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Aliases for HIST1H2BF Gene

Aliases for HIST1H2BF Gene

  • Histone Cluster 1 H2B Family Member F 2 3 5
  • H2B Histone Family, Member G 2 3
  • Histone Cluster 1, H2bf 2 3
  • Histone H2B.1 A 3 4
  • Histone 1, H2bf 2 3
  • Histone H2B.G 3 4
  • H2B/G 3 4
  • H2BFG 3 4
  • HIST1H2BC HIST1H2BE HIST1H2BF HIST1H2BG HIST1H2BI 4
  • Histone H2B Type 1-C/E/F/G/I 3
  • Histone H2B.A 4
  • Histone H2B.H 4
  • Histone H2B.K 4
  • Histone H2B.L 4
  • H2BFL 4
  • H2B/L 4
  • H2B/A 4
  • H2B/H 4
  • H2B/K 4
  • H2BFA 4
  • H2BFH 4
  • H2BFK 4

External Ids for HIST1H2BF Gene

Previous HGNC Symbols for HIST1H2BF Gene

  • H2BFG

Previous GeneCards Identifiers for HIST1H2BF Gene

  • GC06P026257
  • GC06P026307
  • GC06P026142

Summaries for HIST1H2BF Gene

Entrez Gene Summary for HIST1H2BF Gene

  • 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 H2B family. The protein has antibacterial and antifungal antimicrobial activity. 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]

GeneCards Summary for HIST1H2BF Gene

HIST1H2BF (Histone Cluster 1 H2B Family Member F) is a Protein Coding gene. Among its related pathways are Mitotic Prophase and Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3. GO annotations related to this gene include sequence-specific DNA binding and protein heterodimerization activity. An important paralog of this gene is HIST1H2BG.

UniProtKB/Swiss-Prot for HIST1H2BF Gene

  • Core component of nucleosome. 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.

  • Has broad antibacterial activity. May contribute to the formation of the functional antimicrobial barrier of the colonic epithelium, and to the bactericidal activity of amniotic fluid.

Gene Wiki entry for HIST1H2BF Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HIST1H2BF Gene

Genomics for HIST1H2BF Gene

Regulatory Elements for HIST1H2BF Gene

Enhancers for HIST1H2BF Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F026309 0.2 ENCODE 10.5 +112.3 112321 4.9 MLX CREB3L1 FEZF1 DMAP1 YBX1 YY1 ZNF143 NFYC TBX21 MEF2D ABT1 BTN3A2 HIST1H4H HIST1H3E HMGN4 HIST1H2APS4 HIST1H3G TRIM38 HIST1H2APS3 RPS10P1
GH06F026161 1 Ensembl 10.3 -37.8 -37804 0.6 BCOR RNF2 DPF2 OSR2 ARID1B FOSL1 JUND POLR2A MLLT1 KDM1A HIST1H4D HIST1H1PS1 BTN3A2 HIST1H2AD HIST1H3D HIST1H3E HIST1H2APS3 HIST1H2BF RPS10P1 HIST1H4C
GH06F026193 0.2 ENCODE 0.8 +1.3 1272 14.6 MLX CREB3L1 ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC TBX21 ABT1 HMGN4 BTN3A2 HIST1H3E GUSBP2 ZNF322 HIST1H2AE HIST1H2BE LARP1P1 HIST1H2APS3
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around HIST1H2BF on UCSC Golden Path with GeneCards custom track

Promoters for HIST1H2BF Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001214009 -1920 6401 HDGF PKNOX1 MLX ARNT CREB3L1 WRNIP1 ZFP64 ARID4B SIN3A DMAP1

Genomic Location for HIST1H2BF Gene

Chromosome:
6
Start:
26,199,520 bp from pter
End:
26,200,715 bp from pter
Size:
1,196 bases
Orientation:
Plus strand

Genomic View for HIST1H2BF Gene

Genes around HIST1H2BF on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HIST1H2BF Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HIST1H2BF Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HIST1H2BF Gene

Proteins for HIST1H2BF Gene

  • Protein details for HIST1H2BF Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P62807-H2B1C_HUMAN
    Recommended name:
    Histone H2B type 1-C/E/F/G/I
    Protein Accession:
    P62807
    Secondary Accessions:
    • P02278
    • Q3B872
    • Q4VB69
    • Q93078
    • Q93080

    Protein attributes for HIST1H2BF Gene

    Size:
    126 amino acids
    Molecular mass:
    13906 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. The octamer wraps approximately 147 bp of DNA.
    • 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. The octamer wraps approximately 147 bp of DNA.
    • 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. The octamer wraps approximately 147 bp of DNA.
    • 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. The octamer wraps approximately 147 bp of DNA.
    • 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. The octamer wraps approximately 147 bp of DNA.

    Three dimensional structures from OCA and Proteopedia for HIST1H2BF Gene

neXtProt entry for HIST1H2BF Gene

Post-translational modifications for HIST1H2BF Gene

  • Crotonylation (Kcr) is specifically present in male germ cells and marks testis-specific genes in post-meiotic cells, including X-linked genes that escape sex chromosome inactivation in haploid cells. Crotonylation marks active promoters and enhancers and confers resistance to transcriptional repressors. It is also associated with post-meiotically activated genes on autosomes.
  • GlcNAcylation at Ser-113 promotes monoubiquitination of Lys-121. It fluctuates in response to extracellular glucose, and associates with transcribed genes.
  • Monoubiquitination at Lys-35 (H2BK34Ub) by the MSL1/MSL2 dimer is required for histone H3 Lys-4 (H3K4me) and Lys-79 (H3K79me) methylation and transcription activation at specific gene loci, such as HOXA9 and MEIS1 loci. Similarly, monoubiquitination at Lys-121 (H2BK120Ub) by the RNF20/40 complex gives a specific tag for epigenetic transcriptional activation and is also prerequisite for histone H3 Lys-4 and Lys-79 methylation. It also functions cooperatively with the FACT dimer to stimulate elongation by RNA polymerase II. H2BK120Ub also acts as a regulator of mRNA splicing: deubiquitination by USP49 is required for efficient cotranscriptional splicing of a large set of exons.
  • Phosphorylation at Ser-37 (H2BS36ph) by AMPK in response to stress promotes transcription (By similarity). Phosphorylated on Ser-15 (H2BS14ph) by STK4/MST1 during apoptosis; which facilitates apoptotic chromatin condensation. Also phosphorylated on Ser-15 in response to DNA double strand breaks (DSBs), and in correlation with somatic hypermutation and immunoglobulin class-switch recombination.
  • Ubiquitination at Lys 121
  • Glycosylation at Ser 113
  • Modification sites at PhosphoSitePlus

Other Protein References for HIST1H2BF Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HIST1H2BF Gene

Domains & Families for HIST1H2BF Gene

Gene Families for HIST1H2BF Gene

Protein Domains for HIST1H2BF Gene

Graphical View of Domain Structure for InterPro Entry

P62807

UniProtKB/Swiss-Prot:

H2B1C_HUMAN :
  • Belongs to the histone H2B family.
Family:
  • Belongs to the histone H2B family.
genes like me logo Genes that share domains with HIST1H2BF: view

No data available for Suggested Antigen Peptide Sequences for HIST1H2BF Gene

Function for HIST1H2BF Gene

Molecular function for HIST1H2BF Gene

UniProtKB/Swiss-Prot Function:
Core component of nucleosome. 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.
UniProtKB/Swiss-Prot Function:
Has broad antibacterial activity. May contribute to the formation of the functional antimicrobial barrier of the colonic epithelium, and to the bactericidal activity of amniotic fluid.

Gene Ontology (GO) - Molecular Function for HIST1H2BF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding NAS,IBA 422550
GO:0005515 protein binding IPI 25416956
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with HIST1H2BF: view
genes like me logo Genes that share phenotypes with HIST1H2BF: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HIST1H2BF Gene

Localization for HIST1H2BF Gene

Subcellular locations from UniProtKB/Swiss-Prot for HIST1H2BF Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for HIST1H2BF Gene COMPARTMENTS Subcellular localization image for HIST1H2BF gene
Compartment Confidence
extracellular 5
nucleus 5

Gene Ontology (GO) - Cellular Components for HIST1H2BF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome NAS 422550
GO:0000788 nuclear nucleosome IBA --
GO:0005615 extracellular space IDA 12860195
GO:0005634 nucleus IDA 21630459
GO:0005654 nucleoplasm TAS --
genes like me logo Genes that share ontologies with HIST1H2BF: view

Pathways & Interactions for HIST1H2BF Gene

SuperPathways for HIST1H2BF Gene

SuperPathway Contained pathways
1 Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
2 DNA Double-Strand Break Repair
3 Cellular Senescence
4 Chromosome Maintenance
5 Cell Cycle, Mitotic
.60
genes like me logo Genes that share pathways with HIST1H2BF: view

Gene Ontology (GO) - Biological Process for HIST1H2BF Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002227 innate immune response in mucosa IDA 12860195
GO:0006334 nucleosome assembly NAS 422550
GO:0019731 antibacterial humoral response IDA 12860195
GO:0042742 defense response to bacterium IEA --
GO:0050830 defense response to Gram-positive bacterium IDA 12860195
genes like me logo Genes that share ontologies with HIST1H2BF: view

No data available for SIGNOR curated interactions for HIST1H2BF Gene

Transcripts for HIST1H2BF Gene

mRNA/cDNA for HIST1H2BF Gene

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

Unigene Clusters for HIST1H2BF Gene

Histone cluster 1, H2bf:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HIST1H2BF Gene

No ASD Table

Relevant External Links for HIST1H2BF Gene

GeneLoc Exon Structure for
HIST1H2BF
ECgene alternative splicing isoforms for
HIST1H2BF

Expression for HIST1H2BF Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for HIST1H2BF Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for HIST1H2BF Gene

This gene is overexpressed in Prostate (x6.4), Vagina (x5.2), Whole Blood (x4.6), and Cervix - Ectocervix (x4.2).

Protein differential expression in normal tissues from HIPED for HIST1H2BF Gene

This gene is overexpressed in Saliva (33.5) and Tlymphocyte (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HIST1H2BF Gene



Protein tissue co-expression partners for HIST1H2BF Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HIST1H2BF Gene:

HIST1H2BF

SOURCE GeneReport for Unigene cluster for HIST1H2BF Gene:

Hs.182137
genes like me logo Genes that share expression patterns with HIST1H2BF: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for HIST1H2BF Gene

Orthologs for HIST1H2BF Gene

This gene was present in the common ancestor of mammals.

Orthologs for HIST1H2BF Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia LOC100856099 34
  • 92.33 (n)
mouse
(Mus musculus)
Mammalia Hist1h2be 34 16
  • 91.01 (n)
chimpanzee
(Pan troglodytes)
Mammalia LOC471880 34
  • 90.48 (n)
rat
(Rattus norvegicus)
Mammalia LOC100365043 34
  • 89.68 (n)
cow
(Bos Taurus)
Mammalia LOC618012 34
  • 87.57 (n)
Species where no ortholog for HIST1H2BF was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for HIST1H2BF Gene

ENSEMBL:
Gene Tree for HIST1H2BF (if available)
TreeFam:
Gene Tree for HIST1H2BF (if available)

Paralogs for HIST1H2BF Gene

Variants for HIST1H2BF Gene

Sequence variations from dbSNP and Humsavar for HIST1H2BF Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1059486 -- 26,199,855(+) GCCGT(A/G)CGCCT upstream-variant-2KB, reference, synonymous-codon
rs10634633 -- 26,197,840(+) ACTCT(-/CT)TATCT intron-variant, upstream-variant-2KB
rs111373540 -- 26,198,794(+) GGCTC(C/T)GAAAA intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs111862300 -- 26,200,070(+) TGAGG(A/G)GGTTG downstream-variant-500B, upstream-variant-2KB
rs112070326 -- 26,198,821(+) TGCTT(C/T)CTTAA intron-variant, upstream-variant-2KB, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for HIST1H2BF Gene

Variant ID Type Subtype PubMed ID
dgv375n21 CNV loss 19592680
dgv5926n100 CNV gain 25217958
esv3608397 CNV loss 21293372
esv3608398 CNV loss 21293372
esv3608399 CNV gain 21293372
nsv1021294 CNV loss 25217958
nsv1023453 CNV gain 25217958
nsv428137 CNV loss 18775914
nsv969356 CNV duplication 23825009

Variation tolerance for HIST1H2BF Gene

Residual Variation Intolerance Score: 29.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.27; 5.92% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HIST1H2BF Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HIST1H2BF

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HIST1H2BF Gene

Disorders for HIST1H2BF Gene

Relevant External Links for HIST1H2BF

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HIST1H2BF

No disorders were found for HIST1H2BF Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HIST1H2BF Gene

Publications for HIST1H2BF Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff W.F. … Maltais L.J. (Genomics 2002) 2 3 4 64
  2. Human histone gene organization: nonregular arrangement within a large cluster. (PMID: 9119399) Albig W. … Doenecke D. (Genomics 1997) 2 3 4 64
  3. Antimicrobial peptides in the first line defence of human colon mucosa. (PMID: 12860195) Tollin M. … Agerberth B. (Peptides 2003) 3 4 64
  4. Human spleen histone H2B. Isolation and amino acid sequence. (PMID: 422550) Ohe Y. … Iwai K. (J. Biochem. 1979) 3 4 64
  5. Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci. (PMID: 25429064) He M. … Qi L. (Hum. Mol. Genet. 2015) 3 64

Products for HIST1H2BF Gene

Sources for HIST1H2BF Gene

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