H3-3A Gene (Protein Coding)

H3.3 Histone A

GC01P226062
GIFtS:
35
Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and ... See more...

Aliases for H3-3A Gene

Aliases for H3-3A Gene

  • H3.3 Histone A 2 3
  • H3 Histone Family Member 3A 2 3 5
  • H3F3A 3 4 5
  • H3 Histone, Family 3A 2 3
  • Histone H3.3 3 4
  • H3.3A 3 4
  • H3F3 3 4
  • H3-3B 3
  • H3.3B 4
  • H3F3B 4

External Ids for H3-3A Gene

Previous HGNC Symbols for H3-3A Gene

  • H3F3
  • H3F3A

Summaries for H3-3A Gene

Entrez Gene Summary for H3-3A Gene

  • Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Two molecules of each of the four core histones (H2A, H2B, H3, and H4) form an octamer, around which approximately 146 bp of DNA is wrapped in repeating units, called nucleosomes. The linker histone, H1, interacts with linker DNA between nucleosomes and functions in the compaction of chromatin into higher order structures. This gene contains introns and its mRNA is polyadenylated, unlike most histone genes. The protein encoded is a replication-independent member of the histone H3 family. [provided by RefSeq, Jul 2008]

CIViC Summary for H3-3A Gene

GeneCards Summary for H3-3A Gene

H3-3A (H3.3 Histone A) is a Protein Coding gene. Diseases associated with H3-3A include Glioma Susceptibility 1 and Chondroblastoma. Among its related pathways are Signaling by Wnt and ERK Signaling. An important paralog of this gene is H3-3B.

UniProtKB/Swiss-Prot Summary for H3-3A Gene

  • Variant histone H3 which replaces conventional H3 in a wide range of nucleosomes in active genes. Constitutes the predominant form of histone H3 in non-dividing cells and is incorporated into chromatin independently of DNA synthesis. Deposited at sites of nucleosomal displacement throughout transcribed genes, suggesting that it represents an epigenetic imprint of transcriptionally active chromatin. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Gene Wiki entry for H3-3A Gene

Additional gene information for H3-3A Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H3-3A Gene

Genomics for H3-3A Gene

GeneHancer (GH) Regulatory Elements for H3-3A Gene

Promoters and enhancers for H3-3A Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H3-3A on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for H3-3A

Genomic Locations for H3-3A Gene

Genomic Locations for H3-3A Gene
chr1:226,061,851-226,072,007
(GRCh38/hg38)
Size:
10,157 bases
Orientation:
Plus strand
chr1:226,249,552-226,259,703
(GRCh37/hg19)
Size:
10,152 bases
Orientation:
Plus strand

Genomic View for H3-3A Gene

Genes around H3-3A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H3-3A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H3-3A Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for H3-3A Gene

Proteins for H3-3A Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for H3-3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P84243-H33_HUMAN
    Recommended name:
    Histone H3.3
    Protein Accession:
    P84243
    Secondary Accessions:
    • P06351
    • P33155
    • Q5VV55
    • Q5VV56
    • Q66I33
    • Q9V3W4

    Protein attributes for H3-3A Gene

    Size:
    136 amino acids
    Molecular mass:
    15328 Da
    Quaternary structure:
    • The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA. Interacts with HIRA, a chaperone required for its incorporation into nucleosomes. Interacts with ZMYND11; when trimethylated at 'Lys-36' (H3.3K36me3).

    Three dimensional structures from OCA and Proteopedia for H3-3A Gene

neXtProt entry for H3-3A Gene

Post-translational modifications for H3-3A Gene

  • Acetylation is generally linked to gene activation. Acetylation on Lys-10 (H3K9ac) impairs methylation at Arg-9 (H3R8me2s). Acetylation on Lys-19 (H3K18ac) and Lys-24 (H3K24ac) favors methylation at Arg-18 (H3R17me). Acetylation at Lys-123 (H3K122ac) by EP300/p300 plays a central role in chromatin structure: localizes at the surface of the histone octamer and stimulates transcription, possibly by promoting nucleosome instability.
  • Citrullination at Arg-9 (H3R8ci) and/or Arg-18 (H3R17ci) by PADI4 impairs methylation and represses transcription.
  • Asymmetric dimethylation at Arg-18 (H3R17me2a) by CARM1 is linked to gene activation. Symmetric dimethylation at Arg-9 (H3R8me2s) by PRMT5 is linked to gene repression. Asymmetric dimethylation at Arg-3 (H3R2me2a) by PRMT6 is linked to gene repression and is mutually exclusive with H3 Lys-5 methylation (H3K4me2 and H3K4me3). H3R2me2a is present at the 3' of genes regardless of their transcription state and is enriched on inactive promoters, while it is absent on active promoters.
  • Specifically enriched in modifications associated with active chromatin such as methylation at Lys-5 (H3K4me), Lys-37 and Lys-80. Methylation at Lys-5 (H3K4me) facilitates subsequent acetylation of H3 and H4. Methylation at Lys-80 (H3K79me) is associated with DNA double-strand break (DSB) responses and is a specific target for TP53BP1. Methylation at Lys-10 (H3K9me) and Lys-28 (H3K27me), which are linked to gene repression, are underrepresented. Methylation at Lys-10 (H3K9me) is a specific target for HP1 proteins (CBX1, CBX3 and CBX5) and prevents subsequent phosphorylation at Ser-11 (H3S10ph) and acetylation of H3 and H4. Methylation at Lys-5 (H3K4me) and Lys-80 (H3K79me) require preliminary monoubiquitination of H2B at 'Lys-120'. Methylation at Lys-10 (H3K9me) and Lys-28 (H3K27me) are enriched in inactive X chromosome chromatin. Monomethylation at Lys-57 (H3K56me1) by EHMT2/G9A in G1 phase promotes interaction with PCNA and is required for DNA replication.
  • Phosphorylated at Thr-4 (H3T3ph) by HASPIN during prophase and dephosphorylated during anaphase. Phosphorylation at Ser-11 (H3S10ph) by AURKB is crucial for chromosome condensation and cell-cycle progression during mitosis and meiosis. In addition phosphorylation at Ser-11 (H3S10ph) by RPS6KA4 and RPS6KA5 is important during interphase because it enables the transcription of genes following external stimulation, like mitogens, stress, growth factors or UV irradiation and result in the activation of genes, such as c-fos and c-jun. Phosphorylation at Ser-11 (H3S10ph), which is linked to gene activation, prevents methylation at Lys-10 (H3K9me) but facilitates acetylation of H3 and H4. Phosphorylation at Ser-11 (H3S10ph) by AURKB mediates the dissociation of HP1 proteins (CBX1, CBX3 and CBX5) from heterochromatin. Phosphorylation at Ser-11 (H3S10ph) is also an essential regulatory mechanism for neoplastic cell transformation. Phosphorylated at Ser-29 (H3S28ph) by MAP3K20 isoform 1, RPS6KA5 or AURKB during mitosis or upon ultraviolet B irradiation. Phosphorylation at Thr-7 (H3T6ph) by PRKCB is a specific tag for epigenetic transcriptional activation that prevents demethylation of Lys-5 (H3K4me) by LSD1/KDM1A. At centromeres, specifically phosphorylated at Thr-12 (H3T11ph) from prophase to early anaphase, by DAPK3 and PKN1. Phosphorylation at Thr-12 (H3T11ph) by PKN1 is a specific tag for epigenetic transcriptional activation that promotes demethylation of Lys-10 (H3K9me) by KDM4C/JMJD2C. Phosphorylation at Tyr-42 (H3Y41ph) by JAK2 promotes exclusion of CBX5 (HP1 alpha) from chromatin. Phosphorylation on Ser-32 (H3S31ph) is specific to regions bordering centromeres in metaphase chromosomes.
  • Ubiquitinated. Monoubiquitinated by RAG1 in lymphoid cells, monoubiquitination is required for V(D)J recombination (By similarity).
  • Lysine deamination at Lys-5 (H3K4all) to form allysine is mediated by LOXL2. Allysine formation by LOXL2 only takes place on H3K4me3 and results in gene repression.
  • Crotonylation (Kcr) is specifically present in male germ cells and marks testis-specific genes in post-meiotic cells, including X-linked genes that escape sex chromosome inactivation in haploid cells. Crotonylation marks active promoters and enhancers and confers resistance to transcriptional repressors. It is also associated with post-meiotically activated genes on autosomes.
  • Butyrylation of histones marks active promoters and competes with histone acetylation. It is present during late spermatogenesis.
  • Succinylation at Lys-80 (H3K79succ) by KAT2A takes place with a maximum frequency around the transcription start sites of genes (PubMed:29211711). It gives a specific tag for epigenetic transcription activation (PubMed:29211711). Desuccinylation at Lys-123 (H3K122succ) by SIRT7 in response to DNA damage promotes chromatin condensation and double-strand breaks (DSBs) repair (PubMed:27436229).
  • Serine ADP-ribosylation constitutes the primary form of ADP-ribosylation of proteins in response to DNA damage (PubMed:29480802). Serine ADP-ribosylation at Ser-11 (H3S10ADPr) is mutually exclusive with phosphorylation at Ser-11 (H3S10ph) and impairs acetylation at Lys-10 (H3K9ac) (PubMed:30257210).
  • Ubiquitination at Lys116
  • Modification sites at PhosphoSitePlus

Other Protein References for H3-3A Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for H3-3A Gene

Domains & Families for H3-3A Gene

Gene Families for H3-3A Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • Predicted intracellular proteins

Protein Domains for H3-3A Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for H3-3A Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ57905, moderately similar to Histone H3.3 (B4DEB1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P84243

UniProtKB/Swiss-Prot:

H33_HUMAN :
  • Specific interaction of trimethylated form at 'Lys-36' (H3.3K36me3) with ZMYND11 is mediated by the encapsulation of Ser-32 residue with a composite pocket formed by the tandem bromo-PWWP domains.
  • Belongs to the histone H3 family.
Domain:
  • Specific interaction of trimethylated form at 'Lys-36' (H3.3K36me3) with ZMYND11 is mediated by the encapsulation of Ser-32 residue with a composite pocket formed by the tandem bromo-PWWP domains.
Family:
  • Belongs to the histone H3 family.
genes like me logo Genes that share domains with H3-3A: view

Function for H3-3A Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for H3-3A Gene

UniProtKB/Swiss-Prot Function:
Variant histone H3 which replaces conventional H3 in a wide range of nucleosomes in active genes. Constitutes the predominant form of histone H3 in non-dividing cells and is incorporated into chromatin independently of DNA synthesis. Deposited at sites of nucleosomal displacement throughout transcribed genes, suggesting that it represents an epigenetic imprint of transcriptionally active chromatin. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Phenotypes From GWAS Catalog for H3-3A Gene

Gene Ontology (GO) - Molecular Function for H3-3A Gene

GO ID Qualified GO term Evidence PubMed IDs
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:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 19494831
GO:0031492 nucleosomal DNA binding IDA 19633671
genes like me logo Genes that share ontologies with H3-3A: view
genes like me logo Genes that share phenotypes with H3-3A: view

Animal Model Products

Clone Products

  • Addgene plasmids for H3-3A

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for H3-3A Gene

Localization for H3-3A Gene

Subcellular locations from UniProtKB/Swiss-Prot for H3-3A Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for H3-3A gene
Compartment Confidence
nucleus 5
extracellular 4
cytoskeleton 2
plasma membrane 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
cytosol 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for H3-3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000228 nuclear chromosome IDA 14718166
GO:0000784 nuclear chromosome, telomeric region IDA 20110566
GO:0000786 nucleosome IDA 21636898
GO:0000788 nuclear nucleosome IDA 19633671
GO:0001740 Barr body IEA --
genes like me logo Genes that share ontologies with H3-3A: view

Pathways & Interactions for H3-3A Gene

PathCards logo

SuperPathways for H3-3A Gene

SuperPathway Contained pathways
1 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
DNA methylation
.88
RNA Polymerase I Promoter Opening
.88
B-WICH complex positively regulates rRNA expression
.86
Positive epigenetic regulation of rRNA expression
.86
Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
.86
SIRT1 negatively regulates rRNA Expression
.84
NoRC negatively regulates rRNA expression
.83
RNA Polymerase I Chain Elongation
.83
PRC2 methylates histones and DNA
.83
RNA Polymerase I Transcription
.81
Negative epigenetic regulation of rRNA expression
.81
RNA Polymerase I Promoter Clearance
.81
Condensation of Prophase Chromosomes
.78
ERCC6 (CSB) and EHMT2 (G9a) positively regulate rRNA expression
.76
RNA Polymerase I, RNA Polymerase III, and Mitochondrial Transcription
.75
Epigenetic regulation of gene expression
.73
RHO GTPases activate PKNs
.72
Formation of the beta-catenin-TCF transactivating complex
.64
Amyloid fiber formation
.55
Activation of anterior HOX genes in hindbrain development during early embryogenesis
.50
Activation of HOX genes during differentiation
.50
Systemic lupus erythematosus
.43
Alcoholism
.34
2 Cellular Senescence (REACTOME)
Cellular Senescence
.64
Oxidative Stress Induced Senescence
.64
Senescence-Associated Secretory Phenotype (SASP)
.56
Cellular responses to stress
.44
3 Cell Cycle, Mitotic
Cell Cycle
.83
Cell Cycle, Mitotic
.83
M Phase
.60
4 Mitotic Prophase
Gene Silencing by RNA
.78
Transcriptional regulation by small RNAs
.78
Mitotic Prophase
.57
5 Development NOTCH1-mediated pathway for NF-KB activity modulation
Development Notch Signaling Pathway
.55
Development NOTCH1-mediated pathway for NF-KB activity modulation
.55
Transcription Sin3 and NuRD in transcription regulation
.31
genes like me logo Genes that share pathways with H3-3A: view

Pathways by source for H3-3A Gene

2 BioSystems pathways for H3-3A Gene
5 GeneGo (Thomson Reuters) pathways for H3-3A Gene
  • Cell cycle_Chromosome condensation in prometaphase
  • Development Notch Signaling Pathway
  • Development NOTCH1-mediated pathway for NF-KB activity modulation
  • Signal transduction Activin A signaling regulation
  • Transcription Sin3 and NuRD in transcription regulation
8 Qiagen pathways for H3-3A Gene
  • Crosstalk Between CARM1 and ESRs
  • ERK Signaling
  • Interferon Pathway
  • MAPK Family Pathway
  • Nuclear Receptor Activation by Vitamin-A
1 Cell Signaling Technology pathway for H3-3A Gene
1 GeneTex pathway for H3-3A Gene

SIGNOR curated interactions for H3-3A Gene

Is activated by:

Gene Ontology (GO) - Biological Process for H3-3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000183 chromatin silencing at rDNA TAS --
GO:0001649 osteoblast differentiation IEA --
GO:0006334 nucleosome assembly IMP 25615412
GO:0006336 DNA replication-independent nucleosome assembly IDA 14718166
GO:0006997 nucleus organization IEA --
genes like me logo Genes that share ontologies with H3-3A: view

Drugs & Compounds for H3-3A Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for H3-3A Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for H3-3A Gene

1 REFSEQ mRNAs :
12 NCBI additional mRNA sequence :
10 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :
1 RNACentral transcripts :

Clone Products

  • Addgene plasmids for H3-3A

Alternative Splicing Database (ASD) splice patterns (SP) for H3-3A Gene

No ASD Table

Relevant External Links for H3-3A Gene

GeneLoc Exon Structure for
H3-3A

Expression for H3-3A Gene

Products:

  1. Primer

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for H3-3A

SOURCE GeneReport for Unigene cluster for H3-3A Gene:

Hs.533624

Evidence on tissue expression from TISSUES for H3-3A Gene

  • Liver(4.8)
  • Nervous system(4.8)
  • Eye(4.7)
  • Lung(4.2)
  • Pancreas(4.2)
  • Stomach(4.2)
  • Blood(3.9)
  • Intestine(3.8)
  • Bone(3.1)
  • Muscle(3)
  • Adrenal gland(2.6)
  • Bone marrow(2.6)
  • Gall bladder(2.6)
  • Heart(2.6)
  • Kidney(2.6)
  • Lymph node(2.6)
  • Skin(2.6)
  • Spleen(2.6)
  • Thyroid gland(2.6)
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for H3-3A Gene

Orthologs for H3-3A Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for H3-3A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia H3F3C 31
  • 100 (a)
 OneToOne
HIST1H3A 30
  • 100 (n)
cow
(Bos Taurus)
 Mammalia H3F3A 30
  • 98.28 (n)
H3F3C 31
  • 96 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia H3F3B 30
  • 97.55 (n)
-- 31
  • 95 (a)
 ManyToMany
mouse
(Mus musculus)
 Mammalia H3f3a 30
  • 96.08 (n)
rat
(Rattus norvegicus)
 Mammalia LOC100361558 30
  • 95.59 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia -- 31
  • 94 (a)
 ManyToMany
chicken
(Gallus gallus)
 Aves H3-IX 31
  • 100 (a)
 OneToOne
LOC100859629 30
  • 79.17 (n)
lizard
(Anolis carolinensis)
 Reptilia H3F3A 31
  • 100 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia LOC101730642 30
  • 77.21 (n)
Str.6553 30
African clawed frog
(Xenopus laevis)
 Amphibia Xl.8034 30
zebrafish
(Danio rerio)
 Actinopterygii H3F3A 31
  • 99 (a)
 OneToOne
LOC565028 30
  • 79.66 (n)
fruit fly
(Drosophila melanogaster)
 Insecta His3:CG33857 30
  • 79.17 (n)
worm
(Caenorhabditis elegans)
 Secernentea his-71 31
  • 99 (a)
 OneToMany
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes HHT2 31
  • 90 (a)
 ManyToMany
HHT1 31
  • 90 (a)
 ManyToMany
sea squirt
(Ciona savignyi)
 Ascidiacea CSA.1064 31
  • 100 (a)
 OneToMany
Species where no ortholog for H3-3A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for H3-3A Gene

ENSEMBL:
Gene Tree for H3-3A (if available)
TreeFam:
Gene Tree for H3-3A (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H3-3A: view image

Paralogs for H3-3A Gene

Paralogs for H3-3A Gene

genes like me logo Genes that share paralogs with H3-3A: view

Variants for H3-3A Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for H3-3A Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
690374 Uncertain Significance: not provided 226,071,433(+) C/T MISSENSE_VARIANT
rs1057519902 Likely Pathogenic: Adrenocortical carcinoma; Brainstem glioma; Neoplasm of brain; Glioblastoma 226,064,451(+) G/C MISSENSE_VARIANT
rs1057519903 Likely Pathogenic: Astrocytoma; Brainstem glioma. Glioma (GLM) [MIM:137800] 226,064,434(+) A/Tp.Lys28Met MISSENSE_VARIANT
rs1131691704 Uncertain Significance: not provided 226,064,439(+) G/A MISSENSE_VARIANT
rs1276519904 Likely Pathogenic: H3F3A-related condition; Inborn genetic diseases; not provided 226,071,445(+) A/G MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for H3-3A Gene

Structural Variations from Database of Genomic Variants (DGV) for H3-3A Gene

Variant ID Type Subtype PubMed ID
esv3589008 CNV gain 21293372
nsv832747 CNV gain 17160897
nsv945330 CNV duplication 23825009
nsv952128 CNV duplication 24416366

Variation tolerance for H3-3A Gene

Residual Variation Intolerance Score: 57.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.04; 0.93% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H3-3A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H3-3A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H3-3A Gene

Disorders for H3-3A Gene

MalaCards: The human disease database

(37) MalaCards diseases for H3-3A Gene - From: UniProtKB/Swiss-Prot, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
glioma susceptibility 1
  • glm1
chondroblastoma
  • chondroblastoma of bone
malignant giant cell tumor
  • malignant giant cell neoplasm
clear cell chondrosarcoma
diffuse intrinsic pontine glioma
  • dipg
- elite association - COSMIC cancer census association via MalaCards
Search H3-3A in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

H33_HUMAN
  • Glioma (GLM) [MIM:137800]: Gliomas are benign or malignant central nervous system neoplasms derived from glial cells. They comprise astrocytomas and glioblastoma multiforme that are derived from astrocytes, oligodendrogliomas derived from oligodendrocytes and ependymomas derived from ependymocytes. {ECO:0000269 PubMed:22286061, ECO:0000269 PubMed:22286216, ECO:0000269 PubMed:23539269}. Note=The gene represented in this entry is involved in disease pathogenesis. H3F3A mutations affecting residues involved in post-translational modifications of histone H3.3 are recurrent in malignant, aggressive gliomas including glioblastoma multiforme (GBM) and diffuse intrinsic pontine glioma (DIPG) (PubMed:22286061, PubMed:22286216). The mechanism through which mutations lead to tumorigenesis involves altered histones methylation, impaired regulation of Polycomb repressive complex 2 (PRC2) activity, and aberrant epigenetic regulation of gene expression (PubMed:23539269, PubMed:23539183, PubMed:23603901). {ECO:0000269 PubMed:22286061, ECO:0000269 PubMed:22286216, ECO:0000269 PubMed:23539183, ECO:0000269 PubMed:23539269, ECO:0000269 PubMed:23603901}.
  • Note=H3F3A and H3F3B mutations affecting residues involved in post-translational modifications of histone H3.3 are implicated in the pathogenesis of some bone and cartilage neoplasms. Mutations have been found with high prevalence in chondroblastoma and giant cell tumors of bone, and with low frequency in osteosarcoma, conventional chondrosarcoma and clear cell chondrosarcoma. Chondroblastoma samples frequently carry a H3F3B mutation affecting residue Lys-37 (H3K36), although H3F3A is mutated in some cases. Most giant cell tumors of bone harbor H3F3A mutations affecting residue Gly-35 (H3G34). {ECO:0000269 PubMed:24162739}.

Additional Disease Information for H3-3A

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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Publications for H3-3A Gene

  1. The human replacement histone H3.3B gene (H3F3B). (PMID: 8586426) Albig W … Doenecke D (Genomics 1995) 3 4 23 54
  2. Unusual structure, evolutionary conservation of non-coding sequences and numerous pseudogenes characterize the human H3.3 histone multigene family. (PMID: 3031613) Wells D … Kedes L (Nucleic acids research 1987) 2 3 4 54
  3. Serine ADP-Ribosylation Depends on HPF1. (PMID: 28190768) Bonfiglio JJ … Matic I (Molecular cell 2017) 3 4 54
  4. ZMYND11 links histone H3.3K36me3 to transcription elongation and tumour suppression. (PMID: 24590075) Wen H … Shi X (Nature 2014) 3 4 54
  5. Distinct H3F3A and H3F3B driver mutations define chondroblastoma and giant cell tumor of bone. (PMID: 24162739) Behjati S … Flanagan AM (Nature genetics 2013) 3 4 54

ExternalLinks

View latest publications for H3-3A gene in Mastermind

Products for H3-3A Gene

  • Addgene plasmids for H3-3A