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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

H2BFM Gene

protein-coding   GIFtS: 41
GCID: GC0XP103268

H2B Histone Family, Member M

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
H2B Histone Family, Member M1 2
Histone H2B.S2 3
H2B/s2 3
Histone H2B Type F-M2

External Ids:    HGNC: 278671   Entrez Gene: 2864362   Ensembl: ENSG000001018127   UniProtKB: P0C1H63   

Export aliases for H2BFM gene to outside databases

Previous GC identifers: GC0XP103098 GC0XP103177 GC0XP092950


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for H2BFM Gene: 
H2BFM (H2B histone family, member M) is a protein-coding gene. Diseases associated with H2BFM include systemic lupus erythematosus, and lupus erythematosus, and among its related super-pathways are Systemic lupus erythematosus. GO annotations related to this gene include DNA binding and protein heterodimerization activity. An important paralog of this gene is HIST1H2BA.

UniProtKB/Swiss-Prot: H2BFM_HUMAN, P0C1H6
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




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000023.10  NC_018934.2  NT_011651.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the H2BFM gene promoter:
         MEF-2A   MEF-2   AP-4   aMEF-2   GATA-1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for H2BFM

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat H2BFM


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: Xq22.2   Ensembl cytogenetic band:  Xq22.2   HGNC cytogenetic band: Xq22.2

H2BFM Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
H2BFM gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XP103268:  view genomic region     (about GC identifiers)

Start:
103,268,269 bp from pter      End:
103,297,021 bp from pter
Size:
28,753 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: H2BFM_HUMAN, P0C1H6 (See protein sequence)
Recommended Name: Histone H2B type F-M  
Size: 257 amino acids; 28267 Da
Subunit: 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
Subcellular location: Nucleus. Chromosome
Miscellaneous: In contrast to other H2B histones, it does not contain the conserved residue in C-terminus that is
the target of monoubiquitination
Secondary accessions: A6NP82

Explore the universe of human proteins at neXtProt for H2BFM: NX_P0C1H6

Explore proteomics data for H2BFM at MOPED 

H2BFM Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

H2BFM Protein Expression

REFSEQ proteins: NP_001157888.1  
ENSEMBL proteins: 
 ENSP00000347119   ENSP00000402466   ENSP00000243297  

Human Recombinant Protein Products for H2BFM: 
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Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0000786nucleosome IEA--
GO:0005622intracellular ----
GO:0005634nucleus IDA--
GO:0005730NOT nucleolus IDA--

H2BFM for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
HGNC Gene Families: 
RIH: Histones / Replication-independent

3 InterPro protein domains:
 IPR009072 Histone-fold
 IPR000558 Histone_H2B
 IPR007125 Histone_core_D

Graphical View of Domain Structure for InterPro Entry P0C1H6

ProtoNet protein and cluster: P0C1H6

UniProtKB/Swiss-Prot: H2BFM_HUMAN, P0C1H6
Similarity: Belongs to the histone H2B family


H2BFM for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Molecular Function:

     UniProtKB/Swiss-Prot Summary: H2BFM_HUMAN, P0C1H6
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

     Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003677DNA binding IEA--
GO:0043565sequence-specific DNA binding ----
GO:0046982protein heterodimerization activity IEA--
     
H2BFM for ontologies           About GeneDecksing


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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
About This Section

SuperPaths for H2BFM About                                                                                                See pathways by source

SuperPathContained pathways About
1Alcoholism
Alcoholism0.34
Systemic lupus erythematosus0.34
2Viral carcinogenesis
Viral carcinogenesis

Pathways by source                                                                                                                                                                 See SuperPaths
Show all pathways



3         Kegg Pathways  (Kegg details for H2BFM):
    Alcoholism
Viral carcinogenesis
Systemic lupus erythematosus


H2BFM for pathways           About GeneDecksing

Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for H2BFM

STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

1 Interacting protein for H2BFM (ENSP000002432974) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
MGMTENSP000003021114STRING: ENSP00000302111
About this table

Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006334nucleosome assembly IEA--

H2BFM for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for H2BFM

Search CenterWatch for drugs/clinical trials and news about H2BFM

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for H2BFM gene: 
NM_001164416.1  

Unigene Cluster for H2BFM:

H2B histone family, member M
Hs.376474  [show with all ESTs]
Unigene Representative Sequence: NM_001164416
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000355016(uc004els.2) ENST00000417637 ENST00000243297
miRNA
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                     Customized lentivirus expression plasmids for stable overexpression of H2BFM 
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Additional mRNA sequence: AK093522.1 

1 DOTS entry:

DT.99998582 

4 AceView cDNA sequences:

AI018051 AX748182 AK093522 AI827900 

GeneLoc Exon Structure


(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

H2BFM expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: AAACAAAAGC
H2BFM Expression
About this image


See H2BFM Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for H2BFM

SOURCE GeneReport for Unigene cluster: Hs.376474
    SABiosciences Custom PCR Arrays for H2BFM
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for H2BFM

(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

This gene was present in the common ancestor of animals and fungi.

Orthologs for H2BFM gene from 5/9 species (see all 9)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia H2bfm1 , 5 RIKEN cDNA 1700014N06 gene5
H2B histone family, member M1
53.99(n)1
46.28(a)1
  X (59.10 cM)5
693891  NM_027067.21  NP_081343.11 
 1369273255 
chicken
(Gallus gallus)
Aves --
Histone H2B
36(a)
possible ortholog
2(142049-143378)
zebrafish
(Danio rerio)
Actinopterygii si:ch211-190p8.26
zgc:925916
zgc:92591
40(a)
40(a)
possible ortholog
possible ortholog
24(35333778-35336191)
24(35479785-35482169)
fruit fly
(Drosophila melanogaster)
Insecta His2B:CG339106
His2B:CG338706
(see all 9)
His2B:CG33870
(see all 9)
39(a)
39(a)
(see all 9)
many ↔ many
many ↔ many
(see all 9)
2L(21418259-21418843)
2L(21532638-21533192)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes HTB16
HTB26
Histone H2B, core histone protein required for chr...
Histone H2B, core histone protein required for chr...
33(a)
33(a)
many ↔ many
many ↔ many
IV(914317-914712)
II(236492-236887)


ENSEMBL Gene Tree for H2BFM (if available)
TreeFam Gene Tree for H2BFM (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for H2BFM gene
HIST1H2BA2  H2BFWT2  
18/21 SIMAP similar genes for H2BFM using alignment to 2 protein entries:     H2BFM_HUMAN (see all proteins) (see all similar genes):
ABCF2    HIST2H2BF    HIST1H2BL    HIST1H2BA    HIST1H2BB    HIST1H2BC
HIST1H2BD    HIST1H2BE    HIST1H2BF    HIST1H2BG    HIST1H2BI    HIST1H2BJ
HIST1H2BK    HIST1H2BM    HIST1H2BN    HIST2H2BE    HIST3H2BB    HIST1H2BH

H2BFM for paralogs           About GeneDecksing


1 Pseudogenes.org Pseudogene for H2BFM
PGOHUM00000241933


(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

10/72 SNPs in H2BFM are shown (see all 72)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr X posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
VAR_0493144
----see VAR_0493142 R H mis40--------
rs1824236001,2
--103292722(+) TAGTTG/TTTTTA 1 -- us2k10--------
rs1891428161,2
--103292884(+) TCCCCA/TAAAGC 1 -- us2k10--------
rs1399249651,2
--103292980(+) GTCGTG/TTTGAC 1 -- us2k10--------
rs1496840611,2
--103292990(+) CCAATC/GAGAGA 1 -- us2k10--------
rs1908333871,2
--103293234(+) CCAGAA/GGTAGG 1 -- us2k10--------
rs1830281521,2
--103293322(+) AATAAA/CAAGTG 1 -- us2k10--------
rs1873603421,2
--103293354(+) TTCTCC/TTCAAT 1 -- us2k10--------
rs1918970071,2
--103293678(+) TTCTGC/GACTGT 1 -- us2k10--------
rs1455267781,2
C--103294112(+) GTTTCC/TCACAC 1 -- us2k10--------

HapMap Linkage Disequilibrium report for H2BFM (103268269 - 103297021 bp)

Structural Variations
     Database of Genomic Variants (DGV) 10 variations for H2BFM:    About this table     
Variant IDTypeSubtypePubMed ID
nsv508787CNV Insertion20534489
esv22275CNV Gain19812545
nsv519626CNV Gain19592680
dgv2459e1CNV Complex17122850
nsv469772CNV Complex16826518
dgv2460e1CNV Complex17122850
dgv63n47OTHER Inversion21111241
dgv5n1OTHER Inversion15895083
esv1007027OTHER Inversion20482838
nsv7453OTHER Inversion18451855

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
2 diseases for H2BFM:    About MalaCards
systemic lupus erythematosus    lupus erythematosus


H2BFM for disorders           About GeneDecksing


Export disorders for H2BFM gene to outside databases

(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 H2BFM gene integrated from 9 sources:
(articles sorted by number of sources associating them with H2BFM)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
  3. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
  4. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
  5. Proteomic analysis of human O6-methylguanine-DNA methyltransferase by affinity chromatography and tandem mass spectrometry. (PubMed id 16226712)1 Niture S.K....Srivenugopal K.S. (2005)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 286436 HGNC: 27867 AceView: LOC286436 Ensembl:ENSG00000101812 euGenes: HUgn286436
ECgene: H2BFM Kegg: 286436 H-InvDB: H2BFM

(According to HUGE)
About This Section
  --

(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
NameDescription
PharmGKB entry for H2BFM Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for H2BFM gene:
Search GeneIP for patents involving H2BFM

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(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, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, 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, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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transforming growth factor, beta 1
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