SZGR2

Summary ?

GeneID	491
Symbol	ATP2B2
Synonyms	PMCA2\|PMCA2a\|PMCA2i
Description	ATPase plasma membrane Ca2+ transporting 2
Reference	MIM:108733\|HGNC:HGNC:815\|Ensembl:ENSG00000157087\|HPRD:00160\|Vega:OTTHUMG00000128679
Gene type	protein-coding
Map location	3p25.3
Pascal p-value	9.295E-5
Fetal beta	-2.141
Support	ION BALANCE G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-CONSENSUS G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL G2Cdb.human_BAYES-COLLINS-MOUSE-PSD-CONSENSUS G2Cdb.human_clathrin G2Cdb.human_Synaptosome G2Cdb.humanPSD G2Cdb.humanPSP CompositeSet Darnell FMRP targets

Gene in Data Sources

Gene set name	Method of gene set	Description	Info
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,schizophrenias	Click to show details
GO_Annotation	Mapping neuro-related keywords to Gene Ontology annotations	Hits with neuro-related keywords: 1

Section I. Genetics and epigenetics annotation

DNM table

Gene	Chromosome	Position	Ref	Alt	Transcript	AA change	Mutation type	Sift	CG46	Trait	Study
ATP2B2	chr3	10491069	G	A	NM_001001331 NM_001683	. .	silent silent			Schizophrenia	DNM:Fromer_2014

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:0000287	magnesium ion binding	IEA		-
GO:0005509	calcium ion binding	IEA		-
GO:0005516	calmodulin binding	IEA		-
GO:0005524	ATP binding	IEA		-
GO:0005388	calcium-transporting ATPase activity	NAS		1313367
GO:0016787	hydrolase activity	IEA		-
GO:0016820	hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	IEA		-
Biological process	GO term	Evidence	Neuro keywords	PubMed ID
GO:0030182	neuron differentiation	IDA	neuron (GO term level: 8)	11259493
GO:0008152	metabolic process	IEA		-
GO:0007605	sensory perception of sound	IMP		15829536
GO:0006816	calcium ion transport	IEA		-
GO:0006812	cation transport	IEA		-
Cellular component	GO term	Evidence	Neuro keywords	PubMed ID
GO:0005737	cytoplasm	IDA		15765049
GO:0016021	integral to membrane	IEA		-
GO:0005886	plasma membrane	NAS		1313367

Section V. Pathway annotation

Pathway name	Pathway size	# SZGR 2.0 genes in pathway	Info
KEGG CALCIUM SIGNALING PATHWAY	178	134	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 PLATELET HOMEOSTASIS	78	49	All SZGR 2.0 genes in this pathway
REACTOME PLATELET CALCIUM HOMEOSTASIS	18	10	All SZGR 2.0 genes in this pathway
REACTOME ION TRANSPORT BY P TYPE ATPASES	34	21	All SZGR 2.0 genes in this pathway
REACTOME ION CHANNEL TRANSPORT	55	42	All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS	466	331	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LIVE UP	485	293	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE FIMA UP	544	308	All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LPS UP	431	237	All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS	1174	695	All SZGR 2.0 genes in this pathway
JAZAG TGFB1 SIGNALING DN	35	24	All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP	201	127	All SZGR 2.0 genes in this pathway
LEE TARGETS OF PTCH1 AND SUFU DN	83	69	All SZGR 2.0 genes in this pathway
CERVERA SDHB TARGETS 2	114	76	All SZGR 2.0 genes in this pathway
URS ADIPOCYTE DIFFERENTIATION UP	74	51	All SZGR 2.0 genes in this pathway
LU AGING BRAIN DN	153	120	All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN	1237	837	All SZGR 2.0 genes in this pathway
KAYO CALORIE RESTRICTION MUSCLE UP	95	64	All SZGR 2.0 genes in this pathway
BACOLOD RESISTANCE TO ALKYLATING AGENTS DN	60	45	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 H3K27ME3	79	59	All SZGR 2.0 genes in this pathway
CHIANG LIVER CANCER SUBCLASS CTNNB1 DN	170	105	All SZGR 2.0 genes in this pathway
MEISSNER NPC HCP WITH H3K4ME2 AND H3K27ME3	349	234	All SZGR 2.0 genes in this pathway
MIKKELSEN MCV6 HCP WITH H3K27ME3	435	318	All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S2	115	74	All SZGR 2.0 genes in this pathway
MIKKELSEN NPC HCP WITH H3K27ME3	341	243	All SZGR 2.0 genes in this pathway
MIKKELSEN MEF HCP WITH H3K27ME3	590	403	All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 1HR UP	61	44	All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP	745	475	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-101	1494	1500	1A	hsa-miR-101	UACAGUACUGUGAUAACUGAAG
miR-127	1410	1416	1A	hsa-miR-127^brain	UCGGAUCCGUCUGAGCUUGGCU
miR-130/301	2597	2603	m8	hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
				hsa-miR-130a^brain	CAGUGCAAUGUUAAAAGGGCAU
				hsa-miR-301	CAGUGCAAUAGUAUUGUCAAAGC
				hsa-miR-130b^brain	CAGUGCAAUGAUGAAAGGGCAU
				hsa-miR-454-3p	UAGUGCAAUAUUGCUUAUAGGGUUU
miR-135	1536	1542	m8	hsa-miR-135a	UAUGGCUUUUUAUUCCUAUGUGA
				hsa-miR-135b	UAUGGCUUUUCAUUCCUAUGUG
				hsa-miR-135a	UAUGGCUUUUUAUUCCUAUGUGA
				hsa-miR-135b	UAUGGCUUUUCAUUCCUAUGUG
miR-139	1495	1501	m8	hsa-miR-139^brain	UCUACAGUGCACGUGUCU
miR-139	1495	1501	m8	hsa-miR-139^brain	UCUACAGUGCACGUGUCU
miR-144	1493	1500	1A,m8	hsa-miR-144	UACAGUAUAGAUGAUGUACUAG
miR-15/16/195/424/497	1355	1361	m8	hsa-miR-15a^brain	UAGCAGCACAUAAUGGUUUGUG
				hsa-miR-16^brain	UAGCAGCACGUAAAUAUUGGCG
				hsa-miR-15b^brain	UAGCAGCACAUCAUGGUUUACA
				hsa-miR-195^SZ	UAGCAGCACAGAAAUAUUGGC
				hsa-miR-424	CAGCAGCAAUUCAUGUUUUGAA
				hsa-miR-497	CAGCAGCACACUGUGGUUUGU
miR-17-5p/20/93.mr/106/519.d	1663	1669	m8	hsa-miR-17-5p	CAAAGUGCUUACAGUGCAGGUAGU
				hsa-miR-20a^brain	UAAAGUGCUUAUAGUGCAGGUAG
				hsa-miR-106a	AAAAGUGCUUACAGUGCAGGUAGC
				hsa-miR-106b^SZ	UAAAGUGCUGACAGUGCAGAU
				hsa-miR-20b^SZ	CAAAGUGCUCAUAGUGCAGGUAG
				hsa-miR-519d	CAAAGUGCCUCCCUUUAGAGUGU
miR-181	326	333	1A,m8	hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
				hsa-miR-181a^brain	AACAUUCAACGCUGUCGGUGAGU
				hsa-miR-181b^SZ	AACAUUCAUUGCUGUCGGUGGG
				hsa-miR-181c^brain	AACAUUCAACCUGUCGGUGAGU
				hsa-miR-181d^brain	AACAUUCAUUGUUGUCGGUGGGUU
miR-19	559	565	m8	hsa-miR-19a	UGUGCAAAUCUAUGCAAAACUGA
miR-19	559	565	m8	hsa-miR-19b	UGUGCAAAUCCAUGCAAAACUGA
miR-191	955	961	m8	hsa-miR-191^brain	CAACGGAAUCCCAAAAGCAGCU
miR-199	848	854	m8	hsa-miR-199a	CCCAGUGUUCAGACUACCUGUUC
miR-199	848	854	m8	hsa-miR-199b	CCCAGUGUUUAGACUAUCUGUUC
miR-203.1	1182	1188	1A	hsa-miR-203	UGAAAUGUUUAGGACCACUAG
miR-299-5p	1461	1467	1A	hsa-miR-299-5p	UGGUUUACCGUCCCACAUACAU
miR-30-5p	799	806	1A,m8	hsa-miR-30a-5p	UGUAAACAUCCUCGACUGGAAG
				hsa-miR-30c^brain	UGUAAACAUCCUACACUCUCAGC
				hsa-miR-30d^SZ	UGUAAACAUCCCCGACUGGAAG
				hsa-miR-30b^SZ	UGUAAACAUCCUACACUCAGCU
				hsa-miR-30e-5p	UGUAAACAUCCUUGACUGGA
miR-326	1915	1922	1A,m8	hsa-miR-326	CCUCUGGGCCCUUCCUCCAG
miR-330	1720	1727	1A,m8	hsa-miR-330^brain	GCAAAGCACACGGCCUGCAGAGA
miR-363	1768	1774	1A	hsa-miR-363	AUUGCACGGUAUCCAUCUGUAA
miR-378	2482	2489	1A,m8	hsa-miR-378	CUCCUGACUCCAGGUCCUGUGU
miR-410	601	607	m8	hsa-miR-410	AAUAUAACACAGAUGGCCUGU
miR-452	420	427	1A,m8	hsa-miR-452	UGUUUGCAGAGGAAACUGAGAC
miR-495	394	400	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-495	394	400	m8	hsa-miR-495^brain	AAACAAACAUGGUGCACUUCUUU
miR-505	1257	1263	m8	hsa-miR-505	GUCAACACUUGCUGGUUUCCUC
miR-7	1472	1478	m8	hsa-miR-7^SZ	UGGAAGACUAGUGAUUUUGUUG
miR-93.hd/291-3p/294/295/302/372/373/520	1662	1668	m8	hsa-miR-93^brain	AAAGUGCUGUUCGUGCAGGUAG
				hsa-miR-302a	UAAGUGCUUCCAUGUUUUGGUGA
				hsa-miR-302b	UAAGUGCUUCCAUGUUUUAGUAG
				hsa-miR-302c	UAAGUGCUUCCAUGUUUCAGUGG
				hsa-miR-302d	UAAGUGCUUCCAUGUUUGAGUGU
				hsa-miR-372	AAAGUGCUGCGACAUUUGAGCGU
				hsa-miR-373	GAAGUGCUUCGAUUUUGGGGUGU
				hsa-miR-520e	AAAGUGCUUCCUUUUUGAGGG
				hsa-miR-520a	AAAGUGCUUCCCUUUGGACUGU
				hsa-miR-520b	AAAGUGCUUCCUUUUAGAGGG
				hsa-miR-520c	AAAGUGCUUCCUUUUAGAGGGUU
				hsa-miR-520d	AAAGUGCUUCUCUUUGGUGGGUU

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: ATP2B2