SZGR2

Summary ?

GeneID	5903
Symbol	RANBP2
Synonyms	ADANE\|ANE1\|IIAE3\|NUP358\|TRP1\|TRP2
Description	RAN binding protein 2
Reference	MIM:601181\|HGNC:HGNC:9848\|Ensembl:ENSG00000153201\|HPRD:03111\|Vega:OTTHUMG00000130981
Gene type	protein-coding
Map location	2q12.3
Pascal p-value	0.357
Sherlock p-value	0.176
Fetal beta	0.227
DMG	1 (# studies)
eGene	Myers' cis & trans
Support	Ascano FMRP targets

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:PGCnp	Genome-wide Association Study	GWAS
DMG:Nishioka_2013	Genome-wide DNA methylation analysis	The authors investigated the methylation profiles of DNA in peripheral blood cells from 18 patients with first-episode schizophrenia (FESZ) and from 15 normal controls.	1
GSMA_I	Genome scan meta-analysis	Psr: 0.0004
GSMA_IIA	Genome scan meta-analysis (All samples)	Psr: 0.00755
Network	Shortest path distance of core genes in the Human protein-protein interaction network	Contribution to shortest path in PPI network: 0.024

Section I. Genetics and epigenetics annotation

Differentially methylated gene

Probe	Chromosome	Position	Nearest gene	P (dis)	Beta (dis)	FDR (dis)	Study
cg08028004	2	109336023	RANBP2		-0.034	0.25	DMG:Nishioka_2013

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs13023481	chr2	213839772	RANBP2	5903		0.08		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.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
TEX10	0.95	0.92
KLHL7	0.95	0.92
DDX5	0.95	0.88
HSF2	0.95	0.92
XRN2	0.94	0.89
CEP57	0.94	0.90
NOL11	0.94	0.91
POLR2B	0.94	0.91
ZNF195	0.94	0.89
DHX9	0.94	0.87

Top 10 negatively co-expressed genes
Gene	Pearson's Correlation	Spearman's Correlation
HLA-F	-0.75	-0.82
AIFM3	-0.73	-0.81
MT-CO2	-0.72	-0.87
AF347015.33	-0.72	-0.87
AF347015.31	-0.72	-0.85
AF347015.27	-0.72	-0.86
MT-CYB	-0.72	-0.88
HEPN1	-0.71	-0.81
TSC22D4	-0.70	-0.81
AF347015.8	-0.70	-0.87

Section III. Gene Ontology annotation

Molecular function	GO term	Evidence	Neuro keywords	PubMed ID
GO:0003755	peptidyl-prolyl cis-trans isomerase activity	IEA		-
GO:0005515	protein binding	IPI		16332688 \|17353931 \|18394993
GO:0016853	isomerase activity	IEA		-
GO:0008270	zinc ion binding	IEA		-
GO:0008536	Ran GTPase binding	TAS		7603572
GO:0046872	metal ion binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0006457	protein folding	IEA		-
GO:0006511	ubiquitin-dependent protein catabolic process	IEA		-
GO:0006606	protein import into nucleus	TAS		7603572
GO:0051028	mRNA transport	IEA		-
GO:0015031	protein transport	IEA		-
GO:0046907	intracellular transport	IEA		-
GO:0065002	intracellular protein transmembrane transport	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005829	cytosol	EXP		12228227
GO:0005622	intracellular	IEA		-
GO:0005634	nucleus	IEA		-
GO:0005643	nuclear pore	TAS		7603572

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
IPO5	DKFZp686O1576 \| FLJ43041 \| IMB3 \| KPNB3 \| MGC2068 \| RANBP5	importin 5	-	HPRD	9114010
KPNA1	IPOA5 \| NPI-1 \| RCH2 \| SRP1	karyopherin alpha 1 (importin alpha 5)	Reconstituted Complex	BioGRID	10473610
KPNB1	IMB1 \| IPOB \| Impnb \| MGC2155 \| MGC2156 \| MGC2157 \| NTF97	karyopherin (importin) beta 1	-	HPRD,BioGRID	10473610
NUP62	DKFZp547L134 \| FLJ20822 \| FLJ43869 \| IBSN \| MGC841 \| SNDI \| p62	nucleoporin 62kDa	-	HPRD	11266456
OPN1LW	CBBM \| CBP \| RCP	opsin 1 (cone pigments), long-wave-sensitive	-	HPRD,BioGRID	8857542
OPN1MW	CBBM \| CBD \| GCP \| MGC176615 \| OPN1MW1	opsin 1 (cone pigments), medium-wave-sensitive	-	HPRD,BioGRID	8857542
RAN	ARA24 \| Gsp1 \| TC4	RAN, member RAS oncogene family	-	HPRD,BioGRID	10318915
RANGAP1	Fug1 \| KIAA1835 \| MGC20266 \| SD	Ran GTPase activating protein 1	-	HPRD	9019411 \|11854305 \|12192048
SAE1	AOS1 \| FLJ3091 \| HSPC140 \| SUA1	SUMO1 activating enzyme subunit 1	Biochemical Activity	BioGRID	11792325
SP100	DKFZp686E07254 \| FLJ00340 \| FLJ34579	SP100 nuclear antigen	Biochemical Activity	BioGRID	18691969
SUMO1	DAP-1 \| GMP1 \| OFC10 \| PIC1 \| SENP2 \| SMT3 \| SMT3C \| SMT3H3 \| SUMO-1 \| UBL1	SMT3 suppressor of mif two 3 homolog 1 (S. cerevisiae)	Reconstituted Complex	BioGRID	12192048
SUMO1	DAP-1 \| GMP1 \| OFC10 \| PIC1 \| SENP2 \| SMT3 \| SMT3C \| SMT3H3 \| SUMO-1 \| UBL1	SMT3 suppressor of mif two 3 homolog 1 (S. cerevisiae)	SUMO-1 interacts with RanBP2.	BIND	15608651
TNPO1	IPO2 \| KPNB2 \| MIP \| MIP1 \| TRN	transportin 1	-	HPRD	9144189
UBA2	ARX \| FLJ13058 \| HRIHFB2115 \| SAE2	ubiquitin-like modifier activating enzyme 2	Biochemical Activity	BioGRID	11792325
UBE2I	C358B7.1 \| P18 \| UBC9	ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast)	Ubc9 interacts with RanBP2.	BIND	15608651
UBE2I	C358B7.1 \| P18 \| UBC9	ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast)	RanBP2 interacts with Ubc9.	BIND	15378033
UBE2I	C358B7.1 \| P18 \| UBC9	ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast)	-	HPRD,BioGRID	12192048
XPO1	CRM1 \| DKFZp686B1823	exportin 1 (CRM1 homolog, yeast)	-	HPRD	10601307
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 HDAC CLASSII PATHWAY	34	27	All SZGR 2.0 genes in this pathway
PID HDAC CLASSI PATHWAY	66	50	All SZGR 2.0 genes in this pathway
PID RANBP2 PATHWAY	11	11	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 CELL CYCLE	421	253	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 CELL CYCLE MITOTIC	325	185	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 MITOTIC M M G1 PHASES	172	98	All SZGR 2.0 genes in this pathway
REACTOME INTERFERON SIGNALING	159	116	All SZGR 2.0 genes in this pathway
REACTOME DNA REPLICATION	192	110	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 MITOTIC PROMETAPHASE	87	51	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
MULLIGHAN MLL SIGNATURE 1 DN	242	165	All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 DN	281	186	All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS UP	501	327	All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN	1375	806	All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN	485	334	All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS B UP	26	16	All SZGR 2.0 genes in this pathway
DUNNE TARGETS OF AML1 MTG8 FUSION DN	19	17	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 XPCS DN	88	71	All SZGR 2.0 genes in this pathway
XU HGF TARGETS REPRESSED BY AKT1 DN	95	58	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN	169	112	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT DN	165	106	All SZGR 2.0 genes in this pathway
MARSON BOUND BY FOXP3 UNSTIMULATED	1229	713	All SZGR 2.0 genes in this pathway
RIGGINS TAMOXIFEN RESISTANCE DN	220	147	All SZGR 2.0 genes in this pathway
FOSTER TOLERANT MACROPHAGE DN	409	268	All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D DN	270	181	All SZGR 2.0 genes in this pathway
BONOME OVARIAN CANCER SURVIVAL SUBOPTIMAL DEBULKING	510	309	All SZGR 2.0 genes in this pathway
ZHANG TLX TARGETS 36HR DN	185	116	All SZGR 2.0 genes in this pathway
YAGI AML WITH 11Q23 REARRANGED	351	238	All SZGR 2.0 genes in this pathway
SAKAI CHRONIC HEPATITIS VS LIVER CANCER UP	83	63	All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 8D	882	506	All SZGR 2.0 genes in this pathway
ABRAMSON INTERACT WITH AIRE	45	33	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
let-7/98	700	707	1A,m8	hsa-let-7a^brain	UGAGGUAGUAGGUUGUAUAGUU
				hsa-let-7b^brain	UGAGGUAGUAGGUUGUGUGGUU
				hsa-let-7c^brain	UGAGGUAGUAGGUUGUAUGGUU
				hsa-let-7d^brain	AGAGGUAGUAGGUUGCAUAGU
				hsa-let-7e^brain	UGAGGUAGGAGGUUGUAUAGU
				hsa-let-7f^brain	UGAGGUAGUAGAUUGUAUAGUU
				hsa-miR-98^brain	UGAGGUAGUAAGUUGUAUUGUU
				hsa-let-7g^SZ	UGAGGUAGUAGUUUGUACAGU
				hsa-let-7i^brain	UGAGGUAGUAGUUUGUGCUGU
miR-133	378	384	m8	hsa-miR-133a	UUGGUCCCCUUCAACCAGCUGU
miR-133	378	384	m8	hsa-miR-133b	UUGGUCCCCUUCAACCAGCUA
miR-137	270	277	1A,m8	hsa-miR-137	UAUUGCUUAAGAAUACGCGUAG
miR-142-5p	819	825	1A	hsa-miR-142-5p	CAUAAAGUAGAAAGCACUAC
miR-153	306	312	1A	hsa-miR-153	UUGCAUAGUCACAAAAGUGA
miR-196	699	705	m8	hsa-miR-196a	UAGGUAGUUUCAUGUUGUUGG
miR-196	699	705	m8	hsa-miR-196b	UAGGUAGUUUCCUGUUGUUGG
miR-199	194	200	m8	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
miR-199	194	200	m8	hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
miR-217	835	841	1A	hsa-miR-217	UACUGCAUCAGGAACUGAUUGGAU
miR-221/222	860	866	1A	hsa-miR-221^brain	AGCUACAUUGUCUGCUGGGUUUC
miR-221/222	860	866	1A	hsa-miR-222^brain	AGCUACAUCUGGCUACUGGGUCUC
miR-377	175	181	1A	hsa-miR-377	AUCACACAAAGGCAACUUUUGU
miR-448	305	312	1A,m8	hsa-miR-448	UUGCAUAUGUAGGAUGUCCCAU
miR-496	114	120	1A	hsa-miR-496	AUUACAUGGCCAAUCUC
miR-9	504	510	m8	hsa-miR-9^SZ	UCUUUGGUUAUCUAGCUGUAUGA

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: RANBP2