SZGR2

Summary ?

GeneID	23237
Symbol	ARC
Synonyms	Arg3.1
Description	activity-regulated cytoskeleton-associated protein
Reference	MIM:612461\|HGNC:HGNC:648\|Ensembl:ENSG00000198576\|HPRD:12469\|Vega:OTTHUMG00000134310
Gene type	protein-coding
Map location	8q24.3
Pascal p-value	1.634E-5
Fetal beta	-1.837
eGene	Myers' cis & trans
Support	G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.human_TAP-PSD-95-CORE G2Cdb.humanNRC G2Cdb.humanPSD G2Cdb.humanPSP Potential synaptic genes

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
CV:GWAScat	Genome-wide Association Studies	This data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:GWASdb	Genome-wide Association Studies	GWASdb records for schizophrenia
CV:PGCnp	Genome-wide Association Study	GWAS
PMID:cooccur	High-throughput literature-search	Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature	High-throughput literature-search	Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenics,schizotypy,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 2

Section I. Genetics and epigenetics annotation

eQTL annotation

SNP ID	Chromosome	Position	eGene	Gene Entrez ID	qvalue	eQTL type
rs4976941	chr8	142744439	ARC	23237	0	cis
rs17126801	chr1	65098162	ARC	23237	0.01	trans
rs2566762	chr1	68582456	ARC	23237	0.11	trans
rs17100231	chr1	77761339	ARC	23237	0.01	trans
rs17100274	chr1	77774412	ARC	23237	9.021E-6	trans
rs17029293	chr1	112567844	ARC	23237	0.01	trans
rs17649760	chr1	150425940	ARC	23237	0.2	trans
rs6666937	chr1	170286842	ARC	23237	8.802E-9	trans
rs16843112	chr1	198420657	ARC	23237	2.309E-4	trans
rs697455	chr1	202512075	ARC	23237	0	trans
rs6673109	chr1	207253132	ARC	23237	0.1	trans
rs17260245	chr1	209411024	ARC	23237	0.16	trans
rs1796829	chr1	239661818	ARC	23237	0.16	trans
rs12034521	chr1	239717679	ARC	23237	0.02	trans
snp_a-1990354		0	ARC	23237	0.01	trans
rs6432434	chr2	14160930	ARC	23237	0.19	trans
rs12611832	chr2	31196248	ARC	23237	0.11	trans
rs12614732	chr2	31199913	ARC	23237	0.11	trans
rs12465555	chr2	44118188	ARC	23237	0	trans
rs17029079	chr2	64736071	ARC	23237	0.03	trans
rs17038084	chr2	85192280	ARC	23237	0.05	trans
rs17024035	chr2	100968559	ARC	23237	2.196E-5	trans
rs1437972	chr2	100987386	ARC	23237	0.06	trans
rs7574684	chr2	100992911	ARC	23237	2.196E-5	trans
rs17024129	chr2	100995144	ARC	23237	2.196E-5	trans
rs17024136	chr2	100995382	ARC	23237	9.615E-4	trans
rs7585898	chr2	100998292	ARC	23237	2.196E-5	trans
rs6716367	chr2	101000013	ARC	23237	6.592E-4	trans
rs1370627	chr2	101009384	ARC	23237	2.196E-5	trans
rs4149509	chr2	101023698	ARC	23237	0.04	trans
rs6707117	chr2	136855504	ARC	23237	4.034E-5	trans
rs16838911	chr2	156087569	ARC	23237	5.464E-6	trans
rs9807949	chr2	182655005	ARC	23237	0.04	trans
rs7608942	chr2	182820100	ARC	23237	2.039E-7	trans
rs17684934	chr3	4443547	ARC	23237	0.08	trans
rs17040633	chr3	4446836	ARC	23237	0.08	trans
rs17756483	chr3	4451309	ARC	23237	0.08	trans
rs17685441	chr3	4465165	ARC	23237	0.08	trans
rs6772815	chr3	5164768	ARC	23237	0.03	trans
rs997245	chr3	61844600	ARC	23237	0.01	trans
rs1524966	chr3	65530832	ARC	23237	0.16	trans
rs6549584	chr3	74146787	ARC	23237	0.14	trans
rs1381835	chr3	110600595	ARC	23237	0.19	trans
rs6807632	chr3	111395567	ARC	23237	0	trans
rs16839796	chr4	7188348	ARC	23237	0.02	trans
rs17005000	chr4	81826551	ARC	23237	0.05	trans
rs10011751	chr4	93984994	ARC	23237	0.14	trans
rs6881821	chr5	8578465	ARC	23237	0.03	trans
rs679416	chr5	10310796	ARC	23237	0.15	trans
rs2115110	chr5	38193428	ARC	23237	0.02	trans
rs10040715	chr5	57594207	ARC	23237	2.784E-4	trans
rs13189446	chr5	61572988	ARC	23237	0.04	trans
rs16890628	chr5	61612280	ARC	23237	0.06	trans
rs16890651	chr5	61629538	ARC	23237	0.05	trans
rs153864	chr5	61720941	ARC	23237	0.1	trans
rs153869	chr5	61754994	ARC	23237	0.07	trans
rs40290	chr5	61817141	ARC	23237	0.06	trans
rs32178	chr5	61828146	ARC	23237	0.09	trans
rs32170	chr5	61847072	ARC	23237	0.07	trans
rs32053	chr5	61877627	ARC	23237	0.17	trans
snp_a-4217300		0	ARC	23237	0.03	trans
rs17134275	chr5	100634998	ARC	23237	0.07	trans
rs2963232	chr5	103713882	ARC	23237	0.16	trans
rs2900115	chr5	117414349	ARC	23237	0.13	trans
rs2141482	chr5	136760477	ARC	23237	1.634E-6	trans
rs2189803	chr5	137684661	ARC	23237	1.135E-4	trans
rs17209139	chr5	142552525	ARC	23237	0	trans
rs259913	chr5	169370782	ARC	23237	0.05	trans
rs2116811	chr5	171820051	ARC	23237	0.11	trans
rs1977059	chr6	5720825	ARC	23237	0.19	trans
rs2239516	chr6	30578047	ARC	23237	0.11	trans
rs6904236	chr6	30596134	ARC	23237	0.05	trans
rs2030024	chr6	131014624	ARC	23237	0	trans
rs10485094	chr6	131071433	ARC	23237	8.114E-4	trans
rs17059517	chr6	131076254	ARC	23237	0	trans
rs9402280	chr6	131102770	ARC	23237	0.01	trans
rs12176346	chr6	136732663	ARC	23237	0.1	trans
rs2237264	chr6	136919977	ARC	23237	0.1	trans
rs12164028	chr6	136929934	ARC	23237	9.036E-5	trans
rs17080121	chr6	151009189	ARC	23237	0.1	trans
rs10945911	chr6	164047509	ARC	23237	0.18	trans
rs12701006	chr7	30147298	ARC	23237	6.635E-4	trans
rs1419793	chr7	34697630	ARC	23237	8.184E-5	trans
rs17621151	chr7	53572911	ARC	23237	0.02	trans
rs17141666	chr7	69928490	ARC	23237	0.01	trans
rs6978484	chr7	69979339	ARC	23237	0.03	trans
rs17141735	chr7	70005608	ARC	23237	0.07	trans
rs17141754	chr7	70033812	ARC	23237	0.09	trans
rs12671672	chr7	117614219	ARC	23237	0.15	trans
rs3993439	chr7	128679933	ARC	23237	0.01	trans
rs6958821	chr7	153253566	ARC	23237	0.01	trans
rs7829733	chr8	9691720	ARC	23237	0.03	trans
rs10102886	chr8	51805574	ARC	23237	0	trans
rs1457044	chr8	59257567	ARC	23237	0.01	trans
rs1457032	chr8	59290536	ARC	23237	0.09	trans
rs2217103	chr8	69974000	ARC	23237	0.11	trans
rs1733950	chr8	90062516	ARC	23237	0	trans
rs318307	chr8	90185459	ARC	23237	0.15	trans
rs10282827	chr8	138034102	ARC	23237	0.18	trans
rs4976941	chr8	142744439	ARC	23237	0.11	trans
rs9298651	chr9	10076275	ARC	23237	0.02	trans
rs16931013	chr9	10076859	ARC	23237	0.02	trans
rs16931018	chr9	10077048	ARC	23237	0.02	trans
rs1467547	chr9	17630726	ARC	23237	0.1	trans
rs1335159	chr9	31147839	ARC	23237	0.05	trans
rs1109460	chr9	79410224	ARC	23237	0.01	trans
rs11791891	chr9	87512411	ARC	23237	7.896E-4	trans
rs17087884	chr9	87548646	ARC	23237	0.11	trans
rs3780642	chr9	87553144	ARC	23237	1.263E-7	trans
rs3780645	chr9	87559793	ARC	23237	0.16	trans
rs4877892	chr9	87560460	ARC	23237	0.11	trans
rs10992752	chr9	96240578	ARC	23237	0.16	trans
rs10981864	chr9	116416735	ARC	23237	0.12	trans
rs2807706	chr9	121744331	ARC	23237	0.02	trans
rs2818297	chr9	121757015	ARC	23237	0.09	trans
rs10739527	chr9	121772512	ARC	23237	0.04	trans
rs10760278	chr9	126094457	ARC	23237	0.1	trans
rs2417062	chr9	130715921	ARC	23237	0.04	trans
rs12005879	chr9	133737648	ARC	23237	0.08	trans
rs11252514	chr10	499572	ARC	23237	0.18	trans
rs4745717	chr10	75305784	ARC	23237	0.01	trans
rs4750827	chr10	132547183	ARC	23237	0.1	trans
rs4750829	chr10	132547260	ARC	23237	0.1	trans
rs11021918	chr11	2269189	ARC	23237	0.19	trans
rs10741552	chr11	11539873	ARC	23237	0.17	trans
rs769442	chr11	64888954	ARC	23237	0.01	trans
rs1255149	chr11	95484493	ARC	23237	0.18	trans
rs3748251	chr11	95519156	ARC	23237	0.04	trans
rs16922543	chr11	95526116	ARC	23237	0.04	trans
rs16922622	chr11	95567387	ARC	23237	0.04	trans
rs3181323	chr11	104878386	ARC	23237	0.08	trans
rs6590743	chr11	134405995	ARC	23237	0.16	trans
rs2239031	chr12	2336168	ARC	23237	0.05	trans
rs2109556	chr12	3887300	ARC	23237	0.2	trans
rs374484	chr12	27627159	ARC	23237	0.12	trans
rs2407183	chr12	43399127	ARC	23237	0.17	trans
rs8490	chr12	51453904	ARC	23237	0	trans
rs17113079	chr12	74538548	ARC	23237	0	trans
rs17113131	chr12	74564573	ARC	23237	0	trans
rs7296098	chr12	113228993	ARC	23237	0.01	trans
rs11833075	chr12	122114592	ARC	23237	0.01	trans
rs3803214	chr13	25740255	ARC	23237	0.04	trans
snp_a-4201259		0	ARC	23237	0.12	trans
rs4497566	chr13	51694324	ARC	23237	0	trans
rs17088392	chr13	72257235	ARC	23237	0.08	trans
rs9574766	chr13	81723606	ARC	23237	0.08	trans
rs7327697	chr13	83227456	ARC	23237	0.19	trans
rs7322001	chr13	94895345	ARC	23237	0.08	trans
snp_a-1952108		0	ARC	23237	0.16	trans
rs7156088	chr14	27821865	ARC	23237	0.14	trans
rs11846180	chr14	51377031	ARC	23237	0.01	trans
rs8022005	chr14	61345380	ARC	23237	0.11	trans
rs7161226	chr14	88327803	ARC	23237	0.02	trans
rs1885073	chr14	104357181	ARC	23237	1.279E-4	trans
rs4465541	chr14	105016846	ARC	23237	0.02	trans
rs17761129	chr15	24262387	ARC	23237	0.11	trans
rs4777108	chr15	69383464	ARC	23237	0.13	trans
rs11858762	chr15	81386594	ARC	23237	0.06	trans
rs9635390	chr15	90809632	ARC	23237	0.03	trans
rs8047151	chr16	17209696	ARC	23237	1.986E-9	trans
rs4271578	chr16	17213886	ARC	23237	4.518E-8	trans
rs7200513	chr16	17219474	ARC	23237	4.144E-9	trans
rs3829495	chr16	17221986	ARC	23237	4.512E-12	trans
rs7193763	chr16	17225534	ARC	23237	3.618E-7	trans
rs4316748	chr16	55781757	ARC	23237	5.773E-4	trans
rs1867231	chr17	13678834	ARC	23237	0.05	trans
rs7219986	chr17	53263206	ARC	23237	0.17	trans
rs17817797	chr17	53332496	ARC	23237	0.04	trans
rs9646596	chr18	53049211	ARC	23237	0.03	trans
rs17594526	chr18	53058237	ARC	23237	0.04	trans
rs11152369	chr18	53066327	ARC	23237	0.12	trans
rs1469488	chr18	57228449	ARC	23237	0.09	trans
rs1469489	chr18	57228488	ARC	23237	0.02	trans
rs9319807	chr18	68766779	ARC	23237	9.702E-4	trans
snp_a-1821751		0	ARC	23237	2.063E-4	trans
rs1942464	chr18	70509877	ARC	23237	0.11	trans
rs17056922	chr18	73086804	ARC	23237	0.11	trans
snp_a-2138575		0	ARC	23237	0.09	trans
rs10853720	chr19	39265797	ARC	23237	0.09	trans
rs6417634	chr20	6408617	ARC	23237	0.02	trans
rs6026122	chr20	56769083	ARC	23237	0.08	trans
rs134028	chr22	28048448	ARC	23237	0.01	trans
rs5768165	chr22	48318197	ARC	23237	0.17	trans
rs5768168	chr22	48319334	ARC	23237	0.17	trans
rs5768173	chr22	48321475	ARC	23237	0.17	trans
rs16978981	chrX	13538144	ARC	23237	0.01	trans
rs7879159	chrX	19481591	ARC	23237	0.07	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

Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0009952	anterior/posterior pattern formation	IEA		-
GO:0007492	endoderm development	IEA		-
GO:0006897	endocytosis	IEA		-
GO:0007275	multicellular organismal development	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0042995	cell projection	IEA	axon (GO term level: 4)	-
GO:0045211	postsynaptic membrane	IEA	Synap, Neurotransmitter (GO term level: 5)	-
GO:0045202	synapse	IEA	neuron, Synap, Neurotransmitter, Glial (GO term level: 2)	-
GO:0001669	acrosome	IEA		-
GO:0005856	cytoskeleton	IEA		-
GO:0005737	cytoplasm	IEA		-
GO:0005768	endosome	IEA		-
GO:0005886	plasma membrane	IEA		-
GO:0030054	cell junction	IEA		-

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
NAGASHIMA NRG1 SIGNALING UP	176	123	All SZGR 2.0 genes in this pathway
NAGASHIMA EGF SIGNALING UP	58	40	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS UP	214	155	All SZGR 2.0 genes in this pathway
KIM WT1 TARGETS 8HR UP	164	122	All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS	1174	695	All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK	1652	1023	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 12HR UP	116	79	All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP	487	286	All SZGR 2.0 genes in this pathway
NIKOLSKY BREAST CANCER 8Q23 Q24 AMPLICON	157	87	All SZGR 2.0 genes in this pathway
NIKOLSKY MUTATED AND AMPLIFIED IN BREAST CANCER	94	60	All SZGR 2.0 genes in this pathway
SHIPP DLBCL CURED VS FATAL UP	39	22	All SZGR 2.0 genes in this pathway
TAVOR CEBPA TARGETS UP	48	36	All SZGR 2.0 genes in this pathway
SATO SILENCED EPIGENETICALLY IN PANCREATIC CANCER	49	30	All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN UP	439	257	All SZGR 2.0 genes in this pathway
LIN NPAS4 TARGETS DN	68	48	All SZGR 2.0 genes in this pathway
YOSHIMURA MAPK8 TARGETS UP	1305	895	All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2	491	319	All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE VIA TP53 GROUP A	898	516	All SZGR 2.0 genes in this pathway
DALESSIO TSA RESPONSE	29	16	All SZGR 2.0 genes in this pathway
WAKABAYASHI ADIPOGENESIS PPARG RXRA BOUND 36HR	152	88	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 TARGETS 10HR UP	199	143	All SZGR 2.0 genes in this pathway
PLASARI TGFB1 SIGNALING VIA NFIC 10HR UP	54	38	All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL UP	289	184	All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP	489	314	All SZGR 2.0 genes in this pathway
DURAND STROMA S UP	297	194	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-149	722	728	m8	hsa-miR-149^brain	UCUGGCUCCGUGUCUUCACUCC
miR-19	1338	1345	1A,m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	1338	1345	1A,m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-495	1527	1533	1A	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU

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: ARC