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H3C4 H3 clustered histone 4 [ Homo sapiens (human) ]

Gene ID: 8351, updated on 22-Aug-2021


Official Symbol
H3C4provided by HGNC
Official Full Name
H3 clustered histone 4provided by HGNC
Primary source
See related
Ensembl:ENSG00000197409 MIM:602811
Gene type
protein coding
RefSeq status
Homo sapiens
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
H3/b; H3C1; H3C2; H3C3; H3C6; H3C7; H3C8; H3FB; H3C10; H3C11; H3C12; HIST1H3D
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 H3 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]
Broad expression in bone marrow (RPKM 2.8), prostate (RPKM 1.5) and 14 other tissues See more
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Genomic context

See H3C4 in Genome Data Viewer
Exon count:
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (26196784..26199293, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (26197012..26199521, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene H4 clustered histone 4 Neighboring gene H1.12 linker histone, cluster member pseudogene Neighboring gene H2A clustered histone 7 Neighboring gene H2B clustered histone 7 Neighboring gene ribosomal protein S10 pseudogene 1

Genomic regions, transcripts, and products


  • 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



Associated conditions

Description Tests
Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.
GeneReviews: Not available
Hundreds of variants clustered in genomic loci and biological pathways affect human height.
GeneReviews: Not available
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci.
GeneReviews: Not available

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


Products Interactant Other Gene Complex Source Pubs Description

General gene information


Potential readthrough

Included gene: H2AC7


General protein information

Preferred Names
histone H3.1
H3 histone family, member B
histone 1, H3d
histone H3/b
histone cluster 1 H3 family member d
histone cluster 1, H3d

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_001376937.1NP_001363866.1  histone H3.1

    Status: REVIEWED

    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 2. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    ENSP00000366999.2, ENST00000356476.3
    Conserved Domains (1) summary
    PTZ00018; histone H3; Provisional
  2. NM_003530.4NP_003521.2  histone H3.1

    See identical proteins and their annotated locations for NP_003521.2

    Status: REVIEWED

    Transcript Variant: This variant (2) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC031333, DB242999
    Consensus CDS
    Conserved Domains (1) summary
    PTZ00018; histone H3; Provisional

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly


  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    26196784..26199293 complement
    GenBank, FASTA, Sequence Viewer (Graphics)
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