Histones are basic nuclear proteins responsible for 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 ... See more...

Aliases for H1-6 Gene

Aliases for H1-6 Gene

  • H1.6 Linker Histone, Cluster Member 2 3
  • Histone Cluster 1 H1 Family Member T 2 3 5
  • H1 Histone Family, Member T (Testis-Specific) 2 3
  • Histone Cluster 1, H1t 2 3
  • Testicular H1 Histone 3 4
  • Histone 1, H1t 2 3
  • Histone H1t 3 4
  • HIST1H1T 3 5
  • H1FT 3 4
  • DJ221C16.2 3
  • H1.6 3
  • H1t 3
  • H1T 4

External Ids for H1-6 Gene

Previous HGNC Symbols for H1-6 Gene

  • H1FT
  • HIST1H1T

Summaries for H1-6 Gene

Entrez Gene Summary for H1-6 Gene

  • Histones are basic nuclear proteins responsible for 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 H1 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]

GeneCards Summary for H1-6 Gene

H1-6 (H1.6 Linker Histone, Cluster Member) is a Protein Coding gene. Among its related pathways are Cell cycle_Chromosome condensation in prometaphase and E2F mediated regulation of DNA replication. An important paralog of this gene is H1-4.

UniProtKB/Swiss-Prot Summary for H1-6 Gene

  • Testis-specific histone H1 that forms less compacted chromatin compared to other H1 histone subtypes (PubMed:26757249). Formation of more relaxed chromatin may be required to promote chromatin architecture required for proper chromosome regulation during meiosis, such as homologous recombination (PubMed:26757249). Histones H1 act as linkers that bind to nucleosomes and compact polynucleosomes into a higher-order chromatin configuration (Probable).

Gene Wiki entry for H1-6 Gene

Additional gene information for H1-6 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for H1-6 Gene

Genomics for H1-6 Gene

GeneHancer (GH) Regulatory Elements for H1-6 Gene

Promoters and enhancers for H1-6 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J026109 Enhancer 0.5 Ensembl 750.6 -1.7 -1665 0.4 CEBPB EP300 CEBPG ZNF335 ZBTB33 H1-6 piR-36371 piR-36464 piR-37554 piR-35027 piR-58377 piR-46676 BTN3A2 piR-31751
GH06J026108 Promoter 0.3 EPDnew 750.6 0.0 -20 0.1 H1-6 piR-36371 piR-36464 piR-37554 piR-35027 piR-58377 piR-46676 piR-51261 ENSG00000272462 piR-31751
GH06J026086 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 11.8 +20.1 20060 2.8 ZBTB40 SMARCE1 POLR2A CC2D1A ELF1 HLF L3MBTL2 ZKSCAN8 ZNF148 ELF3 HFE NONHSAG043229.2 ENSG00000272462 H1-2 H1-6 LARP1P1 GUSBP2 BTN3A2 LOC108783645-001
GH06J026060 Enhancer 0.6 Ensembl ENCODE 11.3 +47.8 47835 2.2 ZKSCAN8 CEBPB ZBTB33 H4C3 ENSG00000272462 HFE H1-6 H1-4 H2BC5 LARP1P1 HMGN4 H1-2 piR-46501-084
GH06J026134 Enhancer 0.4 Ensembl 12.2 -27.6 -27565 0.2 PRDM1 ZNF10 FOXA2 FOXA1 H1-6 H4C3 LARP1P1 ENSG00000218690 H2AC6 piR-40096 H1-4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around H1-6 on UCSC Golden Path with GeneCards custom track

Genomic Locations for H1-6 Gene

Genomic Locations for H1-6 Gene
chr6:26,107,412-26,108,136
(GRCh38/hg38)
Size:
725 bases
Orientation:
Minus strand
chr6:26,107,640-26,108,364
(GRCh37/hg19)
Size:
725 bases
Orientation:
Minus strand

Genomic View for H1-6 Gene

Genes around H1-6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
H1-6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for H1-6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for H1-6 Gene

Proteins for H1-6 Gene

  • Protein details for H1-6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P22492-H1T_HUMAN
    Recommended name:
    Histone H1t
    Protein Accession:
    P22492
    Secondary Accessions:
    • Q6ISI1
    • Q8IUE8

    Protein attributes for H1-6 Gene

    Size:
    207 amino acids
    Molecular mass:
    22019 Da
    Quaternary structure:
    No Data Available

neXtProt entry for H1-6 Gene

Post-translational modifications for H1-6 Gene

  • Phosphorylated in early spermatids.
  • Citrullination at Arg-58 (H1R54ci) by PADI4 takes place within the DNA-binding site of H1 and results in its displacement from chromatin and global chromatin decondensation, thereby promoting pluripotency and stem cell maintenance.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for H1-6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for H1-6 Gene

Domains & Families for H1-6 Gene

Gene Families for H1-6 Gene

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

Protein Domains for H1-6 Gene

Suggested Antigen Peptide Sequences for H1-6 Gene

GenScript: Design optimal peptide antigens:
  • Histone cluster 1, H1t (A1L407_HUMAN)
  • Testicular H1 histone (H1T_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P22492

UniProtKB/Swiss-Prot:

H1T_HUMAN :
  • Belongs to the histone H1/H5 family.
Family:
  • Belongs to the histone H1/H5 family.
genes like me logo Genes that share domains with H1-6: view

Function for H1-6 Gene

Molecular function for H1-6 Gene

UniProtKB/Swiss-Prot Function:
Testis-specific histone H1 that forms less compacted chromatin compared to other H1 histone subtypes (PubMed:26757249). Formation of more relaxed chromatin may be required to promote chromatin architecture required for proper chromosome regulation during meiosis, such as homologous recombination (PubMed:26757249). Histones H1 act as linkers that bind to nucleosomes and compact polynucleosomes into a higher-order chromatin configuration (Probable).

Phenotypes From GWAS Catalog for H1-6 Gene

Gene Ontology (GO) - Molecular Function for H1-6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003690 double-stranded DNA binding IBA 21873635
GO:0031492 nucleosomal DNA binding IBA 21873635
genes like me logo Genes that share ontologies with H1-6: view
genes like me logo Genes that share phenotypes with H1-6: view

Animal Models for H1-6 Gene

MGI Knock Outs for H1-6:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H1-6

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for H1-6 Gene

Localization for H1-6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for H1-6 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 H1-6 gene
Compartment Confidence
nucleus 4
cytosol 2
extracellular 0

Gene Ontology (GO) - Cellular Components for H1-6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome IEA --
GO:0000790 nuclear chromatin IBA 21873635
GO:0005634 nucleus IBA 21873635
GO:0005694 chromosome IEA --
GO:0005719 nuclear euchromatin IBA 21873635
genes like me logo Genes that share ontologies with H1-6: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for H1-6 Gene

Pathways & Interactions for H1-6 Gene

genes like me logo Genes that share pathways with H1-6: view

Pathways by source for H1-6 Gene

2 Qiagen pathways for H1-6 Gene
  • Granzyme-A Pathway
  • PKA Signaling

Gene Ontology (GO) - Biological Process for H1-6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006334 nucleosome assembly IEA --
GO:0006355 regulation of transcription, DNA-templated IBA 21873635
GO:0007275 multicellular organism development IEA --
GO:0007283 spermatogenesis TAS,IBA 21873635
GO:0016584 nucleosome positioning IBA 21873635
genes like me logo Genes that share ontologies with H1-6: view

No data available for SIGNOR curated interactions for H1-6 Gene

Drugs & Compounds for H1-6 Gene

(1) Drugs for H1-6 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with H1-6: view

Transcripts for H1-6 Gene

mRNA/cDNA for H1-6 Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(5) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for H1-6

Alternative Splicing Database (ASD) splice patterns (SP) for H1-6 Gene

No ASD Table

Relevant External Links for H1-6 Gene

GeneLoc Exon Structure for
H1-6
ECgene alternative splicing isoforms for
H1-6

Expression for H1-6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

NURSA nuclear receptor signaling pathways regulating expression of H1-6 Gene:

H1-6

SOURCE GeneReport for Unigene cluster for H1-6 Gene:

Hs.533293

mRNA Expression by UniProt/SwissProt for H1-6 Gene:

P22492-H1T_HUMAN
Tissue specificity: Testis-specific.
genes like me logo Genes that share expression patterns with H1-6: view

Primer Products

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for H1-6 Gene

Orthologs for H1-6 Gene

This gene was present in the common ancestor of chordates.

Orthologs for H1-6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LOC471879 32
  • 98.23 (n)
HIST1H1T 33
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia HIST1H1T 33 32
  • 70.55 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Hist1h1t 32
  • 68.8 (n)
mouse
(Mus musculus)
Mammalia Hist1h1t 33 32
  • 67.32 (n)
OneToOne
H1f6 17
platypus
(Ornithorhynchus anatinus)
Mammalia -- 33
  • 28 (a)
OneToMany
chicken
(Gallus gallus)
Aves HIST1H111R 32
  • 58.54 (n)
lizard
(Anolis carolinensis)
Reptilia -- 33
  • 74 (a)
ManyToMany
-- 33
  • 44 (a)
ManyToMany
-- 33
  • 43 (a)
ManyToMany
-- 33
  • 40 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC101732947 32
  • 58.94 (n)
zebrafish
(Danio rerio)
Actinopterygii zgc:163061 33 33 32
  • 66.2 (n)
ManyToMany
CABZ01086354.1 33
  • 52 (a)
ManyToMany
CU457819.3 33
  • 50 (a)
ManyToMany
FP325123.1 33
  • 50 (a)
ManyToMany
zgc:110425 33
  • 47 (a)
ManyToMany
histh1l 33
  • 47 (a)
ManyToMany
si:dkey-261m9.12 33
  • 45 (a)
ManyToMany
si:ch211-113a14.24 33
  • 45 (a)
ManyToMany
si:dkey-108k21.14 33
  • 45 (a)
ManyToMany
zgc:153405 33
  • 45 (a)
ManyToMany
si:ch211-113a14.18 33
  • 45 (a)
ManyToMany
si:dkey-108k21.10 33
  • 45 (a)
ManyToMany
si:ch211-113a14.12 33
  • 44 (a)
ManyToMany
si:dkey-108k21.21 33
  • 41 (a)
ManyToMany
Species where no ortholog for H1-6 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for H1-6 Gene

ENSEMBL:
Gene Tree for H1-6 (if available)
TreeFam:
Gene Tree for H1-6 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for H1-6: view image

Paralogs for H1-6 Gene

Paralogs for H1-6 Gene

genes like me logo Genes that share paralogs with H1-6: view

Variants for H1-6 Gene

Sequence variations from dbSNP and Humsavar for H1-6 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000644003 -- 26,110,004(-) T/G upstream_transcript_variant
rs1002618064 -- 26,107,123(-) T/TT downstream_transcript_variant
rs1004489154 -- 26,107,997(-) T/A/C coding_sequence_variant, missense_variant
rs1004518794 -- 26,108,094(-) A/G 5_prime_UTR_variant
rs1004547727 -- 26,107,545(-) C/T coding_sequence_variant, synonymous_variant

Structural Variations from Database of Genomic Variants (DGV) for H1-6 Gene

Variant ID Type Subtype PubMed ID
dgv5926n100 CNV gain 25217958
esv3608393 CNV gain 21293372
nsv1023453 CNV gain 25217958
nsv428137 CNV loss 18775914

Variation tolerance for H1-6 Gene

Residual Variation Intolerance Score: 90% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.94; 79.76% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for H1-6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
H1-6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for H1-6 Gene

Disorders for H1-6 Gene

No disorders were found for H1-6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot , Genatlas and External Links for H1-6 Gene

Publications for H1-6 Gene

  1. The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff WF … Maltais LJ (Genomics 2002) 2 3 4 56
  2. Primate testicular histone H1t genes are highly conserved and the human H1t gene is located on chromosome 6. (PMID: 8175896) Koppel DA … Grimes SR (Journal of cellular biochemistry 1994) 2 3 4 56
  3. Structure and expression of the human gene encoding testicular H1 histone (H1t). (PMID: 1889752) Drabent B … Doenecke D (Gene 1991) 3 4 23 56
  4. Relaxed Chromatin Formation and Weak Suppression of Homologous Pairing by the Testis-Specific Linker Histone H1T. (PMID: 26757249) Machida S … Kurumizaka H (Biochemistry 2016) 3 4 56
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 56

Products for H1-6 Gene

Sources for H1-6 Gene