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H2BC18 H2B clustered histone 18 [ Homo sapiens (human) ]

Gene ID: 440689, updated on 5-Mar-2024

Summary

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Official Symbol
H2BC18provided by HGNC
Official Full Name
H2B clustered histone 18provided by HGNC
Primary source
HGNC:HGNC:24700
See related
Ensembl:ENSG00000203814 AllianceGenome:HGNC:24700
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
HIST2H2BF
Summary
Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. This structure consists of approximately 146 bp of DNA wrapped around a nucleosome, an 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-dependent histone that is a member of the histone H2B family and is found in a histone cluster on chromosome 1. [provided by RefSeq, Aug 2015]
Expression
Broad expression in prostate (RPKM 4.3), appendix (RPKM 1.9) and 23 other tissues See more
Orthologs
all
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Genomic context

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Location:
1q21.2
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (149782689..149812370, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (148906835..148936505, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (149754245..149783925, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371406 Neighboring gene ubiquitin conjugating enzyme E2 D4 (putative) pseudogene Neighboring gene tRNA-Arg (anticodon CCT) 8-1 Neighboring gene MPRA-validated peak406 silencer Neighboring gene uncharacterized LOC124904411 Neighboring gene Fc gamma receptor Ia Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149764669-149765433 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1653 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1654 Neighboring gene H3 clustered histone 13 Neighboring gene H4 clustered histone 14

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. KAT6A, a novel regulator of β-catenin, promotes tumorigenicity and chemoresistance in ovarian cancer by acetylating COP1. Liu W, et al. Theranostics, 2021. PMID 33995658, Free PMC Article
  2. Inhibition of core histones acetylation by carcinogenic nickel(II). Golebiowski F, et al. Mol Cell Biochem, 2005 Nov. PMID 16283522
  3. Histone H2B monoubiquitination functions cooperatively with FACT to regulate elongation by RNA polymerase II. Pavri R, et al. Cell, 2006 May 19. PMID 16713563
  4. Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase. Cheung WL, et al. Cell, 2003 May 16. PMID 12757711
  5. Monoubiquitination of human histone H2B: the factors involved and their roles in HOX gene regulation. Zhu B, et al. Mol Cell, 2005 Nov 23. PMID 16307923

See all (58) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, histone cluster 2, H2bf (HIST2H2BF), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ35099, FLJ56780, FLJ56787, MGC131639

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables molecular_function ND
No biological Data available
more info
  
enables protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
  
enables structural constituent of chromatin IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in extracellular exosome HDA PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
part_of nucleosome IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus HDA PubMed 

General protein information

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Preferred Names
histone H2B type 2-F
Names
histone cluster 2 H2B family member f
histone cluster 2, H2bf

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.

Genomic

  1. NG_033089.2 RefSeqGene

    Range
    5000..5491
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001024599.5 → NP_001019770.1  histone H2B type 2-F isoform a

    See identical proteins and their annotated locations for NP_001019770.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs in the 3' coding region and 3' UTR, compared to variant 2. The encoded isoform (a) has a shorter C-terminus compared to isoform b.
    Source sequence(s)
    AC239868
    Consensus CDS
    CCDS30846.1
    UniProtKB/Swiss-Prot
    A8K0U9, B4DLA9, Q5QNW6
    UniProtKB/TrEMBL
    Q0D2M2
    Related
    ENSP00000358164.1, ENST00000369167.3
    Conserved Domains (1) summary
    smart00427
    Location:28 → 124
    H2B; Histone H2B

  2. NM_001161334.2 → NP_001154806.1  histone H2B type 2-F isoform b

    See identical proteins and their annotated locations for NP_001154806.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) encodes the longer isoform (b)
    Source sequence(s)
    AK296916
    Consensus CDS
    CCDS53359.1
    UniProtKB/TrEMBL
    Q0D2M2
    Related
    ENSP00000445831.1, ENST00000545683.1
    Conserved Domains (1) summary
    smart00427
    Location:28 → 124
    H2B; Histone H2B

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    149782689..149812370 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    148906835..148936505 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5QNW6.3 GenPept UniProtKB/Swiss-Prot:Q5QNW6

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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