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H2AFY2 H2A histone family member Y2 [ Homo sapiens (human) ]

Gene ID: 55506, updated on 17-Jun-2019

Summary

Official Symbol
H2AFY2provided by HGNC
Official Full Name
H2A histone family member Y2provided by HGNC
Primary source
HGNC:HGNC:14453
See related
Ensembl:ENSG00000099284 MIM:616141
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
macroH2A2
Summary
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]
Expression
Ubiquitous expression in endometrium (RPKM 13.3), prostate (RPKM 7.9) and 23 other tissues See more
Orthologs

Genomic context

See H2AFY2 in Genome Data Viewer
Location:
10q22.1
Exon count:
9
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (70052846..70112282)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (71812357..71872040)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene collagen type XIII alpha 1 chain Neighboring gene uncharacterized LOC107984242 Neighboring gene long intergenic non-protein coding RNA 2636 Neighboring gene HNF4 motif-containing MPRA enhancer 70 Neighboring gene apoptosis inducing factor mitochondria associated 2 Neighboring gene trypsin domain containing 1 Neighboring gene secretion associated Ras related GTPase 1A Neighboring gene calmodulin 2 pseudogene 2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat peptides bind core histones H2A, H2B, H3 and H4, and Tat protein recruits histone acetyltransferases to the HIV-1 LTR promoter leading to acetylation of histones H3 and H4, derepressing chromatin structure and increasing NFkappaB responsiveness PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Alcoholism, organism-specific biosystem (from KEGG)
    Alcoholism, organism-specific biosystemAlcoholism, also called dependence on alcohol (ethanol), is a chronic relapsing disorder that is progressive and has serious detrimental health outcomes. As one of the primary mediators of the reward...
  • Alcoholism, conserved biosystem (from KEGG)
    Alcoholism, conserved biosystemAlcoholism, also called dependence on alcohol (ethanol), is a chronic relapsing disorder that is progressive and has serious detrimental health outcomes. As one of the primary mediators of the reward...
  • Preimplantation Embryo, organism-specific biosystem (from WikiPathways)
    Preimplantation Embryo, organism-specific biosystemThe source of this pathway is RNA-Seq data from single-cell pre-implantation embryos (Supplemental Table 1): http://www.nature.com/nsmb/journal/v20/n9/full/nsmb.2660.html Analysis options for runnin...
  • Systemic lupus erythematosus, organism-specific biosystem (from KEGG)
    Systemic lupus erythematosus, organism-specific biosystemSystemic lupus erythematosus (SLE) is a prototypic autoimmune disease characterised by the production of IgG autoantibodies that are specific for self-antigens, such as DNA, nuclear proteins and cert...
  • Systemic lupus erythematosus, conserved biosystem (from KEGG)
    Systemic lupus erythematosus, conserved biosystemSystemic lupus erythematosus (SLE) is a prototypic autoimmune disease characterised by the production of IgG autoantibodies that are specific for self-antigens, such as DNA, nuclear proteins and cert...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
chromatin DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
 
transcription regulatory region DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
brain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dosage compensation IDA
Inferred from Direct Assay
more info
PubMed 
establishment of protein localization to chromatin IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of gene expression, epigenetic IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription of nucleolar large rRNA by RNA polymerase I IGI
Inferred from Genetic Interaction
more info
PubMed 
nucleosome assembly IEA
Inferred from Electronic Annotation
more info
 
positive regulation of keratinocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
Barr body IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
nuclear chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear chromatin IDA
Inferred from Direct Assay
more info
PubMed 
nuclear chromosome, telomeric region HDA PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleosome IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
core histone macro-H2A.2
Names
core histone macroH2A2.2
histone macroH2A2
mH2A2

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_018649.3NP_061119.1  core histone macro-H2A.2

    See identical proteins and their annotated locations for NP_061119.1

    Status: REVIEWED

    Source sequence(s)
    BC016172, BF439798
    Consensus CDS
    CCDS7296.1
    UniProtKB/Swiss-Prot
    Q9P0M6
    UniProtKB/TrEMBL
    A0A024QZP6
    Related
    ENSP00000362352.3, ENST00000373255.9
    Conserved Domains (2) summary
    cd00074
    Location:5117
    H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
    cd02904
    Location:178364
    Macro_H2A_like; Macro domain, Macro_H2A_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    70052846..70112282
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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