HIST2H2BD Gene
pseudogene GIFtS: 20
GCID: GC01P149814
|
|
histone cluster 2, H2bd (pseudogene)(Previous names: histone 2, H2bd, H2B histone family, member O )
(Previous symbol: H2BFO)
| |
Aliases
for HIST2H2BD gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA
Quality score for the ORGUL clustered with this gene is 3
| Aliases |
|---|
| Histone Cluster 2, H2bd (Pseudogene)1 2 | | H2B/O1 | | H2B/S1 | | H2BFO1 2 | | H2B Histone Family, Member O1 | | Histone 2, H2bd1 |
| External Ids: | HGNC: 205171 | Entrez Gene: 3378742 | Ensembl: ENSG000002038197 | UniProtKB: Q6DRA63 | | ORGUL members: | |
|---|
| NONCODE:n410024 | |
Export aliases for HIST2H2BD gene to outside databasesPrevious GC identifers: GC01U900037 GC01P148081 GC01M121204
|---|
Summaries
for HIST2H2BD gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6Function: Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility tothe cellular machineries which require DNA as a template. Histones thereby play a central role in transcriptionregulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set ofpost-translational modifications of histones, also called histone code, and nucleosome remodeling
|
Genomic Views
for HIST2H2BD gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for HIST2H2BD
Other transcription factors
Search SABiosciences Chromatin IP Primers for HIST2H2BD
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HIST2H2BD |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1q21.2 Ensembl cytogenetic band: 1q21.2 HGNC cytogenetic band: 1q21.2HIST2H2BD Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01P149814: view genomic region
(about GC identifiers)
Start:
|
149,814,606 bp from pter |
End:
|
149,815,100 bp from pter |
Size:
|
495 bases |
Orientation:
|
plus strand |
1 alternative location:
| Chr1- 149,821,966-149,822,340 |
|
Proteins
for HIST2H2BD gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6 (See
protein sequence)Recommended Name: Putative histone H2B type 2-D Size: 164 amino acids; 18018 Da
Subunit: The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in oneH3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA
Subcellular location: Nucleus. Chromosome
Miscellaneous: The mouse orthologous protein seems not to exist
Caution: Could be the product of a pseudogene. In contrast to other H2B histones, it does not contain the conservedresidue in C-terminus that is the target of monoubiquitinationExplore the universe of human proteins at neXtProt for HIST2H2BD: NX_Q6DRA6
Post-translational modifications:
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 somatichypermutation and immunoglobulin class-switch recombination1
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 activepromoters and enhancers and confers resistance to transcriptional repressors. It is also associated withpost-meiotically activated genes on autosomes1
View neXtProt modification sites for NX_Q6DRA6
HIST2H2BD Protein expression data from MOPED and PaxDb: --
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
HIST2H2BD for ontologies About GeneDecksing
HIST2H2BD Antibody Products:
Assay Products for HIST2H2BD: |
Protein
Domains /
Families
for HIST2H2BD gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
HIST2H2BD for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6DRA6ProtoNet protein and cluster: Q6DRA6 UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6Similarity: Belongs to the histone H2B family |
Function
for HIST2H2BD gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: H2B2D_HUMAN, Q6DRA6Function: Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility tothe cellular machineries which require DNA as a template. Histones thereby play a central role in transcriptionregulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set ofpost-translational modifications of histones, also called histone code, and nucleosome remodeling
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003677 | DNA binding |
IEA | -- | | GO:0046982 | protein heterodimerization activity |
IEA | -- |
HIST2H2BD for ontologies About GeneDecksing
|
Pathways & Interactions
for HIST2H2BD gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for HIST2H2BD
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006334 | nucleosome assembly |
IEA | -- |
HIST2H2BD for ontologies About GeneDecksing
|
Drugs & Compounds
for HIST2H2BD gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for HIST2H2BD
Search CenterWatch for drugs/clinical trials and news about HIST2H2BD 
|
Transcripts
for HIST2H2BD gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
1 Ensembl transcript including schematic representation, and UCSC links where relevant: ENST00000498492(uc021oxz.1)
GeneLoc Exon Structure
|
Expression
for HIST2H2BD gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| HIST2H2BD expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image SABiosciences Custom PCR Arrays for HIST2H2BD
Primer
Products: |  | Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat HIST2H2BD | | | Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat HIST2H2BD | | | Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HIST2H2BD |
Orthologs
for HIST2H2BD gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
--
ENSEMBL Gene Tree for HIST2H2BD (if available)
TreeFam Gene Tree for HIST2H2BD (if available) |
Paralogs
for HIST2H2BD gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for HIST2H2BD gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
| | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for HIST2H2BD gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
| -- |
Publications
for HIST2H2BD gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for HIST2H2BD gene integrated from 9 sources:
(articles sorted by number of sources associating them with HIST2H2BD) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Functional characterization of a human histone gene cluster duplication. (PubMed id 15527963)1, 2, 3 Braastad C.D....Stein G.S. (2004)
- The human and mouse replication-dependent histone genes. (PubMed id 12408966)1, 2, 3 Marzluff W.F....Maltais L.J. (2002)
- Inhibition of core histones acetylation by carcinogenic nickel(II). (PubMed id 16283522)1, 2 Golebiowski F. and Kasprzak K.S. (2005)
- Apoptotic phosphorylation of histone H2B is mediated by mammalian sterile twenty kinase. (PubMed id 12757711)1, 2 Cheung W.L.... Allis C.D. (2003)
- Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification. (PubMed id 21925322)2 Tan M.... Zhao Y. (2011)
- Birth-and-death long-term evolution promotes histone H2B variant diversification in the male germinal cell line. (PubMed id 20194426)1 GonzA!lez-Romero R....EirA-n-LA^pez J.M. (2010)
- Substrate and functional diversity of lysine acetylation revealed by a proteomics survey. (PubMed id 16916647)1 Kim S.C.... Zhao Y. (2006)
- Evidence for a human histone gene cluster containing H2B and H2A pseudogenes. (PubMed id 6326092)1 Marashi F....Stein G. (1984)
|
External Searches for HIST2H2BD gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing HIST2H2BD gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing HIST2H2BD gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing HIST2H2BD gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for HIST2H2BD | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for HIST2H2BD gene:
Search GeneIP for patents involving HIST2H2BD
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for HIST2H2BD gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 |
| | | | |
 |
 |
|  | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat HIST2H2BD | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing HIST2H2BD | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat HIST2H2BD | | | Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat HIST2H2BD | | | Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat HIST2H2BD | | | Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat HIST2H2BD |
| |
 |  |  |  | |
| | | |  |  |  |  | | | | |
 |
 |
 |
 | | | HIST2H2BD Proteins, Antibodies, CLIAs, and ELISAs |
| | | |  |  |  | | | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat HIST2H2BD |
|
|
|
|
GeneCards Homepage -
Last full update: 19 Mar 2013 -
Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013
View Random Gene
|
Category
|
|
|
von Willebrand factor
|
| GIFtS Group |
|
Developed at the Crown Human Genome Center,
Department of Molecular Genetics,
the Weizmann Institute of Science
Copyright © 1996-2013
, Weizmann Institute of Science. All Rights Reserved.
hostname: 356980-web2.xennexinc.com
index build: 100 solr: 1.4
|
