp779G2416 \| MGC20369 \| NFX2	nuclear transcription factor, X-box binding 1	Reconstituted Complex	BioGRID	11073998
NUP50	MGC39961 \| NPAP60 \| NPAP60L	nucleoporin 50kDa	Affinity Capture-Western	BioGRID	10891500
NUTF2	NTF2 \| PP15	nuclear transport factor 2	Reconstituted Complex	BioGRID	15522285
NXF1	DKFZp667O0311 \| MEX67 \| TAP	nuclear RNA export factor 1	-	HPRD	10668806
NXF2	FLJ20416 \| TAPL-2	nuclear RNA export factor 2	-	HPRD,BioGRID	11073998
RAN	ARA24 \| Gsp1 \| TC4	RAN, member RAS oncogene family	Reconstituted Complex	BioGRID	10202161
SENP2	AXAM2 \| DKFZp762A2316 \| KIAA1331 \| SMT3IP2	SUMO1/sentrin/SMT3 specific peptidase 2	-	HPRD,BioGRID	11896061 \|12192048
SMAD2	JV18 \| JV18-1 \| MADH2 \| MADR2 \| MGC22139 \| MGC34440 \| hMAD-2 \| hSMAD2	SMAD family member 2	-	HPRD	12191473
TNPO1	IPO2 \| KPNB2 \| MIP \| MIP1 \| TRN	transportin 1	-	HPRD	10202161
TPR	-	translocated promoter region (to activated MET oncogene)	-	HPRD,BioGRID	12802065
TRNAN1	RNN \| TRN \| TRN1	transfer RNA asparagine 1 (anticodon GUU)	Reconstituted Complex	BioGRID	10202161
XPO1	CRM1 \| DKFZp686B1823	exportin 1 (CRM1 homolog, yeast)	-	HPRD,BioGRID	10202161
XPO5	FLJ14239 \| FLJ32057 \| FLJ45606 \| KIAA1291	exportin 5	-	HPRD,BioGRID	11777942
XPOT	XPO3	exportin, tRNA (nuclear export receptor for tRNAs)	-	HPRD	12138183

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
PID SMAD2 3PATHWAY	17	13	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF NON CODING RNA	49	29	All SZGR 2.0 genes in this pathway
REACTOME ANTIVIRAL MECHANISM BY IFN STIMULATED GENES	66	45	All SZGR 2.0 genes in this pathway
REACTOME PROCESSING OF CAPPED INTRON CONTAINING PRE MRNA	140	77	All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT OF MATURE TRANSCRIPT TO CYTOPLASM	54	34	All SZGR 2.0 genes in this pathway
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES	413	270	All SZGR 2.0 genes in this pathway
REACTOME MRNA PROCESSING	161	86	All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT OF MATURE MRNA DERIVED FROM AN INTRONLESS TRANSCRIPT	33	21	All SZGR 2.0 genes in this pathway
REACTOME SLC MEDIATED TRANSMEMBRANE TRANSPORT	241	157	All SZGR 2.0 genes in this pathway
REACTOME GLUCOSE TRANSPORT	38	29	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF RNA	330	155	All SZGR 2.0 genes in this pathway
REACTOME INTERFERON SIGNALING	159	116	All SZGR 2.0 genes in this pathway
REACTOME METABOLISM OF CARBOHYDRATES	247	154	All SZGR 2.0 genes in this pathway
REACTOME INFLUENZA LIFE CYCLE	203	72	All SZGR 2.0 genes in this pathway
REACTOME NEP NS2 INTERACTS WITH THE CELLULAR EXPORT MACHINERY	27	19	All SZGR 2.0 genes in this pathway
REACTOME HIV INFECTION	207	122	All SZGR 2.0 genes in this pathway
REACTOME TRANSPORT OF RIBONUCLEOPROTEINS INTO THE HOST NUCLEUS	27	19	All SZGR 2.0 genes in this pathway
REACTOME HIV LIFE CYCLE	125	69	All SZGR 2.0 genes in this pathway
REACTOME HOST INTERACTIONS OF HIV FACTORS	132	81	All SZGR 2.0 genes in this pathway
REACTOME LATE PHASE OF HIV LIFE CYCLE	104	61	All SZGR 2.0 genes in this pathway
REACTOME INTERACTIONS OF VPR WITH HOST CELLULAR PROTEINS	33	21	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF GLUCOKINASE BY GLUCOKINASE REGULATORY PROTEIN	27	19	All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM	933	616	All SZGR 2.0 genes in this pathway
REACTOME CYTOKINE SIGNALING IN IMMUNE SYSTEM	270	204	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS YELLOW UP	32	25	All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS MAGENTA UP	28	18	All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP	1278	748	All SZGR 2.0 genes in this pathway
BIDUS METASTASIS UP	214	134	All SZGR 2.0 genes in this pathway
OUELLET OVARIAN CANCER INVASIVE VS LMP UP	117	85	All SZGR 2.0 genes in this pathway
GRASEMANN RETINOBLASTOMA WITH 6P AMPLIFICATION	14	14	All SZGR 2.0 genes in this pathway
SCHLOSSER MYC TARGETS REPRESSED BY SERUM	159	93	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 COMMON DN	483	336	All SZGR 2.0 genes in this pathway
JAZAG TGFB1 SIGNALING VIA SMAD4 UP	108	66	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK	1442	892	All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK	779	480	All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS	775	494	All SZGR 2.0 genes in this pathway
SUNG METASTASIS STROMA DN	54	34	All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 6P24 P22 AMPLICON	21	17	All SZGR 2.0 genes in this pathway
DING LUNG CANCER EXPRESSION BY COPY NUMBER	100	62	All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP	555	346	All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN	225	163	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 16HR UP	225	139	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV SCC DN	123	86	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 48HR UP	180	125	All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D2	41	30	All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN	312	203	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK DN	318	220	All SZGR 2.0 genes in this pathway
ZHENG BOUND BY FOXP3	491	310	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 STIMULATED	1022	619	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
MARSON BOUND BY E2F4 UNSTIMULATED	728	415	All SZGR 2.0 genes in this pathway
ZHENG FOXP3 TARGETS IN THYMUS UP	196	137	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP	973	570	All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP	863	514	All SZGR 2.0 genes in this pathway
MUELLER PLURINET	299	189	All SZGR 2.0 genes in this pathway
FOURNIER ACINAR DEVELOPMENT LATE 2	277	172	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S2	115	74	All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES UP	605	377	All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC	1103	714	All SZGR 2.0 genes in this pathway
JOHNSTONE PARVB TARGETS 2 DN	336	211	All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS DN	882	538	All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family	Target position			miRNA ID	miRNA seq
miRNA family	UTR start	UTR end	Match method	miRNA ID	miRNA seq
miR-133	887	893	1A	hsa-miR-133a	UUGGUCCCCUUCAACCAGCUGU
miR-133	887	893	1A	hsa-miR-133b	UUGGUCCCCUUCAACCAGCUA
miR-135	987	993	m8	hsa-miR-135a	UAUGGCUUUUUAUUCCUAUGUGA
miR-135	987	993	m8	hsa-miR-135b	UAUGGCUUUUCAUUCCUAUGUG
miR-186	109	115	1A	hsa-miR-186	CAAAGAAUUCUCCUUUUGGGCUU
miR-200bc/429	911	917	1A	hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
				hsa-miR-200b	UAAUACUGCCUGGUAAUGAUGAC
				hsa-miR-200c	UAAUACUGCCGGGUAAUGAUGG
				hsa-miR-429	UAAUACUGUCUGGUAAAACCGU
miR-224	953	959	m8	hsa-miR-224	CAAGUCACUAGUGGUUCCGUUUA
miR-26	711	717	1A	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	711	717	1A	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-27	705	711	1A	hsa-miR-27a^brain	UUCACAGUGGCUAAGUUCCGC
miR-27	705	711	1A	hsa-miR-27b^brain	UUCACAGUGGCUAAGUUCUGC
miR-299-5p	1019	1025	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-31	627	633	m8	hsa-miR-31	AGGCAAGAUGCUGGCAUAGCUG
miR-361	512	518	m8	hsa-miR-361^brain	UUAUCAGAAUCUCCAGGGGUAC
miR-377	470	477	1A,m8	hsa-miR-377	AUCACACAAAGGCAACUUUUGU
miR-383	869	875	m8	hsa-miR-383^brain	AGAUCAGAAGGUGAUUGUGGCU
miR-493-5p	904	910	1A	hsa-miR-493-5p	UUGUACAUGGUAGGCUUUCAUU
miR-496	778	784	1A	hsa-miR-496	AUUACAUGGCCAAUCUC

SZ: miRNAs which differentially expressed in brain cortex of schizophrenia patients comparing with control samples using microarray. Click here to see the list of SZ related miRNAs.
Brain: miRNAs which are expressed in brain based on miRNA microarray expression studies. Click here to see the list of brain related miRNAs.

Gene Page: NUP153