SZGR2

Summary ?

GeneID	5906
Symbol	RAP1A
Synonyms	C21KG\|G-22K\|KREV-1\|KREV1\|RAP1\|SMGP21
Description	RAP1A, member of RAS oncogene family
Reference	MIM:179520\|HGNC:HGNC:9855\|Ensembl:ENSG00000116473\|HPRD:01545\|Vega:OTTHUMG00000011959
Gene type	protein-coding
Map location	1p13.3
Pascal p-value	0.058
Sherlock p-value	0.359
Fetal beta	-0.359
eGene	Myers' cis & trans
Support	G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet

Gene in Data Sources

Gene set name	Method of gene set	Description
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
GSMA_I	Genome scan meta-analysis	Psr: 0.0235

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	pvalue	qvalue	TSS distance	eQTL type
rs12303540	chr12	132609678	RAP1A	5906		0.16		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:0000166	nucleotide binding	IEA		-
GO:0003924	GTPase activity	IEA		-
GO:0003924	GTPase activity	TAS		10777492
GO:0005515	protein binding	IEA		-
GO:0005515	protein binding	IPI		11022048
GO:0005525	GTP binding	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0007264	small GTPase mediated signal transduction	IEA		-
GO:0045786	negative regulation of cell cycle	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005829	cytosol	EXP		16284401
GO:0005622	intracellular	IEA		-
GO:0005886	plasma membrane	IEA		-

Section IV. Protein-protein interaction annotation

Interactors	Aliases B	Official full name B	Experimental	Source	PubMed ID
APBB1IP	INAG1 \| PREL1 \| RARP1 \| RIAM	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	-	HPRD	15469846
APBB1IP	INAG1 \| PREL1 \| RARP1 \| RIAM	amyloid beta (A4) precursor protein-binding, family B, member 1 interacting protein	RIAM interacts with Rap1.	BIND	15469846
ARHGEF1	GEF1 \| LBCL2 \| LSC \| P115-RHOGEF \| SUB1.5	Rho guanine nucleotide exchange factor (GEF) 1	Biochemical Activity	BioGRID	12581858
BRAF	B-RAF1 \| BRAF1 \| FLJ95109 \| MGC126806 \| MGC138284 \| RAFB1	v-raf murine sarcoma viral oncogene homolog B1	Reconstituted Complex	BioGRID	10454553
FRAP1	FLJ44809 \| FRAP \| FRAP2 \| MTOR \| RAFT1 \| RAPT1	FK506 binding protein 12-rapamycin associated protein 1	Affinity Capture-Western	BioGRID	15854902
GABARAPL2	ATG8 \| GATE-16 \| GATE16 \| GEF-2 \| GEF2	GABA(A) receptor-associated protein-like 2	Biochemical Activity	BioGRID	12581858
KRIT1	CAM \| CCM1	KRIT1, ankyrin repeat containing	-	HPRD,BioGRID	9285558
MLLT4	AF-6 \| AF6 \| AFADIN \| FLJ34371 \| RP3-431P23.3	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 4	-	HPRD,BioGRID	10224125 \|10922060\|10922060
NTRK1	DKFZp781I14186 \| MTC \| TRK \| TRK1 \| TRKA \| p140-TrkA	neurotrophic tyrosine kinase, receptor, type 1	Affinity Capture-Western	BioGRID	11466412
PDE6D	PDED	phosphodiesterase 6D, cGMP-specific, rod, delta	-	HPRD,BioGRID	11786539
RABAC1	PRA1 \| PRAF1 \| YIP3	Rab acceptor 1 (prenylated)	-	HPRD	11335720
RAF1	CRAF \| NS5 \| Raf-1 \| c-Raf	v-raf-1 murine leukemia viral oncogene homolog 1	Co-crystal Structure Reconstituted Complex Two-hybrid	BioGRID	7791872 \|7862125 \|9867809 \|10454553
RAF1	CRAF \| NS5 \| Raf-1 \| c-Raf	v-raf-1 murine leukemia viral oncogene homolog 1	-	HPRD	7791872\|9867809\|10454553
RALA	MGC48949 \| RAL	v-ral simian leukemia viral oncogene homolog A (ras related)	Two-hybrid	BioGRID	11786539
RALGDS	FLJ20922 \| RGF \| RalGEF	ral guanine nucleotide dissociation stimulator	-	HPRD,BioGRID	10085114
RALGDS	FLJ20922 \| RGF \| RalGEF	ral guanine nucleotide dissociation stimulator	Rap1A interacts with RalGDS. This interaction was modeled on a demonstrated interaction between human Rap1A and RalGDS from an unspecified species.	BIND	15856025
RAP1GAP	KIAA0474 \| RAP1GA1 \| Rap1GAP1 \| rap1GAPII	RAP1 GTPase activating protein	Biochemical Activity	BioGRID	12842888
RAP1GDS1	GDS1 \| MGC118859 \| MGC118861 \| SmgGDS	RAP1, GTP-GDP dissociation stimulator 1	-	HPRD,BioGRID	11948427
RAPGEF1	C3G \| DKFZp781P1719 \| GRF2	Rap guanine nucleotide exchange factor (GEF) 1	Rap1A interacts with an unspecified isoform of C3G.	BIND	15856025
RAPGEF2	CNrasGEF \| NRAPGEP \| PDZ-GEF1 \| PDZGEF1 \| RA-GEF \| Rap-GEP	Rap guanine nucleotide exchange factor (GEF) 2	Biochemical Activity Reconstituted Complex	BioGRID	10934204
RAPGEF3	CAMP-GEFI \| EPAC \| EPAC1 \| HSU79275 \| MGC21410 \| bcm910	Rap guanine nucleotide exchange factor (GEF) 3	Biochemical Activity	BioGRID	10777494
RAPGEF3	CAMP-GEFI \| EPAC \| EPAC1 \| HSU79275 \| MGC21410 \| bcm910	Rap guanine nucleotide exchange factor (GEF) 3	Rap1A interacts with Epac1.	BIND	15856025
RAPGEF4	CAMP-GEFII \| CGEF2 \| EPAC2 \| Nbla00496	Rap guanine nucleotide exchange factor (GEF) 4	Biochemical Activity	BioGRID	10777494
RAPGEF4	CAMP-GEFII \| CGEF2 \| EPAC2 \| Nbla00496	Rap guanine nucleotide exchange factor (GEF) 4	Rap1A interacts with Epac2. This interaction was modeled on a demonstrated interaction between human Rap1A and mouse Epac2.	BIND	15856025
RAPGEF5	GFR \| KIAA0277 \| MR-GEF \| REPAC	Rap guanine nucleotide exchange factor (GEF) 5	Rap1A interacts with Repac.	BIND	15856025
RAPGEF5	GFR \| KIAA0277 \| MR-GEF \| REPAC	Rap guanine nucleotide exchange factor (GEF) 5	Biochemical Activity	BioGRID	10777494 \|10934204
RAPGEF6	DKFZp667N084 \| DKFZp686I15116 \| KIA001LB \| PDZ-GEF2 \| PDZGEF2 \| RA-GEF-2	Rap guanine nucleotide exchange factor (GEF) 6	-	HPRD,BioGRID	11524421 \|12581858
RASA1	CM-AVM \| CMAVM \| DKFZp434N071 \| GAP \| PKWS \| RASA \| RASGAP \| p120GAP \| p120RASGAP	RAS p21 protein activator (GTPase activating protein) 1	in vivo	BioGRID	2164710
RASGRP4	-	RAS guanyl releasing protein 4	-	HPRD	11880369
RASIP1	FLJ20401 \| RAIN	Ras interacting protein 1	-	HPRD	15031288
RGL4	MGC119678 \| MGC119680 \| Rgr	ral guanine nucleotide dissociation stimulator-like 4	-	HPRD,BioGRID	12874025
RGS14	-	regulator of G-protein signaling 14	-	HPRD,BioGRID	10926822
RHEB	MGC111559 \| RHEB2	Ras homolog enriched in brain	Affinity Capture-Western	BioGRID	15854902
RUNDC3A	RAP2IP \| RPIP8	RUN domain containing 3A	Reconstituted Complex	BioGRID	9523700
TSC2	FLJ43106 \| LAM \| TSC4	tuberous sclerosis 2	Affinity Capture-Western Co-purification	BioGRID	12147258 \|12842888

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG MAPK SIGNALING PATHWAY	267	205	All SZGR 2.0 genes in this pathway
KEGG CHEMOKINE SIGNALING PATHWAY	190	128	All SZGR 2.0 genes in this pathway
KEGG FOCAL ADHESION	201	138	All SZGR 2.0 genes in this pathway
KEGG LEUKOCYTE TRANSENDOTHELIAL MIGRATION	118	78	All SZGR 2.0 genes in this pathway
KEGG LONG TERM POTENTIATION	70	57	All SZGR 2.0 genes in this pathway
KEGG NEUROTROPHIN SIGNALING PATHWAY	126	103	All SZGR 2.0 genes in this pathway
KEGG RENAL CELL CARCINOMA	70	60	All SZGR 2.0 genes in this pathway
BIOCARTA INTEGRIN PATHWAY	38	29	All SZGR 2.0 genes in this pathway
BIOCARTA MET PATHWAY	37	30	All SZGR 2.0 genes in this pathway
ST ERK1 ERK2 MAPK PATHWAY	32	25	All SZGR 2.0 genes in this pathway
PID TCR PATHWAY	66	51	All SZGR 2.0 genes in this pathway
PID MET PATHWAY	80	60	All SZGR 2.0 genes in this pathway
PID EPHB FWD PATHWAY	40	38	All SZGR 2.0 genes in this pathway
PID REELIN PATHWAY	29	29	All SZGR 2.0 genes in this pathway
PID NECTIN PATHWAY	30	20	All SZGR 2.0 genes in this pathway
PID RET PATHWAY	39	29	All SZGR 2.0 genes in this pathway
PID CD8 TCR PATHWAY	53	42	All SZGR 2.0 genes in this pathway
PID PI3KCI PATHWAY	49	40	All SZGR 2.0 genes in this pathway
PID ECADHERIN NASCENT AJ PATHWAY	39	33	All SZGR 2.0 genes in this pathway
PID AMB2 NEUTROPHILS PATHWAY	41	32	All SZGR 2.0 genes in this pathway
PID IFNG PATHWAY	40	34	All SZGR 2.0 genes in this pathway
PID PDGFRB PATHWAY	129	103	All SZGR 2.0 genes in this pathway
PID TRKR PATHWAY	62	48	All SZGR 2.0 genes in this pathway
PID EPO PATHWAY	34	29	All SZGR 2.0 genes in this pathway
PID MAPK TRK PATHWAY	34	31	All SZGR 2.0 genes in this pathway
PID FAK PATHWAY	59	45	All SZGR 2.0 genes in this pathway
REACTOME SIGNALLING BY NGF	217	167	All SZGR 2.0 genes in this pathway
REACTOME ARMS MEDIATED ACTIVATION	17	17	All SZGR 2.0 genes in this pathway
REACTOME PROLONGED ERK ACTIVATION EVENTS	19	18	All SZGR 2.0 genes in this pathway
REACTOME NGF SIGNALLING VIA TRKA FROM THE PLASMA MEMBRANE	137	105	All SZGR 2.0 genes in this pathway
REACTOME SIGNALLING TO ERKS	36	30	All SZGR 2.0 genes in this pathway
REACTOME INTEGRIN CELL SURFACE INTERACTIONS	79	48	All SZGR 2.0 genes in this pathway
REACTOME INTEGRATION OF ENERGY METABOLISM	120	84	All SZGR 2.0 genes in this pathway
REACTOME P130CAS LINKAGE TO MAPK SIGNALING FOR INTEGRINS	15	11	All SZGR 2.0 genes in this pathway
REACTOME GRB2 SOS PROVIDES LINKAGE TO MAPK SIGNALING FOR INTERGRINS	15	10	All SZGR 2.0 genes in this pathway
REACTOME INTEGRIN ALPHAIIB BETA3 SIGNALING	27	17	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF INSULIN SECRETION BY GLUCAGON LIKE PEPTIDE1	43	28	All SZGR 2.0 genes in this pathway
REACTOME REGULATION OF INSULIN SECRETION	93	65	All SZGR 2.0 genes in this pathway
REACTOME RAP1 SIGNALLING	17	12	All SZGR 2.0 genes in this pathway
REACTOME PLATELET AGGREGATION PLUG FORMATION	36	23	All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS	466	331	All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM	933	616	All SZGR 2.0 genes in this pathway
REACTOME ADAPTIVE IMMUNE SYSTEM	539	350	All SZGR 2.0 genes in this pathway
REACTOME PLATELET ACTIVATION SIGNALING AND AGGREGATION	208	138	All SZGR 2.0 genes in this pathway
WATANABE RECTAL CANCER RADIOTHERAPY RESPONSIVE UP	108	67	All SZGR 2.0 genes in this pathway
LIU PROSTATE CANCER DN	481	290	All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP	1382	904	All SZGR 2.0 genes in this pathway
BORCZUK MALIGNANT MESOTHELIOMA UP	305	185	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 3D DN	31	19	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 8D DN	205	127	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 10D DN	142	90	All SZGR 2.0 genes in this pathway
TAKEDA TARGETS OF NUP98 HOXA9 FUSION 16D DN	143	83	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
KIM WT1 TARGETS 12HR DN	209	122	All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA POORLY DIFFERENTIATED DN	805	505	All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN	712	443	All SZGR 2.0 genes in this pathway
SCHRAMM INHBA TARGETS DN	24	12	All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN	855	609	All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK	1442	892	All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS	957	597	All SZGR 2.0 genes in this pathway
BENPORATH NANOG TARGETS	988	594	All SZGR 2.0 genes in this pathway
PEART HDAC PROLIFERATION CLUSTER UP	57	35	All SZGR 2.0 genes in this pathway
MAGRANGEAS MULTIPLE MYELOMA IGG VS IGA DN	26	16	All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN	169	112	All SZGR 2.0 genes in this pathway
KUMAR TARGETS OF MLL AF9 FUSION	405	264	All SZGR 2.0 genes in this pathway
CUI TCF21 TARGETS 2 DN	830	547	All SZGR 2.0 genes in this pathway
DAZARD RESPONSE TO UV NHEK UP	244	151	All SZGR 2.0 genes in this pathway
YIH RESPONSE TO ARSENITE C3	36	24	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
ACEVEDO METHYLATED IN LIVER CANCER DN	940	425	All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS UP	518	299	All SZGR 2.0 genes in this pathway
GREGORY SYNTHETIC LETHAL WITH IMATINIB	145	83	All SZGR 2.0 genes in this pathway
PILON KLF1 TARGETS DN	1972	1213	All SZGR 2.0 genes in this pathway
PURBEY TARGETS OF CTBP1 AND SATB1 DN	180	116	All SZGR 2.0 genes in this pathway
BOSCO ALLERGEN INDUCED TH2 ASSOCIATED MODULE	151	86	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-1/206	72	78	1A	hsa-miR-1	UGGAAUGUAAAGAAGUAUGUA
				hsa-miR-206^SZ	UGGAAUGUAAGGAAGUGUGUGG
				hsa-miR-613	AGGAAUGUUCCUUCUUUGCC
miR-149	23	30	1A,m8	hsa-miR-149^brain	UCUGGCUCCGUGUCUUCACUCC
miR-19	154	161	1A,m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	154	161	1A,m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-203.1	299	305	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-23	127	133	1A	hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
				hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
				hsa-miR-23a^brain	AUCACAUUGCCAGGGAUUUCC
				hsa-miR-23b^brain	AUCACAUUGCCAGGGAUUACC
miR-24	21	28	1A,m8	hsa-miR-24^SZ	UGGCUCAGUUCAGCAGGAACAG
miR-25/32/92/363/367	229	235	1A	hsa-miR-25^brain	CAUUGCACUUGUCUCGGUCUGA
				hsa-miR-32	UAUUGCACAUUACUAAGUUGC
				hsa-miR-92	UAUUGCACUUGUCCCGGCCUG
				hsa-miR-367	AAUUGCACUUUAGCAAUGGUGA
				hsa-miR-92b^SZ	UAUUGCACUCGUCCCGGCCUC
miR-26	260	266	m8	hsa-miR-26a^brain	UUCAAGUAAUCCAGGAUAGGC
miR-26	260	266	m8	hsa-miR-26b^SZ	UUCAAGUAAUUCAGGAUAGGUU
miR-299-5p	628	634	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-320	677	683	m8	hsa-miR-320	AAAAGCUGGGUUGAGAGGGCGAA
miR-324-5p	294	300	1A	hsa-miR-324-5p	CGCAUCCCCUAGGGCAUUGGUGU
miR-330	544	550	m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-410	118	124	1A	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-433-3p	355	361	m8	hsa-miR-433^brain	AUCAUGAUGGGCUCCUCGGUGU
miR-539	219	225	m8	hsa-miR-539	GGAGAAAUUAUCCUUGGUGUGU
miR-543	306	312	1A	hsa-miR-543	AAACAUUCGCGGUGCACUUCU

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: RAP1A