Gene Page: ATP2A2

Summary ?
GeneID488
SymbolATP2A2
SynonymsATP2B|DAR|DD|SERCA2
DescriptionATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 2
ReferenceMIM:108740|HGNC:HGNC:812|Ensembl:ENSG00000174437|HPRD:00161|Vega:OTTHUMG00000169327
Gene typeprotein-coding
Map location12q24.11
Pascal p-value5.832E-5
Sherlock p-value0.044
Fetal beta-1.542
eGeneCerebellum
Myers' cis & trans
SupportION BALANCE
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
Darnell FMRP targets

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWAScatGenome-wide Association StudiesThis data set includes 560 SNPs associated with schizophrenia. A total of 486 genes were mapped to these SNPs within 50kb.
CV:PGC128Genome-wide Association StudyA multi-stage schizophrenia GWAS of up to 36,989 cases and 113,075 controls. Reported by the Schizophrenia Working Group of PGC. 128 independent associations spanning 108 loci
CV:PGCnpGenome-wide Association StudyGWAS
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details
GO_AnnotationMapping neuro-related keywords to Gene Ontology annotationsHits with neuro-related keywords: 1 

Section I. Genetics and epigenetics annotation

@CV:PGC128

SNP IDChromosomePositionAllelePFunctionGeneUp/Down Distance
rs4766428chr12110723245TC7.093E-10intronicATP2A2

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs10994209chr1061877705ATP2A24880.19trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

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
GenePearson's Correlation Spearman's Correlation
KCNB10.940.94
SCN8A0.930.92
CNNM10.930.91
GRIN2A0.920.74
AP000751.30.910.90
PLCB10.910.88
KCNMA10.910.87
SLC6A170.910.93
DLGAP20.900.86
GABRB20.900.89
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
RAB13-0.46-0.61
BCL7C-0.45-0.50
DBI-0.43-0.58
PECI-0.42-0.49
EFEMP2-0.42-0.42
GTF3C6-0.42-0.38
RAB34-0.42-0.51
AC006276.2-0.41-0.40
C9orf46-0.40-0.39
C21orf57-0.40-0.41

Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0048155S100 alpha bindingIPIastrocyte (GO term level: 4)12804600 
GO:0000166nucleotide bindingIEA-
GO:0000287magnesium ion bindingIEA-
GO:0005509calcium ion bindingIEA-
GO:0005524ATP bindingIEA-
GO:0005388calcium-transporting ATPase activityTAS2844796 
GO:0016787hydrolase activityIEA-
GO:0016820hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substancesIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0007155cell adhesionTAS10080178 
GO:0008544epidermis developmentTAS10080178 
GO:0008152metabolic processIEA-
GO:0006816calcium ion transportIEA-
GO:0006812cation transportIEA-
GO:0015992proton transportIEA-
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005792microsomeTAS2844796 
GO:0005624membrane fractionTAS2844796 
GO:0016020membraneIEA-
GO:0005887integral to plasma membraneTAS2844796 
GO:0033017sarcoplasmic reticulum membraneIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG CALCIUM SIGNALING PATHWAY 178134All SZGR 2.0 genes in this pathway
KEGG CARDIAC MUSCLE CONTRACTION 8051All SZGR 2.0 genes in this pathway
KEGG ALZHEIMERS DISEASE 169110All SZGR 2.0 genes in this pathway
KEGG HYPERTROPHIC CARDIOMYOPATHY HCM 8565All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC 7659All SZGR 2.0 genes in this pathway
KEGG DILATED CARDIOMYOPATHY 9268All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH EXPRESSION AND PROCESSING 4424All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH PROCESSING IN GOLGI 1610All SZGR 2.0 genes in this pathway
REACTOME TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES 413270All SZGR 2.0 genes in this pathway
REACTOME PLATELET HOMEOSTASIS 7849All SZGR 2.0 genes in this pathway
REACTOME PLATELET CALCIUM HOMEOSTASIS 1810All SZGR 2.0 genes in this pathway
REACTOME ION TRANSPORT BY P TYPE ATPASES 3421All SZGR 2.0 genes in this pathway
REACTOME ION CHANNEL TRANSPORT 5542All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH 10364All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466331All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP 783507All SZGR 2.0 genes in this pathway
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP 1382904All SZGR 2.0 genes in this pathway
BORCZUK MALIGNANT MESOTHELIOMA UP 305185All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 2 DN 281186All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION UP 1278748All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN 485334All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN 17811082All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 4 6134All SZGR 2.0 genes in this pathway
SCHLOSSER MYC TARGETS AND SERUM RESPONSE UP 4732All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712443All SZGR 2.0 genes in this pathway
JOHANSSON BRAIN CANCER EARLY VS LATE DN 4535All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390236All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN 848527All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS DN 637377All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX 795478All SZGR 2.0 genes in this pathway
LEE TARGETS OF PTCH1 AND SUFU DN 8369All SZGR 2.0 genes in this pathway
IIZUKA LIVER CANCER PROGRESSION G1 G2 DN 2518All SZGR 2.0 genes in this pathway
NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE DN 12179All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN 169112All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT REJECTED VS OK DN 546351All SZGR 2.0 genes in this pathway
KLEIN PRIMARY EFFUSION LYMPHOMA UP 5129All SZGR 2.0 genes in this pathway
PENG GLUTAMINE DEPRIVATION DN 337230All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP 555346All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS POSTNATAL 6350All SZGR 2.0 genes in this pathway
LU AGING BRAIN DN 153120All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE DN 1237837All SZGR 2.0 genes in this pathway
GENTILE UV RESPONSE CLUSTER D4 5537All SZGR 2.0 genes in this pathway
JIANG AGING HYPOTHALAMUS DN 4031All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298200All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN 312203All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT DN 165106All SZGR 2.0 genes in this pathway
LEE CALORIE RESTRICTION NEOCORTEX DN 8858All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION DN 287208All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434302All SZGR 2.0 genes in this pathway
KAAB FAILED HEART VENTRICLE DN 4128All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX DN 5443All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP 393244All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543317All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN 593372All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601369All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D UP 210124All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6 469239All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP 863514All SZGR 2.0 genes in this pathway
TOYOTA TARGETS OF MIR34B AND MIR34C 463262All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435289All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668419All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721492All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO GONADOTROPHINS DN 8766All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO FORSKOLIN UP 9058All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682440All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP 548370All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN 414237All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP 194133All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS DN 2724All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES 462273All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489314All SZGR 2.0 genes in this pathway
CHEMELLO SOLEUS VS EDL MYOFIBERS UP 3516All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
let-7/984904971A,m8hsa-let-7abrainUGAGGUAGUAGGUUGUAUAGUU
hsa-let-7bbrainUGAGGUAGUAGGUUGUGUGGUU
hsa-let-7cbrainUGAGGUAGUAGGUUGUAUGGUU
hsa-let-7dbrainAGAGGUAGUAGGUUGCAUAGU
hsa-let-7ebrainUGAGGUAGGAGGUUGUAUAGU
hsa-let-7fbrainUGAGGUAGUAGAUUGUAUAGUU
hsa-miR-98brainUGAGGUAGUAAGUUGUAUUGUU
hsa-let-7gSZUGAGGUAGUAGUUUGUACAGU
hsa-let-7ibrainUGAGGUAGUAGUUUGUGCUGU
miR-141/200a265271m8hsa-miR-141UAACACUGUCUGGUAAAGAUGG
hsa-miR-200aUAACACUGUCUGGUAACGAUGU
miR-148/1524714781A,m8hsa-miR-148aUCAGUGCACUACAGAACUUUGU
hsa-miR-152brainUCAGUGCAUGACAGAACUUGGG
hsa-miR-148bUCAGUGCAUCACAGAACUUUGU
miR-149308314m8hsa-miR-149brainUCUGGCUCCGUGUCUUCACUCC
miR-181357363m8hsa-miR-181abrainAACAUUCAACGCUGUCGGUGAGU
hsa-miR-181bSZAACAUUCAUUGCUGUCGGUGGG
hsa-miR-181cbrainAACAUUCAACCUGUCGGUGAGU
hsa-miR-181dbrainAACAUUCAUUGUUGUCGGUGGGUU
miR-182778784m8hsa-miR-182UUUGGCAAUGGUAGAACUCACA
miR-200bc/429500506m8hsa-miR-200bUAAUACUGCCUGGUAAUGAUGAC
hsa-miR-200cUAAUACUGCCGGGUAAUGAUGG
hsa-miR-429UAAUACUGUCUGGUAAAACCGU
miR-21475811Ahsa-miR-214brainACAGCAGGCACAGACAGGCAG
miR-243073131Ahsa-miR-24SZUGGCUCAGUUCAGCAGGAACAG
miR-30-5p6266331A,m8hsa-miR-30a-5pUGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrainUGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZUGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZUGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5pUGUAAACAUCCUUGACUGGA
miR-3463143201Ahsa-miR-346brainUGUCUGCCCGCAUGCCUGCCUCU
miR-3843503561Ahsa-miR-384AUUCCUAGAAAUUGUUCAUA
miR-493-5p260266m8hsa-miR-493-5pUUGUACAUGGUAGGCUUUCAUU
miR-5446696761A,m8hsa-miR-544AUUCUGCAUUUUUAGCAAGU