Summary ?
GeneID1788
SymbolDNMT3A
SynonymsDNMT3A2|M.HsaIIIA|TBRS
DescriptionDNA (cytosine-5-)-methyltransferase 3 alpha
ReferenceMIM:602769|HGNC:HGNC:2978|Ensembl:ENSG00000119772|HPRD:04141|Vega:OTTHUMG00000094777
Gene typeprotein-coding
Map location2p23
Pascal p-value5.006E-5
Fetal beta2.302
DMG1 (# studies)
SupportChromatin Remodeling Genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 3
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,schizophrenic,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg13558695225500125DNMT3A6.49E-50.3880.024DMG:Wockner_2014
cg27369452225475583DNMT3A1.117E-40.6710.029DMG:Wockner_2014
cg23009818225499764DNMT3A3.481E-40.3320.041DMG:Wockner_2014


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
GPX70.810.79
CBY10.800.77
WDR340.790.75
RUVBL10.790.78
RP20.780.65
MEST0.770.68
SALL20.760.69
TSPAN60.760.73
NT5DC20.750.80
PYCR10.750.77
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
HLA-F-0.57-0.74
FBXO2-0.55-0.74
C5orf53-0.55-0.69
CA4-0.54-0.74
PTGDS-0.54-0.77
ALDOC-0.53-0.71
CSRP1-0.53-0.75
TINAGL1-0.53-0.70
SPARCL1-0.53-0.74
CCNI2-0.53-0.68

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
CBX1CBX | HP1-BETA | HP1Hs-beta | HP1Hsbeta | M31 | MOD1 | p25betachromobox homolog 1 (HP1 beta homolog Drosophila )-HPRD,BioGRID12711675 
CBX5HP1 | HP1Achromobox homolog 5 (HP1 alpha homolog, Drosophila)Affinity Capture-WesternBioGRID12867029 
DNMT1AIM | CXXC9 | DNMT | FLJ16293 | MCMT | MGC104992DNA (cytosine-5-)-methyltransferase 1hDNMT3a interacts with hDNMT1.BIND12145218 
DNMT1AIM | CXXC9 | DNMT | FLJ16293 | MCMT | MGC104992DNA (cytosine-5-)-methyltransferase 1-HPRD,BioGRID12145218 
DNMT3BICF | M.HsaIIIBDNA (cytosine-5-)-methyltransferase 3 beta-HPRD,BioGRID12145218 
DNMT3LMGC1090DNA (cytosine-5-)-methyltransferase 3-like-HPRD,BioGRID11934864 
DNMT3LMGC1090DNA (cytosine-5-)-methyltransferase 3-likeDNMT3L interacts with Dnmt3a. This interaction was modeled on a demonstrated interaction between human DNMT3L and mouse Dnmt3a.BIND15105426 
HDAC1DKFZp686H12203 | GON-10 | HD1 | RPD3 | RPD3L1histone deacetylase 1-HPRD,BioGRID11350943 
MYCbHLHe39 | c-Mycv-myc myelocytomatosis viral oncogene homolog (avian)Myc interacts with Dmnt3a.BIND15616584 
MYCbHLHe39 | c-Mycv-myc myelocytomatosis viral oncogene homolog (avian)-HPRD,BioGRID15616584 
PIAS1DDXBP1 | GBP | GU/RH-II | MGC141878 | MGC141879 | ZMIZ3protein inhibitor of activated STAT, 1-HPRD,BioGRID14752048 
PIAS2MGC102682 | MIZ1 | PIASX | PIASX-ALPHA | PIASX-BETA | SIZ2 | ZMIZ4 | mizprotein inhibitor of activated STAT, 2Affinity Capture-Western
Reconstituted Complex
Two-hybrid
BioGRID14752048 
RARBHAP | NR1B2 | RRB2retinoic acid receptor, betaDNMT3A interacts with RARB (RAR-beta-2) gene promoter sequences.BIND15688037 
RB1OSRC | RB | p105-Rb | pRb | pp110retinoblastoma 1Reconstituted ComplexBioGRID11350943 
RPS8-ribosomal protein S8Reconstituted ComplexBioGRID15616584 
SUV39H1KMT1A | MG44 | SUV39Hsuppressor of variegation 3-9 homolog 1 (Drosophila)-HPRD,BioGRID12711675 
UBE2IC358B7.1 | P18 | UBC9ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast)-HPRD,BioGRID14752048 
ZBTB17MIZ-1 | ZNF151 | ZNF60 | pHZ-67zinc finger and BTB domain containing 17Affinity Capture-WesternBioGRID15616584 
ZBTB17MIZ-1 | ZNF151 | ZNF60 | pHZ-67zinc finger and BTB domain containing 17Miz-1 interacts with Dmnt3a.BIND15616584 
ZNF238C2H2-171 | RP58 | TAZ-1 | ZBTB18zinc finger protein 238Affinity Capture-Western
Reconstituted Complex
BioGRID11350943 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
KEGG CYSTEINE AND METHIONINE METABOLISM 3424All SZGR 2.0 genes in this pathway
PID MYC REPRESS PATHWAY 6352All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 DN 267178All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS C UP 170114All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL BREAST 5 6WK DN 13797All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 5 14789All SZGR 2.0 genes in this pathway
PATIL LIVER CANCER 747453All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037673All SZGR 2.0 genes in this pathway
RICKMAN TUMOR DIFFERENTIATED WELL VS POORLY UP 236139All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN 514330All SZGR 2.0 genes in this pathway
BENPORATH ES 1 379235All SZGR 2.0 genes in this pathway
BENPORATH ES 2 4021All SZGR 2.0 genes in this pathway
BYSTRYKH HEMATOPOIESIS STEM CELL QTL TRANS 882572All SZGR 2.0 genes in this pathway
LIAN LIPA TARGETS 6M 7447All SZGR 2.0 genes in this pathway
GEISS RESPONSE TO DSRNA DN 168All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS STEM CELL 254164All SZGR 2.0 genes in this pathway
LIAN LIPA TARGETS 3M 5936All SZGR 2.0 genes in this pathway
HOFFMANN SMALL PRE BII TO IMMATURE B LYMPHOCYTE DN 5033All SZGR 2.0 genes in this pathway
CHEN METABOLIC SYNDROM NETWORK 1210725All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES UP 605377All SZGR 2.0 genes in this pathway
KARLSSON TGFB1 TARGETS DN 207139All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP 194133All SZGR 2.0 genes in this pathway
TORCHIA TARGETS OF EWSR1 FLI1 FUSION DN 321200All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 227149All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 2ND EGF PULSE ONLY 1725838All SZGR 2.0 genes in this pathway