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H2AC6 H2A clustered histone 6 [ Homo sapiens (human) ]

Gene ID: 8334, updated on 18-Sep-2024

Summary

Official Symbol
H2AC6provided by HGNC
Official Full Name
H2A clustered histone 6provided by HGNC
Primary source
HGNC:HGNC:4733
See related
Ensembl:ENSG00000180573 MIM:602794; AllianceGenome:HGNC:4733
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
H2A/l; H2AFL; HIST1H2AC; dJ221C16.4
Summary
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 is intronless and encodes a replication-dependent histone that is a member of the histone H2A family. Transcripts from this gene lack polyA tails but instead contain a palindromic termination element. This gene is found in the large histone gene cluster on chromosome 6. [provided by RefSeq, Aug 2015]
Orthologs
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Genomic context

See H2AC6 in Genome Data Viewer
Location:
6p22.2
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (26124172..26124690)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (25992320..25992838)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (26124400..26124918)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene H1.6 linker histone, cluster member Neighboring gene H2B clustered histone 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:26121574-26122260 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:26122261-26122945 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:26123079-26124278 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:26124310-26125509 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24192 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:26156285-26157036 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17001 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:26157790-26158541 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24195 Neighboring gene Sharpr-MPRA regulatory region 13869 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:26160799-26161550 Neighboring gene H2BC6 antisense RNA 1 Neighboring gene H1.4 linker histone, cluster member Neighboring gene H2B clustered histone 5 Neighboring gene LARP1 pseudogene 1

Genomic regions, transcripts, and products

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 PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC99519

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
 
enables structural constituent of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
 
enables structural constituent of chromatin IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in heterochromatin formation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in extracellular exosome HDA PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
part_of nucleosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus HDA PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
histone H2A type 1-C
Names
H2A histone family, member L
histone 1, H2ac
histone H2A/l
histone H2AC
histone cluster 1 H2A family member c
histone cluster 1, H2ac

NCBI Reference Sequences (RefSeq)

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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_003512.4NP_003503.1  histone H2A type 1-C

    See identical proteins and their annotated locations for NP_003503.1

    Status: REVIEWED

    Source sequence(s)
    U91328
    Consensus CDS
    CCDS4585.1
    UniProtKB/Swiss-Prot
    B2R4F7, O00775, O00776, O00777, O00778, Q540R1, Q93077
    UniProtKB/TrEMBL
    B2R5B3
    Related
    ENSP00000367022.2, ENST00000377791.4
    Conserved Domains (1) summary
    PTZ00017
    Location:1130
    PTZ00017; histone H2A; Provisional

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    26124172..26124690
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    25992320..25992838
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)