Gene info: ID 3020

Gene: H3F3A

GENE ID: 3020

Synonyms: H3.3A|H3F3

Description: H3 histone family member 3A

Gene type: protein-coding

Location: 1q42.12

dbXrefs: Ensembl:ENSG00000163041 MIM:601128 Vega:OTTHUMG00000037507 UniprotKB:P84243

RefSeq: NC_000001.11

Retrived from: SNP Mapped

SNPs: 1 ANCO-SNPs

Phenotype: ND

# Publications: 0

Sherlock p-value : 4.665e-1 (AD) 6.680e-1 (ND) (Frontal_Cortex)

Pascal p-value : 7.416e-1 (AD) 7.192e-1 (ND)

ANCO-SNPs

SNP ID	Position	Alleles	Trait	Variation Type
rs6664668	chr1:226068253 (GRCh38.p7)	G>A	nicotine dependence	SNV(Single Nucleotide Variation)

DNA Methylation

There is no related methylation information for this gene.

Gene Expression in Different Tissues

Temporal and Spatial Expressions (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 average value of the expressions.

Top Co-expressed Genes in Brain-Frontal Cortex (BA9) (GTEx v7)

Top 10 positively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
SFT2D1	0.816
GINM1	0.803
ATRAID	0.802
TMBIM4	0.799
EMC2	0.794
CDK4	0.785
TMEM179B	0.778
RAB9A	0.777
SEC11A	0.777
LSM14A	0.777

Top 10 negatively co-expressed genes

Gene Symbol	Pearson Correlation Coefficient
OR4F5	-0.6
OR4F29	-0.575
OPRD1	-0.266
ADRA1D	-0.265
ASB18	-0.258
RHO	-0.245
OPN5	-0.244
ABCC12	-0.24
MIP	-0.236
CALHM1	-0.236

There is no DrugBank record for this gene !

ID	Drug Name	Action	PubMed
C016392	3,3'-diindolylmethane	"3,3'-diindolylmethane promotes the reaction [Estradiol results in increased expression of H3F3A mRNA]"	11179685
C009505	4,4'-diaminodiphenylmethane	"4,4'-diaminodiphenylmethane affects the expression of H3F3A mRNA"	18648102
D000082	Acetaminophen	Acetaminophen results in increased expression of H3F3A mRNA	26690555
D000643	Ammonium Chloride	Ammonium Chloride affects the expression of H3F3A mRNA	16483693
D001564	Benzo(a)pyrene	AHR protein affects the reaction [Benzo(a)pyrene affects the expression of H3F3A mRNA]	22228805
D001564	Benzo(a)pyrene	Benzo(a)pyrene results in increased expression of H3F3A mRNA	19770486\|2222880
D001599	Berberine	Berberine results in decreased expression of H3F3A mRNA	27311644
D004958	Estradiol	"3,3'-diindolylmethane promotes the reaction [Estradiol results in increased expression of H3F3A mRNA]"	11179685
D004958	Estradiol	Estradiol results in increased expression of H3F3A mRNA	11179685
D004958	Estradiol	Tetrachlorodibenzodioxin inhibits the reaction [Estradiol results in increased expression of H3F3A mRNA]	11179685
C006780	bisphenol A	bisphenol A affects the expression of H3F3A mRNA	21786754
C006780	bisphenol A	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol A] results in increased expression of H3F3A mRNA	28628672
C006780	bisphenol A	bisphenol A results in decreased expression of H3F3A mRNA	26063408
C006780	bisphenol A	bisphenol A affects the expression of H3F3A mRNA	21786754
C000611646	bisphenol F	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol F] results in increased expression of H3F3A mRNA	28628672
C018475	butyraldehyde	butyraldehyde results in decreased expression of H3F3A mRNA	26079696
D020111	Chlorodiphenyl (54% Chlorine)	Chlorodiphenyl (54% Chlorine) results in decreased expression of H3F3A mRNA	23650126
C100187	chloropicrin	chloropicrin results in decreased expression of H3F3A mRNA	26352163
D003907	Dexamethasone	Dexamethasone inhibits the reaction [RX3 gene mutant form affects the expression of H3F3A mRNA]	27941970
D003907	Dexamethasone	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol A] results in increased expression of H3F3A mRNA	28628672
D003907	Dexamethasone	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol F] results in increased expression of H3F3A mRNA	28628672
D003993	Dibutyl Phthalate	Dibutyl Phthalate results in decreased expression of H3F3A mRNA	21266533
D004051	Diethylhexyl Phthalate	Diethylhexyl Phthalate results in decreased expression of H3F3A mRNA	28412506
D004147	Dioxins	Dioxins affects the expression of H3F3A mRNA	20463971
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in increased expression of H3F3A mRNA	17606305
D004997	Ethinyl Estradiol	Ethinyl Estradiol results in increased expression of H3F3A mRNA	17942748
D004997	Ethinyl Estradiol	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of H3F3A mRNA	17942748
D005485	Flutamide	Flutamide results in decreased expression of H3F3A mRNA	21126777
D005557	Formaldehyde	Formaldehyde inhibits the reaction [H3F3A protein binds to EGR2 promoter]	28937961
D005557	Formaldehyde	Formaldehyde inhibits the reaction [H3F3A protein binds to H3F3A promoter]	28937961\|2893796
D005557	Formaldehyde	Formaldehyde inhibits the reaction [H3F3A protein binds to S100A10 promoter]	28937961
D017313	Fenretinide	Fenretinide results in increased expression of H3F3A mRNA	28973697
D006830	Hydralazine	[Hydralazine co-treated with Valproic Acid] results in increased expression of H3F3A mRNA	17183730
D006861	Hydrogen Peroxide	Hydrogen Peroxide affects the expression of H3F3A protein	21179406
D007213	Indomethacin	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol A] results in increased expression of H3F3A mRNA	28628672
D007213	Indomethacin	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol F] results in increased expression of H3F3A mRNA	28628672
D015759	Ionomycin	[Tetradecanoylphorbol Acetate co-treated with Ionomycin] results in decreased expression of H3F3A mRNA	25613284
D015056	1-Methyl-3-isobutylxanthine	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol A] results in increased expression of H3F3A mRNA	28628672
D015056	1-Methyl-3-isobutylxanthine	[INS protein co-treated with Dexamethasone co-treated with 1-Methyl-3-isobutylxanthine co-treated with Indomethacin co-treated with bisphenol F] results in increased expression of H3F3A mRNA	28628672
C045463	leflunomide	leflunomide results in decreased expression of H3F3A mRNA	28988120
D008627	Mercuric Chloride	Mercuric Chloride affects the expression of H3F3A mRNA	20353558
D008694	Methamphetamine	Methamphetamine results in decreased expression of H3F3A mRNA	26307267
D008727	Methotrexate	Methotrexate affects the expression of H3F3A mRNA	18502557
D009151	Mustard Gas	Mustard Gas results in increased expression of H3F3A mRNA	18955075
D010634	Phenobarbital	Phenobarbital affects the expression of H3F3A mRNA	19159669
D011374	Progesterone	Progesterone results in decreased expression of H3F3A mRNA	23018184
D012643	Selenium	Selenium results in decreased expression of H3F3A mRNA	19244175
C017947	sodium arsenite	H3F3A protein mutant form results in decreased susceptibility to sodium arsenite	22354777
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin inhibits the reaction [Estradiol results in increased expression of H3F3A mRNA]	11179685
D013749	Tetrachlorodibenzodioxin	Tetrachlorodibenzodioxin affects the expression of H3F3A mRNA	21570461
D013749	Tetrachlorodibenzodioxin	[Tetrachlorodibenzodioxin co-treated with Ethinyl Estradiol] results in increased expression of H3F3A mRNA	17942748
D013755	Tetradecanoylphorbol Acetate	[Tetradecanoylphorbol Acetate co-treated with Ionomycin] results in decreased expression of H3F3A mRNA	25613284
C009495	titanium dioxide	titanium dioxide results in decreased expression of H3F3A mRNA	23557971
D014635	Valproic Acid	[Hydralazine co-treated with Valproic Acid] results in increased expression of H3F3A mRNA	17183730
D014635	Valproic Acid	Valproic Acid results in decreased expression of H3F3A mRNA	23179753
D014635	Valproic Acid	Valproic Acid results in increased methylation of H3F3A gene	29154799
D001335	Vehicle Emissions	Vehicle Emissions results in decreased expression of H3F3A protein	19900534
D001335	Vehicle Emissions	Vehicle Emissions affects the methylation of H3F3A gene	25560391
D014810	Vitamin E	Vitamin E results in decreased expression of H3F3A mRNA	19244175

GO/Pathway

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000979	RNA polymerase II core promoter sequence-specific DNA binding	-	IDA	19633671
GO:0000980	RNA polymerase II distal enhancer sequence-specific DNA binding	-	IDA	19633671
GO:0005515	protein binding	-	IPI	19494831 19834512 20110566 20211137 20448663 20651253 20953165 23075851 23142979 24183680 24209620 24590075 25416956 26167883 26439302
GO:0031492	nucleosomal DNA binding	-	IBA	21873635
GO:0031492	nucleosomal DNA binding	-	IDA	19633671
GO:0046982	protein heterodimerization activity	-	IEA	-

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000183	chromatin silencing at rDNA	-	TAS	-
GO:0001649	osteoblast differentiation	-	IEA	-
GO:0006334	nucleosome assembly	-	IBA	21873635
GO:0006334	nucleosome assembly	-	IDA	21636898
GO:0006334	nucleosome assembly	-	IMP	25615412
GO:0006336	DNA replication-independent nucleosome assembly	-	IDA	14718166
GO:0006997	nucleus organization	-	IEA	-
GO:0007286	spermatid development	-	IEA	-
GO:0007338	single fertilization	-	IEA	-
GO:0007566	embryo implantation	-	IEA	-
GO:0007596	blood coagulation	-	TAS	-
GO:0008283	cell proliferation	-	IEA	-
GO:0008584	male gonad development	-	IEA	-
GO:0030307	positive regulation of cell growth	-	IMP	21274551
GO:0031508	pericentric heterochromatin assembly	-	IEA	-
GO:0031509	telomeric heterochromatin assembly	-	IEA	-
GO:0032200	telomere organization	-	TAS	17675446
GO:0035264	multicellular organism growth	-	IEA	-
GO:0042692	muscle cell differentiation	-	IEA	-
GO:0044267	cellular protein metabolic process	-	TAS	-
GO:0045652	regulation of megakaryocyte differentiation	-	TAS	-
GO:0045814	negative regulation of gene expression, epigenetic	-	TAS	-
GO:0048477	oogenesis	-	IEA	-
GO:0060964	regulation of gene silencing by miRNA	-	TAS	-
GO:0090230	regulation of centromere complex assembly	-	IEA	-
GO:1902340	negative regulation of chromosome condensation	-	IEA	-

GO ID	GO Term	Qualifier	Evidence	PubMed
GO:0000228	nuclear chromosome	-	IDA	14718166
GO:0000784	nuclear chromosome, telomeric region	-	IDA	20110566
GO:0000786	nucleosome	-	IBA	21873635
GO:0000786	nucleosome	-	IDA	21636898 25615412
GO:0000788	nuclear nucleosome	-	IDA	19633671
GO:0001740	Barr body	-	IEA	-
GO:0005576	extracellular region	-	TAS	-
GO:0005634	nucleus	-	HDA	21630459
GO:0005634	nucleus	-	IBA	21873635
GO:0005634	nucleus	-	IDA	21636898
GO:0005654	nucleoplasm	-	TAS	-
GO:0032991	protein-containing complex	-	IDA	14718166
GO:0070062	extracellular exosome	-	HDA	20458337

KEGG ID	KEGG Term
hsa05322	Systemic lupus erythematosus

Reactome ID	Reactome Term	Evidence
R-HSA-109582	Hemostasis	TAS
R-HSA-1266738	Developmental Biology	IEA
R-HSA-1474165	Reproduction	IEA
R-HSA-1500620	Meiosis	IEA
R-HSA-162582	Signal Transduction	TAS
R-HSA-1640170	Cell Cycle	IEA
R-HSA-1640170	Cell Cycle	TAS
R-HSA-194315	Signaling by Rho GTPases	TAS
R-HSA-195258	RHO GTPase Effectors	TAS
R-HSA-195721	Signaling by WNT	TAS
R-HSA-201681	TCF dependent signaling in response to WNT	TAS
R-HSA-201722	Formation of the beta-catenin:TCF transactivating complex	TAS
R-HSA-211000	Gene Silencing by RNA	TAS
R-HSA-212165	Epigenetic regulation of gene expression	TAS
R-HSA-212165	Epigenetic regulation of gene expression	IEA
R-HSA-212300	PRC2 methylates histones and DNA	TAS
R-HSA-212436	Generic Transcription Pathway	TAS
R-HSA-212436	Generic Transcription Pathway	IEA
R-HSA-2262752	Cellular responses to stress	TAS
R-HSA-2299718	Condensation of Prophase Chromosomes	TAS
R-HSA-2559580	Oxidative Stress Induced Senescence	TAS
R-HSA-2559582	Senescence-Associated Secretory Phenotype (SASP)	TAS
R-HSA-2559583	Cellular Senescence	TAS
R-HSA-392499	Metabolism of proteins	TAS
R-HSA-427359	SIRT1 negatively regulates rRNA expression	TAS
R-HSA-427389	ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression	IEA
R-HSA-427413	NoRC negatively regulates rRNA expression	IEA
R-HSA-427413	NoRC negatively regulates rRNA expression	TAS
R-HSA-5250913	Positive epigenetic regulation of rRNA expression	IEA
R-HSA-5250913	Positive epigenetic regulation of rRNA expression	TAS
R-HSA-5250924	B-WICH complex positively regulates rRNA expression	TAS
R-HSA-5250941	Negative epigenetic regulation of rRNA expression	TAS
R-HSA-5250941	Negative epigenetic regulation of rRNA expression	IEA
R-HSA-5334118	DNA methylation	IEA
R-HSA-5578749	Transcriptional regulation by small RNAs	TAS
R-HSA-5617472	Activation of anterior HOX genes in hindbrain development during early embryogenesis	IEA
R-HSA-5619507	Activation of HOX genes during differentiation	IEA
R-HSA-5625740	RHO GTPases activate PKNs	TAS
R-HSA-5625886	Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3	TAS
R-HSA-68875	Mitotic Prophase	TAS
R-HSA-68886	M Phase	TAS
R-HSA-69278	Cell Cycle, Mitotic	TAS
R-HSA-73728	RNA Polymerase I Promoter Opening	TAS
R-HSA-73777	RNA Polymerase I Chain Elongation	TAS
R-HSA-73854	RNA Polymerase I Promoter Clearance	TAS
R-HSA-73857	RNA Polymerase II Transcription	TAS
R-HSA-73857	RNA Polymerase II Transcription	IEA
R-HSA-73864	RNA Polymerase I Transcription	TAS
R-HSA-74160	Gene expression (Transcription)	TAS
R-HSA-74160	Gene expression (Transcription)	IEA
R-HSA-8878171	Transcriptional regulation by RUNX1	TAS
R-HSA-8878171	Transcriptional regulation by RUNX1	IEA
R-HSA-8936459	RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function	TAS
R-HSA-8939211	ESR-mediated signaling	TAS
R-HSA-8939236	RUNX1 regulates transcription of genes involved in differentiation of HSCs	IEA
R-HSA-8953897	Cellular responses to external stimuli	TAS
R-HSA-9006931	Signaling by Nuclear Receptors	TAS
R-HSA-9018519	Estrogen-dependent gene expression	TAS
R-HSA-912446	Meiotic recombination	IEA
R-HSA-977225	Amyloid fiber formation	TAS
R-HSA-983231	Factors involved in megakaryocyte development and platelet production	TAS

Interactions (STRING v10.5, Interaction Score >= 0.400)

Publications (Co-occurrence of gene symbol strings and ANCO-Dependence terms)

PMID	Title (Year)	Author	Journal