Gene Page:ATP2A2

Summary?
GeneID 488
Symbol ATP2A2
Synonyms ATP2B|DAR|DD|SERCA2
Description ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 2
Reference MIM:108740|HGNC:HGNC:812|Ensembl:ENSG00000174437|HPRD:00161|Vega:OTTHUMG00000169327
Gene type protein-coding
Map location 12q24.11
Pascal p-value 5.832E-5
Sherlock p-value 0.044
Fetal beta -1.542
eGene Cerebellum
Myers' cis & trans
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.humanPSD
G2Cdb.humanPSP
CompositeSet
Darnell FMRP targets

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:PGC128 Genome-wide Association Study A 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: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,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

@CV:PGC128

SNP ID Chromosome Position Allele P Function Gene Up/Down Distance
rs4766428 chr12 110723245 TC 7.093E-10 intronic ATP2A2

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs10994209 chr10 61877705 ATP2A2 488 0.19 trans

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
Gene Pearson's Correlation Spearman's Correlation
KCNB1 0.94 0.94
SCN8A 0.93 0.92
CNNM1 0.93 0.91
GRIN2A 0.92 0.74
AP000751.3 0.91 0.90
PLCB1 0.91 0.88
KCNMA1 0.91 0.87
SLC6A17 0.91 0.93
DLGAP2 0.90 0.86
GABRB2 0.90 0.89
Top 10 negatively co-expressed genes
Gene Pearson'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 function GO term Evidence Neuro keywords PubMed ID
GO:0048155 S100 alpha binding 新闻学会 astrocyte (GO term level: 4) 12804600
GO:0000166 nucleotide binding IEA -
GO:0000287 magnesium ion binding IEA -
GO:0005509 calcium ion binding IEA -
GO:0005524 ATP binding IEA -
GO:0005388 calcium-transporting ATPase activity TAS 2844796
GO:0016787 hydrolase activity IEA -
GO:0016820 水解酶活性,作用于酸anhydrides, catalyzing transmembrane movement of substances IEA -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0007155 cell adhesion TAS 10080178
GO:0008544 epidermis development TAS 10080178
GO:0008152 metabolic process IEA -
GO:0006816 calcium ion transport IEA -
GO:0006812 cation transport IEA -
GO:0015992 proton transport IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005792 microsome TAS 2844796
GO:0005624 membrane fraction TAS 2844796
GO:0016020 membrane IEA -
GO:0005887 integral to plasma membrane TAS 2844796
GO:0033017 sarcoplasmic reticulum membrane IEA -

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
KEGG CARDIAC MUSCLE CONTRACTION 80 51 All SZGR 2.0 genes in this pathway
KEGG ALZHEIMERS DISEASE 169 110 All SZGR 2.0 genes in this pathway
KEGG HYPERTROPHIC CARDIOMYOPATHY HCM 85 65 All SZGR 2.0 genes in this pathway
KEGG ARRHYTHMOGENIC RIGHT VENTRICULAR CARDIOMYOPATHY ARVC 76 59 All SZGR 2.0 genes in this pathway
KEGG DILATED CARDIOMYOPATHY 92 68 All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH EXPRESSION AND PROCESSING 44 24 All SZGR 2.0 genes in this pathway
REACTOME PRE NOTCH PROCESSING IN GOLGI 16 10 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 SIGNALING BY NOTCH 103 64 All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466 331 All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA UP 783 507 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
MULLIGHAN MLL SIGNATURE 2 DN 281 186 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
ENK UV RESPONSE KERATINOCYTE DN 485 334 All SZGR 2.0 genes in this pathway
由阿霉素DN GRAESSMANN细胞凋亡 1781 1082 All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 4 61 34 All SZGR 2.0 genes in this pathway
SCHLOSSER MYC TARGETS AND SERUM RESPONSE UP 47 32 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE DN 712 443 All SZGR 2.0 genes in this pathway
JOHANSSON BRAIN CANCER EARLY VS LATE DN 45 35 All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390 236 All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN 848 527 All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037 673 All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS DN 637 377 All SZGR 2.0 genes in this pathway
WEI MYCN TARGETS WITH E BOX 795 478 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
IIZUKA LIVER CANCER PROGRESSION G1 G2 DN 25 18 All SZGR 2.0 genes in this pathway
NING CHRONIC OBSTRUCTIVE PULMONARY DISEASE DN 121 79 All SZGR 2.0 genes in this pathway
PENG GLUCOSE DEPRIVATION DN 169 112 All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT REJECTED VS OK DN 546 351 All SZGR 2.0 genes in this pathway
KLEIN PRIMARY EFFUSION LYMPHOMA UP 51 29 All SZGR 2.0 genes in this pathway
PENG GLUTAMINE DEPRIVATION DN 337 230 All SZGR 2.0 genes in this pathway
FLECHNER BIOPSY KIDNEY TRANSPLANT OK VS DONOR UP 555 346 All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS POSTNATAL 63 50 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
GENTILE UV RESPONSE CLUSTER D4 55 37 All SZGR 2.0 genes in this pathway
JIANG AGING HYPOTHALAMUS DN 40 31 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298 200 All SZGR 2.0 genes in this pathway
GENTILE UV HIGH DOSE DN 312 203 All SZGR 2.0 genes in this pathway
BLALOCK ALZHEIMERS DISEASE INCIPIENT DN 165 106 All SZGR 2.0 genes in this pathway
LEE CALORIE RESTRICTION NEOCORTEX DN 88 58 All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION DN 287 208 All SZGR 2.0 genes in this pathway
BAELDE DIABETIC NEPHROPATHY DN 434 302 All SZGR 2.0 genes in this pathway
KAAB FAILED HEART VENTRICLE DN 41 28 All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX DN 54 43 All SZGR 2.0 genes in this pathway
MONNIER POSTRADIATION TUMOR ESCAPE UP 393 244 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 TARGETS DN 543 317 All SZGR 2.0 genes in this pathway
MARTINEZ TP53 TARGETS DN 593 372 All SZGR 2.0 genes in this pathway
MARTINEZ RB1 AND TP53 TARGETS UP 601 369 All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 3D UP 210 124 All SZGR 2.0 genes in this pathway
MCCABE BOUND BY HOXC6 469 239 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER TUMOR VS NORMAL ADJACENT TISSUE UP 863 514 All SZGR 2.0 genes in this pathway
TOYOTA TARGETS OF MIR34B AND MIR34C 463 262 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS DN 435 289 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA HAPTOTAXIS DN 668 419 All SZGR 2.0 genes in this pathway
WONG ADULT TISSUE STEM MODULE 721 492 All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO GONADOTROPHINS DN 87 66 All SZGR 2.0 genes in this pathway
SASSON RESPONSE TO FORSKOLIN UP 90 58 All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682 440 All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP 548 370 All SZGR 2.0 genes in this pathway
LU EZH2 TARGETS DN 414 237 All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP 194 133 All SZGR 2.0 genes in this pathway
IKEDA MIR30 TARGETS DN 27 24 All SZGR 2.0 genes in this pathway
DELACROIX RAR BOUND ES 462 273 All SZGR 2.0 genes in this pathway
LIM MAMMARY STEM CELL UP 489 314 All SZGR 2.0 genes in this pathway
CHEMELLO SOLEUS VS EDL MYOFIBERS UP 35 16 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
let-7/98 490 497 1A,m8 hsa-let-7abrain UGAGGUAGUAGGUUGUAUAGUU
hsa-let-7bbrain UGAGGUAGUAGGUUGUGUGGUU
hsa-let-7cbrain UGAGGUAGUAGGUUGUAUGGUU
hsa-let-7dbrain AGAGGUAGUAGGUUGCAUAGU
hsa-let-7ebrain UGAGGUAGGAGGUUGUAUAGU
hsa-let-7fbrain UGAGGUAGUAGAUUGUAUAGUU
hsa-miR-98brain UGAGGUAGUAAGUUGUAUUGUU
hsa-let-7gSZ UGAGGUAGUAGUUUGUACAGU
hsa-let-7ibrain UGAGGUAGUAGUUUGUGCUGU
miR-141/200a 265 271 m8 hsa-miR-141 UAACACUGUCUGGUAAAGAUGG
hsa-miR-200a UAACACUGUCUGGUAACGAUGU
miR-148/152 471 478 1A,m8 hsa-miR-148a UCAGUGCACUACAGAACUUUGU
hsa-miR-152brain UCAGUGCAUGACAGAACUUGGG
hsa-miR-148b UCAGUGCAUCACAGAACUUUGU
miR-149 308 314 m8 hsa-miR-149brain UCUGGCUCCGUGUCUUCACUCC
miR-181 357 363 m8 hsa-miR-181abrain AACAUUCAACGCUGUCGGUGAGU
hsa-miR-181bSZ AACAUUCAUUGCUGUCGGUGGG
hsa-miR-181cbrain AACAUUCAACCUGUCGGUGAGU
hsa-miR-181dbrain AACAUUCAUUGUUGUCGGUGGGUU
miR-182 778 784 m8 hsa-miR-182 UUUGGCAAUGGUAGAACUCACA
miR-200bc/429 500 506 m8 hsa-miR-200b UAAUACUGCCUGGUAAUGAUGAC
hsa-miR-200c UAAUACUGCCGGGUAAUGAUGG
hsa-miR-429 UAAUACUGUCUGGUAAAACCGU
miR-214 75 81 1A hsa-miR-214brain ACAGCAGGCACAGACAGGCAG
miR-24 307 313 1A hsa-miR-24SZ UGGCUCAGUUCAGCAGGAACAG
miR-30-5p 626 633 1A,m8 hsa-miR-30a-5p UGUAAACAUCCUCGACUGGAAG
hsa-miR-30cbrain UGUAAACAUCCUACACUCUCAGC
hsa-miR-30dSZ UGUAAACAUCCCCGACUGGAAG
hsa-miR-30bSZ UGUAAACAUCCUACACUCAGCU
hsa-miR-30e-5p UGUAAACAUCCUUGACUGGA
miR-346 314 320 1A hsa-miR-346brain UGUCUGCCCGCAUGCCUGCCUCU
miR-384 350 356 1A hsa-miR-384 AUUCCUAGAAAUUGUUCAUA
miR-493-5p 260 266 m8 hsa-miR-493-5p UUGUACAUGGUAGGCUUUCAUU
miR-544 669 676 1A,m8 hsa-miR-544 AUUCUGCAUUUUUAGCAAGU