Aliases for HIST1H2AD Gene
Aliases for HIST1H2AD Gene
External Ids for HIST1H2AD Gene
- HGNC: 4729
- Entrez Gene: 3013
- Ensembl: ENSG00000196866
- OMIM: 602792
- UniProtKB: P20671
Previous HGNC Symbols for HIST1H2AD Gene
- H2AFG
Previous GeneCards Identifiers for HIST1H2AD Gene
- GC06M026256
- GC06M026309
- GC06M026311
- GC06M026313
- GC06M026315
- GC06M026199
- GC06M026142
Summaries for HIST1H2AD Gene
-
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 is intronless and encodes a replication-dependent histone that is a member of the histone H2A family. Transcripts from this gene lack polyA tails; instead, they contain a palindromic termination element. This gene is found in the large histone gene cluster on chromosome 6p22-p21.3. [provided by RefSeq, Aug 2015]
GeneCards Summary for HIST1H2AD Gene
HIST1H2AD (Histone Cluster 1 H2A Family Member D) is a Protein Coding gene. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 and Meiosis. GO annotations related to this gene include sequence-specific DNA binding and protein heterodimerization activity. An important paralog of this gene is HIST1H2AB.
UniProtKB/Swiss-Prot for HIST1H2AD 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.
No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HIST1H2AD Gene
Genomics for HIST1H2AD Gene
Regulatory Elements for HIST1H2AD Gene
Enhancers for HIST1H2AD 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 |
|---|---|---|---|---|---|---|---|---|
| GH06G026309 | 1.7 | Ensembl ENCODE dbSUPER | 10.5 | -112.5 | -112548 | 4.9 | CREB3L1 MLX DMAP1 FEZF1 YBX1 YY1 ZNF143 NFYC TBX21 MEF2D | BTN3A2 HIST1H4H ABT1 HIST1H3E GUSBP2 ZNF322 HIST1H2APS4 HIST1H3G TRIM38 HIST1H2APS3 |
| GH06G026162 | 0.7 | Ensembl | 11.2 | +37.8 | 37793 | 0.2 | BCOR RNF2 DPF2 MNT FOSL1 ARID1B JUND PRDM6 POLR2A IKZF1 | HIST1H4D HIST1H1PS1 HIST1H2AD HIST1H3E HIST1H2APS3 HIST1H2BF RPS10P1 HIST1H4C HIST1H4F HIST1H4H |
- Elite enhancer and/or Elite enhancer-gene association
Download GeneHancer data dump
Enhancers around HIST1H2AD on UCSC Golden Path with GeneCards custom track
Regulatory Element Products
Genomic Location for HIST1H2AD Gene
- Chromosome:
- 6
- Start:
- 26,198,784 bp from pter
- End:
- 26,199,293 bp from pter
- Size:
- 510 bases
- Orientation:
- Minus strand
Genomic View for HIST1H2AD Gene
Genes around HIST1H2AD on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 6p22.2 by Ensembl
- 6p22.2 by Entrez Gene
- 6p22.2 by HGNC
HIST1H2AD Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for HIST1H2AD Gene
Proteins for HIST1H2AD Gene
-
Protein details for HIST1H2AD Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- P20671-H2A1D_HUMAN
- Recommended name:
- Histone H2A type 1-D
- Protein Accession:
- P20671
- A0PK91
- P57754
- Q6FGY6
Protein attributes for HIST1H2AD Gene
- Size:
- 130 amino acids
- Molecular mass:
- 14107 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.
Protein Expression for HIST1H2AD Gene
Post-translational modifications for HIST1H2AD 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.
- Deiminated on Arg-4 in granulocytes upon calcium entry.
- Glutamine methylation at Gln-105 (H2AQ104me) by FBL is specifically dedicated to polymerase I. It is present at 35S ribosomal DNA locus and impairs binding of the FACT complex (PubMed:24352239).
- Monoubiquitination of Lys-120 (H2AK119Ub) by RING1, TRIM27 and RNF2/RING2 complex gives a specific tag for epigenetic transcriptional repression and participates in X chromosome inactivation of female mammals. It is involved in the initiation of both imprinted and random X inactivation. Ubiquitinated H2A is enriched in inactive X chromosome chromatin. Ubiquitination of H2A functions downstream of methylation of Lys-27 of histone H3 (H3K27me). H2AK119Ub by RNF2/RING2 can also be induced by ultraviolet and may be involved in DNA repair. Monoubiquitination of Lys-120 (H2AK119Ub) by TRIM27 may promote transformation of cells in a number of breast cancers (PubMed:25470042). Following DNA double-strand breaks (DSBs), it is ubiquitinated through Lys-63 linkage of ubiquitin moieties by the E2 ligase UBE2N and the E3 ligases RNF8 and RNF168, leading to the recruitment of repair proteins to sites of DNA damage. Ubiquitination at Lys-14 and Lys-16 (H2AK13Ub and H2AK15Ub, respectively) in response to DNA damage is initiated by RNF168 that mediates monoubiquitination at these 2 sites, and Lys-63-linked ubiquitin are then conjugated to monoubiquitin; RNF8 is able to extend Lys-63-linked ubiquitin chains in vitro. H2AK119Ub and ionizing radiation-induced Lys-63-linked ubiquitination (H2AK13Ub and H2AK15Ub) are distinct events.
- Phosphorylation on Ser-2 (H2AS1ph) is enhanced during mitosis. Phosphorylation on Ser-2 by RPS6KA5/MSK1 directly represses transcription. Acetylation of H3 inhibits Ser-2 phosphorylation by RPS6KA5/MSK1. Phosphorylation at Thr-121 (H2AT120ph) by VPRBP is present in the regulatory region of many tumor suppresor genes and down-regulates their transcription.
- Symmetric dimethylation on Arg-4 by the PRDM1/PRMT5 complex may play a crucial role in the germ-cell lineage.
- Ubiquitination at posLast=1414 and posLast=1616
- Modification sites at PhosphoSitePlus
Other Protein References for HIST1H2AD Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
Cloud-Clone Corp. Antibodies for HIST1H2AD
- Invitrogen Antibodies for HIST1H2AD
- Invitrogen Antibodies for HIST1H2AD
- antibodies-online Antibodies for HIST1H2AD: See all 5
- Search GeneTex for Antibodies for HIST1H2AD
Protein Products
-
OriGene Purified Proteins for HIST1H2AD
- Search Origene for MassSpec and Protein Over-expression Lysates for HIST1H2AD
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-
Cloud-Clone Corp. Proteins for HIST1H2AD
- antibodies-online Proteins for HIST1H2AD: See all 3
- Search antibodies-online for peptides
- Search GeneTex for Proteins for HIST1H2AD
Assay Products
No data available for DME Specific Peptides for HIST1H2AD Gene
Domains & Families for HIST1H2AD Gene
Gene Families for HIST1H2AD Gene
- HGNC:
Protein Domains for HIST1H2AD Gene
- InterPro:
- Blocks:
- ProtoNet:
Suggested Antigen Peptide Sequences for HIST1H2AD Gene
- GenScript: Design optimal peptide antigens:
Graphical View of Domain Structure for InterPro Entry
P20671- Family:
-
- Belongs to the histone H2A family.
Function for HIST1H2AD Gene
Molecular function for HIST1H2AD 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.
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0003674 | molecular_function | ND | -- |
| GO:0003677 | DNA binding | IBA | -- |
| GO:0046982 | protein heterodimerization activity | IEA | -- |
Phenotypes for HIST1H2AD Gene
- GenomeRNAi human phenotypes for HIST1H2AD:
Animal Model Products
- Taconic Biosciences: Generate A Custom CRISPR Mouse Model For Your Study
-
ViGene Biosciences lentiviral particle packaged cDNA for HIST1H2AD gene
- Search ViGene Biosciences for HIST1H2AD
CRISPR Products
-
OriGene CRISPR knockouts for HIST1H2AD
-
Santa Cruz Biotechnology (SCBT) CRISPR for HIST1H2AD
- GenScript: Design CRISPR guide RNA sequences for HIST1H2AD
miRNA for HIST1H2AD Gene
- miRTarBase miRNAs that target HIST1H2AD
-
- hsa-mir-34a-5p (MIRT025501)
- hsa-mir-331-3p (MIRT043367)
- hsa-mir-760 (MIRT053578)
- hsa-mir-6822-3p (MIRT317239)
- hsa-mir-5693 (MIRT511783)
- hsa-mir-2053 (MIRT511784)
- hsa-mir-8057 (MIRT511785)
- hsa-mir-499a-5p (MIRT511786)
- hsa-mir-208b-3p (MIRT511787)
- hsa-mir-208a-3p (MIRT511788)
- hsa-mir-4483 (MIRT511789)
- hsa-mir-1293 (MIRT511790)
- hsa-mir-6766-5p (MIRT511791)
- hsa-mir-6756-5p (MIRT511792)
- hsa-mir-6745 (MIRT511793)
- hsa-mir-363-5p (MIRT511794)
- hsa-mir-4766-5p (MIRT511795)
- hsa-mir-146a-3p (MIRT511796)
- hsa-mir-8087 (MIRT511797)
- hsa-mir-4432 (MIRT511798)
- hsa-mir-1276 (MIRT511799)
miRNA Products
- Search ViGene Biosciences for HIST1H2AD
Inhibitory RNA Products
- Origene RNAi, siRNA, and shRNA products in human, mouse, rat for HIST1H2AD
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Clone Products
-
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- Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat
Cell Line Products
-
Horizon Cell Lines for HIST1H2AD
-
ViGene Biosciences adenoviral particle packaged cDNA for HIST1H2AD gene
-
ViGene Biosciences lentiviral particle packaged cDNA for HIST1H2AD gene
- Search ViGene Biosciences for HIST1H2AD
Flow Cytometry Products
No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HIST1H2AD Gene
Localization for HIST1H2AD Gene
Subcellular locations from UniProtKB/Swiss-Prot for HIST1H2AD Gene
- Nucleus. Chromosome.
| Compartment | Confidence |
|---|---|
| extracellular | 5 |
| nucleus | 5 |
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0000786 | nucleosome | IEA | -- |
| GO:0000790 | nuclear chromatin | IBA | -- |
| GO:0005634 | nucleus | IDA | 16319397 |
| GO:0005694 | chromosome | IEA | -- |
| GO:0070062 | extracellular exosome | IDA | 20458337 |
Pathways & Interactions for HIST1H2AD Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 |
.88
|
.34
|
| 2 | Cellular Senescence | ||
| 3 | Chromosome Maintenance | ||
| 4 | Cell Cycle, Mitotic |
.83
|
.60
|
| 5 | Chromatin organization | ||
Pathways by source for HIST1H2AD Gene
58 Reactome pathways for HIST1H2AD Gene
- Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3
- Activation of anterior HOX genes in hindbrain development during early embryogenesis
- Activation of HOX genes during differentiation
- Amyloid fiber formation
- B-WICH complex positively regulates rRNA expression
2 KEGG pathways for HIST1H2AD Gene
1 GeneGo (Thomson Reuters) pathway for HIST1H2AD Gene
Interacting Proteins for HIST1H2AD Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0006342 | chromatin silencing | IBA | -- |
| GO:0008150 | biological_process | ND | -- |
No data available for SIGNOR curated interactions for HIST1H2AD Gene
Drugs & Compounds for HIST1H2AD Gene
| Name | Status | Disease Links | Group | Role | Mechanism of Action | Clinical Trials |
|---|---|---|---|---|---|---|
| calcium | Nutra | 0 |
Transcripts for HIST1H2AD Gene
mRNA/cDNA for HIST1H2AD Gene
- (1) REFSEQ mRNAs :
- (7) Additional mRNA sequences :
- (30) Selected AceView cDNA sequences:
- (1) Ensembl transcripts including schematic representations, and UCSC links where relevant :
Unigene Clusters for HIST1H2AD Gene
CRISPR Products
-
OriGene CRISPR knockouts for HIST1H2AD
-
Santa Cruz Biotechnology (SCBT) CRISPR for HIST1H2AD
- GenScript: Design CRISPR guide RNA sequences for HIST1H2AD
miRNA Products
- Search ViGene Biosciences for HIST1H2AD
Inhibitory RNA Products
- Origene RNAi, siRNA, and shRNA products in human, mouse, rat for HIST1H2AD
- Browse OriGene Inhibitory RNA Products For HIST1H2AD
- Search ViGene Biosciences for HIST1H2AD
Clone Products
-
OriGene ORF clones in human for HIST1H2AD
- Custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
- Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat
Flow Cytometry Products
Expression for HIST1H2AD Gene
mRNA expression in embryonic tissues and stem cells from LifeMap Discovery
-
Blood (Hematopoietic System)
- Granulocytes Peripheral Blood
-
Brain (Nervous System)
- Choroid Plexus Progenitor Cells Choroid Plexus
This gene is overexpressed in Blymphocyte (27.2), Tlymphocyte (16.0), Liver, secretome (8.0), and Monocytes (7.2).
Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HIST1H2AD Gene
NURSA nuclear receptor signaling pathways regulating expression of HIST1H2AD Gene:
HIST1H2ADSOURCE GeneReport for Unigene cluster for HIST1H2AD Gene:
Hs.626666Evidence on tissue expression from TISSUES for HIST1H2AD Gene
- Lung(4.2)
Primer Products
-
OriGene qPCR primer pairs for HIST1H2AD
No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HIST1H2AD Gene
Orthologs for HIST1H2AD Gene
This gene was present in the common ancestor of chordates.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| cow (Bos Taurus) |
Mammalia | HIST1H2AD 35 |
|
OneToOne | |
| LOC100848734 34 |
|
||||
| chimpanzee (Pan troglodytes) |
Mammalia | HIST1H2AD 35 |
|
OneToOne | |
| mouse (Mus musculus) |
Mammalia | Hist1h2ad 35 |
|
ManyToMany | |
| Hist1h2ab 34 16 |
|
||||
| dog (Canis familiaris) |
Mammalia | -- 35 |
|
ManyToMany | |
| -- 35 |
|
ManyToMany | |||
| LOC100856200 34 |
|
||||
| platypus (Ornithorhynchus anatinus) |
Mammalia | -- 35 |
|
OneToMany | |
| -- 35 |
|
OneToMany | |||
| oppossum (Monodelphis domestica) |
Mammalia | -- 35 |
|
OneToMany | |
| rat (Rattus norvegicus) |
Mammalia | LOC100360754 34 |
|
||
| lizard (Anolis carolinensis) |
Reptilia | -- 35 |
|
ManyToMany | |
| -- 35 |
|
ManyToMany |
- Species where no ortholog for HIST1H2AD 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)
- 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)
- tropical clawed frog (Silurana tropicalis)
- wheat (Triticum aestivum)
- worm (Caenorhabditis elegans)
- zebrafish (Danio rerio)
Paralogs for HIST1H2AD Gene
Paralogs for HIST1H2AD Gene
(26) SIMAP similar genes for HIST1H2AD Gene using alignment to 1 proteins:
Variants for HIST1H2AD Gene
| SNP ID | Clin | Chr 06 pos | Sequence Context | AA Info | Type |
|---|---|---|---|---|---|
| rs1001285373 | -- | 26,200,351(+) | AATTT(A/C)GCTGG | downstream-variant-500B, upstream-variant-2KB | |
| rs1001612008 | -- | 26,200,208(+) | TTTCT(A/T)ATGTT | downstream-variant-500B, upstream-variant-2KB | |
| rs1003050974 | -- | 26,198,736(+) | AAACT(A/G)CAAAA | intron-variant, downstream-variant-500B, upstream-variant-2KB | |
| rs1005162636 | -- | 26,198,723(+) | AAATT(A/G)TTAAA | intron-variant, downstream-variant-500B, upstream-variant-2KB | |
| rs1006103571 | -- | 26,199,335(+) | AGGTC(A/G)AATTG | upstream-variant-2KB |
| 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 |
Residual Variation Intolerance Score:
23.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
0.26;
5.87% of all genes are more intolerant (likely to be disease-causing)
Relevant External Links for HIST1H2AD Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- HIST1H2AD
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HIST1H2AD Gene
Disorders for HIST1H2AD Gene
Relevant External Links for HIST1H2AD
- Atlas of Genetics and Cytogenetics in Oncology and Haematology:
- HIST1H2AD
No disorders were found for HIST1H2AD Gene.
No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for HIST1H2AD Gene
Publications for HIST1H2AD Gene
- The human and mouse replication-dependent histone genes. (PMID: 12408966) Marzluff W.F. … Maltais L.J. (Genomics 2002) 2 3 4 64
- Human histone gene organization: nonregular arrangement within a large cluster. (PMID: 9119399) Albig W. … Doenecke D. (Genomics 1997) 2 3 4 64
- Precise characterization of human histones in the H2A gene family by top down mass spectrometry. (PMID: 16457589) Boyne M.T. II … Kelleher N.L. (J. Proteome Res. 2006) 3 4 64
- 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
- Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes. (PMID: 25609649) Li X. … Chen J. (Mol. Syst. Biol. 2015) 3 64
Products for HIST1H2AD Gene
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- Mammalian expression: PiggyBac
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- Yeast expression
Sources for HIST1H2AD Gene
- (1) GeneCards
- (2) HGNC
- (3) EntrezGene
- (4) Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
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