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Aliases for HIST1H2BJ Gene

Aliases for HIST1H2BJ Gene

  • Histone Cluster 1 H2B Family Member J 2 3 5
  • H2B Histone Family, Member R 2 3
  • Histone Cluster 1, H2bj 2 3
  • Histone 1, H2bj 2 3
  • Histone H2B.1 3 4
  • Histone H2B.R 3 4
  • H2BFR 3 4
  • H2B/R 3 4
  • Histone H2B Type 1-J 3
  • H2BJ 3

External Ids for HIST1H2BJ Gene

Previous HGNC Symbols for HIST1H2BJ Gene

  • H2BFR

Previous GeneCards Identifiers for HIST1H2BJ Gene

  • GC06M027158
  • GC06M027208
  • GC06M027100
  • GC06M026910
  • GC06M027096

Summaries for HIST1H2BJ Gene

Entrez Gene Summary for HIST1H2BJ 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. Transcripts from this gene lack polyA tails but instead contain a palindromic termination element. This gene is found in the histone microcluster on chromosome 6p21.33. [provided by RefSeq, Aug 2015]

GeneCards Summary for HIST1H2BJ Gene

HIST1H2BJ (Histone Cluster 1 H2B Family Member J) is a Protein Coding gene. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and DNA Double Strand Break Response. GO annotations related to this gene include sequence-specific DNA binding and protein heterodimerization activity. An important paralog of this gene is HIST2H2BE.

UniProtKB/Swiss-Prot for HIST1H2BJ 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 HIST1H2BJ Gene

Additional gene information for HIST1H2BJ Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HIST1H2BJ Gene

Genomics for HIST1H2BJ Gene

Regulatory Elements for HIST1H2BJ Gene


Promoters for HIST1H2BJ Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000195089 196 3201 HNRNPUL1 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A FEZF1 ZNF2 YY1

Genomic Location for HIST1H2BJ Gene

Chromosome:
6
Start:
27,125,897 bp from pter
End:
27,132,796 bp from pter
Size:
6,900 bases
Orientation:
Minus strand

Genomic View for HIST1H2BJ Gene

Genes around HIST1H2BJ on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HIST1H2BJ Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HIST1H2BJ Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HIST1H2BJ Gene

Proteins for HIST1H2BJ Gene

  • Protein details for HIST1H2BJ Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P06899-H2B1J_HUMAN
    Recommended name:
    Histone H2B type 1-J
    Protein Accession:
    P06899
    Secondary Accessions:
    • B2R4J4
    • O60816

    Protein attributes for HIST1H2BJ Gene

    Size:
    126 amino acids
    Molecular mass:
    13904 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. Heterodimer HIST1H2BJ and H2AFZ interacts with VPS72 (via N-terminal domain) (PubMed:26974126).

    Three dimensional structures from OCA and Proteopedia for HIST1H2BJ Gene

neXtProt entry for HIST1H2BJ Gene

Post-translational modifications for HIST1H2BJ 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 (By similarity).
  • 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 posLast=121121
  • Glycosylation at posLast=113113
  • Modification sites at PhosphoSitePlus

Other Protein References for HIST1H2BJ Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HIST1H2BJ Gene

Domains & Families for HIST1H2BJ Gene

Gene Families for HIST1H2BJ Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for HIST1H2BJ Gene

Suggested Antigen Peptide Sequences for HIST1H2BJ Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P06899

UniProtKB/Swiss-Prot:

H2B1J_HUMAN :
  • Belongs to the histone H2B family.
Family:
  • Belongs to the histone H2B family.
genes like me logo Genes that share domains with HIST1H2BJ: view

Function for HIST1H2BJ Gene

Molecular function for HIST1H2BJ 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.

Phenotypes From GWAS Catalog for HIST1H2BJ Gene

Gene Ontology (GO) - Molecular Function for HIST1H2BJ Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001530 lipopolysaccharide binding IDA 11859126
GO:0003677 DNA binding IBA,NAS 6647026
GO:0005515 protein binding IPI 26974126
GO:0046982 protein heterodimerization activity IEA --
genes like me logo Genes that share ontologies with HIST1H2BJ: view
genes like me logo Genes that share phenotypes with HIST1H2BJ: view

Animal Models for HIST1H2BJ Gene

MGI Knock Outs for HIST1H2BJ:

Animal Model Products

CRISPR Products

miRNA for HIST1H2BJ Gene

miRTarBase miRNAs that target HIST1H2BJ

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for HIST1H2BJ
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for HIST1H2BJ Gene

Localization for HIST1H2BJ Gene

Subcellular locations from UniProtKB/Swiss-Prot for HIST1H2BJ Gene

Nucleus. Chromosome.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for HIST1H2BJ gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 4

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for HIST1H2BJ Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome NAS 6647026
GO:0005615 extracellular space IDA 11859126
GO:0005634 nucleus IDA 16319397
GO:0005654 nucleoplasm TAS --
GO:0005694 chromosome IEA --
genes like me logo Genes that share ontologies with HIST1H2BJ: view

Pathways & Interactions for HIST1H2BJ Gene

SuperPathways for HIST1H2BJ 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 (REACTOME)
4 Chromosome Maintenance
5 Cell Cycle, Mitotic
.60
genes like me logo Genes that share pathways with HIST1H2BJ: view

Gene Ontology (GO) - Biological Process for HIST1H2BJ Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002227 innate immune response in mucosa IDA 12860195
GO:0006334 nucleosome assembly NAS,IBA 6647026
GO:0010804 negative regulation of tumor necrosis factor-mediated signaling pathway IDA 11859126
GO:0016567 protein ubiquitination TAS --
GO:0019731 antibacterial humoral response IDA 12860195
genes like me logo Genes that share ontologies with HIST1H2BJ: view

No data available for SIGNOR curated interactions for HIST1H2BJ Gene

Drugs & Compounds for HIST1H2BJ Gene

No Compound Related Data Available

Transcripts for HIST1H2BJ Gene

mRNA/cDNA for HIST1H2BJ Gene

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

Unigene Clusters for HIST1H2BJ Gene

Histone cluster 1, H2bj:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for HIST1H2BJ
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for HIST1H2BJ Gene

No ASD Table

Relevant External Links for HIST1H2BJ Gene

GeneLoc Exon Structure for
HIST1H2BJ
ECgene alternative splicing isoforms for
HIST1H2BJ

Expression for HIST1H2BJ Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HIST1H2BJ Gene

mRNA differential expression in normal tissues according to GTEx for HIST1H2BJ Gene

This gene is overexpressed in Whole Blood (x11.1) and Testis (x7.0).

Protein differential expression in normal tissues from HIPED for HIST1H2BJ Gene

This gene is overexpressed in Saliva (56.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for HIST1H2BJ Gene



Protein tissue co-expression partners for HIST1H2BJ Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of HIST1H2BJ Gene:

HIST1H2BJ

SOURCE GeneReport for Unigene cluster for HIST1H2BJ Gene:

Hs.656567

Evidence on tissue expression from TISSUES for HIST1H2BJ Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with HIST1H2BJ: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HIST1H2BJ Gene

Orthologs for HIST1H2BJ Gene

This gene was present in the common ancestor of animals.

Orthologs for HIST1H2BJ Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia HIST1H2BJ 34
  • 100 (a)
OneToOne
LOC488288 33
  • 92.59 (n)
chimpanzee
(Pan troglodytes)
Mammalia HIST1H2BJ 34
  • 100 (a)
OneToOne
HIST1H2BK 33
  • 98.94 (n)
cow
(Bos Taurus)
Mammalia HIST1H2BJ 34
  • 99 (a)
OneToOne
LOC522960 33
  • 91.01 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 99 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 99 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Hist2h2be 33 16 34
  • 86.51 (n)
rat
(Rattus norvegicus)
Mammalia Hist2h2be 33
  • 85.45 (n)
chicken
(Gallus gallus)
Aves -- 34
  • 82 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 93 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100487485 33
  • 85.98 (n)
zebrafish
(Danio rerio)
Actinopterygii zgc:194989 34
  • 93 (a)
ManyToMany
wu:fe11b02 34 34 34 34 34 34 34 34
  • 88 (a)
ManyToMany
ano9a 34 34
  • 87 (a)
ManyToMany
zgc:171759 34 34 34 34 34 34 34 34 34 34
  • 87 (a)
ManyToMany
CABZ01086354.1 34
  • 86 (a)
ManyToMany
si:dkey-261m9.19 34
  • 86 (a)
ManyToMany
si:dkey-261m9.6 34
  • 86 (a)
ManyToMany
zgc:112234 34 34 34 34 34
  • 86 (a)
ManyToMany
zgc:173587 34
  • 86 (a)
ManyToMany
African malaria mosquito
(Anopheles gambiae)
Insecta H2B_ANOGA_c 33
  • 76.23 (n)
fruit fly
(Drosophila melanogaster)
Insecta His2B:CG33892 33
  • 76.11 (n)
worm
(Caenorhabditis elegans)
Secernentea his-54 33
  • 69.59 (n)
Species where no ortholog for HIST1H2BJ was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • wheat (Triticum aestivum)

Evolution for HIST1H2BJ Gene

ENSEMBL:
Gene Tree for HIST1H2BJ (if available)
TreeFam:
Gene Tree for HIST1H2BJ (if available)

Paralogs for HIST1H2BJ Gene

Variants for HIST1H2BJ Gene

Sequence variations from dbSNP and Humsavar for HIST1H2BJ Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000107163 -- 27,131,958(+) ACCGT(A/G)GACTT downstream-variant-500B, upstream-variant-2KB
rs1001283944 -- 27,133,597(+) CAAGA(C/T)TCTAG downstream-variant-500B, upstream-variant-2KB
rs1001313399 -- 27,133,468(+) AACTA(C/T)CTGTA upstream-variant-2KB, utr-variant-3-prime
rs1002289581 -- 27,134,532(+) AACTT(C/T)TGGTG upstream-variant-2KB
rs1002319247 -- 27,134,237(+) ACTTG(A/C)CAGGA upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for HIST1H2BJ Gene

Variant ID Type Subtype PubMed ID
nsv1029124 CNV loss 25217958
nsv965698 CNV duplication 23825009

Variation tolerance for HIST1H2BJ Gene

Residual Variation Intolerance Score: 28.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.87; 18.16% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HIST1H2BJ Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HIST1H2BJ

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HIST1H2BJ Gene

Disorders for HIST1H2BJ Gene

Relevant External Links for HIST1H2BJ

Genetic Association Database (GAD)
HIST1H2BJ
Human Genome Epidemiology (HuGE) Navigator
HIST1H2BJ
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HIST1H2BJ

No disorders were found for HIST1H2BJ Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HIST1H2BJ Gene

Publications for HIST1H2BJ Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff WF … Maltais LJ (Genomics 2002) 2 3 4 60
  2. The primary structure and expression of four cloned human histone genes. (PMID: 6647026) Zhong R … Heintz N (Nucleic acids research 1983) 2 3 4 60
  3. Molecular basis and specificity of H2A.Z-H2B recognition and deposition by the histone chaperone YL1. (PMID: 26974126) Latrick CM … Hamiche A (Nature structural & molecular biology 2016) 3 4 60
  4. Variants in TF and HFE explain approximately 40% of genetic variation in serum-transferrin levels. (PMID: 19084217) Benyamin B … Visscher PM (American journal of human genetics 2009) 3 45 60
  5. Common variants on chromosome 6p22.1 are associated with schizophrenia. (PMID: 19571809) Shi J … Gejman PV (Nature 2009) 3 45 60

Products for HIST1H2BJ Gene

Sources for HIST1H2BJ Gene

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