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Aliases for H2AFY2 Gene

Aliases for H2AFY2 Gene

  • H2A Histone Family Member Y2 2 3 5
  • Histone MacroH2A2 3 4
  • MH2A2 3 4
  • H2A Histone Family, Member Y2 2
  • Core Histone Macro-H2A.2 3
  • Core Histone MacroH2A2.2 3
  • MacroH2A2 3
  • MACROH2A2 4

External Ids for H2AFY2 Gene

Previous GeneCards Identifiers for H2AFY2 Gene

  • GC10P070623
  • GC10P070899
  • GC10P071704
  • GC10P071157
  • GC10P071482
  • GC10P071812
  • GC10P065804

Summaries for H2AFY2 Gene

Entrez Gene Summary for H2AFY2 Gene

  • Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. Nucleosomes consist of approximately 146 bp of DNA wrapped around a histone octamer composed of pairs of each of the four core histones (H2A, H2B, H3, and H4). The chromatin fiber is further compacted through the interaction of a linker histone, H1, with the DNA between the nucleosomes to form higher order chromatin structures. This gene encodes a replication-independent histone that is a member of the histone H2A family. It replaces conventional H2A histones in a subset of nucleosomes where it represses transcription and may participate in stable X chromosome inactivation. [provided by RefSeq, Oct 2015]

GeneCards Summary for H2AFY2 Gene

H2AFY2 (H2A Histone Family Member Y2) is a Protein Coding gene. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and Preimplantation Embryo. Gene Ontology (GO) annotations related to this gene include protein heterodimerization activity and RNA polymerase II regulatory region sequence-specific DNA binding. An important paralog of this gene is H2AFY.

UniProtKB/Swiss-Prot for H2AFY2 Gene

  • Variant histone H2A which replaces conventional H2A in a subset of nucleosomes where it represses transcription. 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. May be involved in stable X chromosome inactivation.

Gene Wiki entry for H2AFY2 Gene

Additional gene information for H2AFY2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for H2AFY2 Gene

Genomics for H2AFY2 Gene

GeneHancer (GH) Regulatory Elements for H2AFY2 Gene

Promoters and enhancers for H2AFY2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10J070052 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE 657.2 +0.8 755 2.3 ARID4B SIN3A GLI4 ZNF2 ZNF48 YY1 GLIS2 ZNF213 YY2 GLIS1 H2AFY2 PIR45222
GH10J069956 Enhancer 0.5 Ensembl 20.2 -96.2 -96200 0.8 EGR1 CREB1 ATF7 ATF2 CREM EGR2 H2AFY2 LOC102723350 LOC105378347 COL13A1
GH10J069960 Enhancer 0.7 Ensembl ENCODE 10.2 -91.4 -91399 1.1 CTCF NFIC ZSCAN5C ZNF600 ZIC2 H2AFY2 LOC102723350 LOC105378347 COL13A1
GH10J070081 Enhancer 0.5 FANTOM5 11.6 +28.7 28665 0.4 NCOA3 GATA3 ZNF362 CREB1 BCL6 RARA H2AFY2 TYSND1 CALM2P2 SAR1A PIR45222
GH10J069898 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 2 -152.3 -152294 4.5 BCOR ZNF768 CTCF USF1 MAX ZMYM3 ZIC2 RAD21 YY1 POLR2A FAM241B H2AFY2 LOC105378347 COL13A1 LOC102723350
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H2AFY2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the H2AFY2 gene promoter:
  • c-Myb
  • Spz1
  • Oct-B1
  • oct-B2
  • oct-B3
  • POU2F1
  • POU2F1a
  • POU2F2
  • POU2F2 (Oct-2.1)
  • POU2F2B

Genomic Locations for H2AFY2 Gene

Genomic Locations for H2AFY2 Gene
chr10:70,052,601-70,112,284
(GRCh38/hg38)
Size:
59,684 bases
Orientation:
Plus strand
chr10:71,812,357-71,872,040
(GRCh37/hg19)
Size:
59,684 bases
Orientation:
Plus strand

Genomic View for H2AFY2 Gene

Genes around H2AFY2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H2AFY2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H2AFY2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for H2AFY2 Gene

Proteins for H2AFY2 Gene

  • Protein details for H2AFY2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9P0M6-H2AW_HUMAN
    Recommended name:
    Core histone macro-H2A.2
    Protein Accession:
    Q9P0M6
    Secondary Accessions:
    • Q5SQT2

    Protein attributes for H2AFY2 Gene

    Size:
    372 amino acids
    Molecular mass:
    40058 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.

    Three dimensional structures from OCA and Proteopedia for H2AFY2 Gene

neXtProt entry for H2AFY2 Gene

Post-translational modifications for H2AFY2 Gene

  • Ubiquitination at isoforms=332
  • Modification sites at PhosphoSitePlus

Other Protein References for H2AFY2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for H2AFY2 Gene

Domains & Families for H2AFY2 Gene

Gene Families for H2AFY2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for H2AFY2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with H2AFY2: view

No data available for UniProtKB/Swiss-Prot for H2AFY2 Gene

Function for H2AFY2 Gene

Molecular function for H2AFY2 Gene

UniProtKB/Swiss-Prot Function:
Variant histone H2A which replaces conventional H2A in a subset of nucleosomes where it represses transcription. 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. May be involved in stable X chromosome inactivation.

Phenotypes From GWAS Catalog for H2AFY2 Gene

Gene Ontology (GO) - Molecular Function for H2AFY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IDA 23595991
GO:0003677 DNA binding IBA,IEA --
GO:0031490 chromatin DNA binding IEA,IDA 19734898
GO:0044212 transcription regulatory region DNA binding IDA 19734898
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with H2AFY2: view
genes like me logo Genes that share phenotypes with H2AFY2: view

Animal Models for H2AFY2 Gene

MGI Knock Outs for H2AFY2:

Animal Model Products

CRISPR Products

miRNA for H2AFY2 Gene

miRTarBase miRNAs that target H2AFY2

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H2AFY2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for H2AFY2 Gene

Localization for H2AFY2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for H2AFY2 Gene

Nucleus. Chromosome. Note=Enriched in inactive X chromosome chromatin (PubMed:11331621, PubMed:11262398) and in senescence-associated heterochromatin (PubMed:15621527). {ECO:0000269 PubMed:11262398, ECO:0000269 PubMed:11331621, ECO:0000269 PubMed:15621527}.

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 H2AFY2 gene
Compartment Confidence
extracellular 5
nucleus 5
mitochondrion 3
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for H2AFY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000784 nuclear chromosome, telomeric region HDA 19135898
GO:0000785 chromatin IEA --
GO:0000786 nucleosome IEA --
GO:0000790 nuclear chromatin IDA,IEA 19734898
GO:0001740 Barr body IDA 11331621
genes like me logo Genes that share ontologies with H2AFY2: view

Pathways & Interactions for H2AFY2 Gene

genes like me logo Genes that share pathways with H2AFY2: view

Pathways by source for H2AFY2 Gene

1 BioSystems pathway for H2AFY2 Gene
3 KEGG pathways for H2AFY2 Gene

Gene Ontology (GO) - Biological Process for H2AFY2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IMP 19734898
GO:0001558 NOT regulation of cell growth IGI 24071584
GO:0006325 chromatin organization IBA,IEA --
GO:0006334 nucleosome assembly IEA --
GO:0006342 chromatin silencing IBA --
genes like me logo Genes that share ontologies with H2AFY2: view

No data available for SIGNOR curated interactions for H2AFY2 Gene

Drugs & Compounds for H2AFY2 Gene

No Compound Related Data Available

Transcripts for H2AFY2 Gene

mRNA/cDNA for H2AFY2 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(207) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for H2AFY2 Gene

H2A histone family, member Y2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H2AFY2

Alternative Splicing Database (ASD) splice patterns (SP) for H2AFY2 Gene

No ASD Table

Relevant External Links for H2AFY2 Gene

GeneLoc Exon Structure for
H2AFY2
ECgene alternative splicing isoforms for
H2AFY2

Expression for H2AFY2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for H2AFY2 Gene

Protein differential expression in normal tissues from HIPED for H2AFY2 Gene

This gene is overexpressed in Fetal Brain (10.3), Testis (9.7), Fetal testis (7.7), and Ovary (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for H2AFY2 Gene



Protein tissue co-expression partners for H2AFY2 Gene

NURSA nuclear receptor signaling pathways regulating expression of H2AFY2 Gene:

H2AFY2

SOURCE GeneReport for Unigene cluster for H2AFY2 Gene:

Hs.499953

Evidence on tissue expression from TISSUES for H2AFY2 Gene

  • Nervous system(3.6)
genes like me logo Genes that share expression patterns with H2AFY2: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for H2AFY2 Gene

Orthologs for H2AFY2 Gene

This gene was present in the common ancestor of animals.

Orthologs for H2AFY2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia H2AFY2 34 33
  • 99.46 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia H2AFY2 34
  • 96 (a)
OneToOne
cow
(Bos Taurus)
Mammalia H2AFY2 34 33
  • 93.1 (n)
OneToOne
dog
(Canis familiaris)
Mammalia H2AFY2 34 33
  • 92.83 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia H2afy2 33
  • 90.77 (n)
mouse
(Mus musculus)
Mammalia H2afy2 16 34 33
  • 90.23 (n)
oppossum
(Monodelphis domestica)
Mammalia H2AFY2 34
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves H2AFY2 34 33
  • 80.11 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia H2AFY2 34
  • 87 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia h2afy2 33
  • 71.25 (n)
Str.12885 33
African clawed frog
(Xenopus laevis)
Amphibia h2afy2-prov 33
zebrafish
(Danio rerio)
Actinopterygii h2afy2 34 34 33
  • 69.49 (n)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea htas-1 34
  • 39 (a)
OneToMany
Species where no ortholog for H2AFY2 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 H2AFY2 Gene

ENSEMBL:
Gene Tree for H2AFY2 (if available)
TreeFam:
Gene Tree for H2AFY2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H2AFY2: view image

Paralogs for H2AFY2 Gene

Variants for H2AFY2 Gene

Sequence variations from dbSNP and Humsavar for H2AFY2 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000001984 -- 70,090,534(+) T/G intron_variant
rs1000027150 -- 70,059,285(+) T/C intron_variant
rs1000056718 -- 70,058,923(+) A/G intron_variant
rs1000089565 -- 70,063,074(+) G/T intron_variant
rs1000092612 -- 70,052,674(+) T/C 5_prime_UTR_variant

Structural Variations from Database of Genomic Variants (DGV) for H2AFY2 Gene

Variant ID Type Subtype PubMed ID
esv32737 CNV gain+loss 17666407
nsv551479 CNV loss 21841781
nsv819142 CNV gain 19587683

Variation tolerance for H2AFY2 Gene

Residual Variation Intolerance Score: 32.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.86; 17.94% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H2AFY2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H2AFY2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H2AFY2 Gene

Disorders for H2AFY2 Gene

Additional Disease Information for H2AFY2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for H2AFY2 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for H2AFY2 Gene

Publications for H2AFY2 Gene

  1. Histone H2A variants and the inactive X chromosome: identification of a second macroH2A variant. (PMID: 11331621) Chadwick BP … Willard HF (Human molecular genetics 2001) 2 3 4 22 58
  2. MACROH2A2, a new member of the MARCOH2A core histone family. (PMID: 11262398) Costanzi C … Pehrson JR (The Journal of biological chemistry 2001) 2 3 4 58
  3. Inherited genetic variant predisposes to aggressive but not indolent prostate cancer. (PMID: 20080650) Xu J … Isaacs WB (Proceedings of the National Academy of Sciences of the United States of America 2010) 3 44 58
  4. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A … Goate A (American journal of human genetics 2006) 3 44 58
  5. Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA. (PMID: 15621527) Zhang R … Adams PD (Developmental cell 2005) 3 4 58

Products for H2AFY2 Gene

Sources for H2AFY2 Gene

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