Atlas of Genetics and Cytogenetics in Oncology and Haematology


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H3F3A (H3 histone family member 3A)

Identity

Alias_namesH3F3
H3 histone
Alias_symbol (synonym)H3.3A
Other alias
HGNC (Hugo) H3F3A
LocusID (NCBI) 3020
Atlas_Id 53228
Location 1q42.12  [Link to chromosome band 1q42]
Location_base_pair Starts at 226062707 and ends at 226072002 bp from pter ( according to hg38-Dec_2013)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)H3F3A   4764
Cards
Entrez_Gene (NCBI)H3F3A  3020  H3 histone family member 3A
AliasesH3.3A; H3F3
GeneCards (Weizmann)H3F3A
Ensembl hg19 (Hinxton)ENSG00000163041 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000163041 [Gene_View]  chr1:226062707-226072002 [Contig_View]  H3F3A [Vega]
ICGC DataPortalENSG00000163041
TCGA cBioPortalH3F3A
AceView (NCBI)H3F3A
Genatlas (Paris)H3F3A
WikiGenes3020
SOURCE (Princeton)H3F3A
Genetics Home Reference (NIH)H3F3A
Genomic and cartography
GoldenPath hg38 (UCSC)H3F3A  -     chr1:226062707-226072002 +  1q42.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)H3F3A  -     1q42.12   [Description]    (hg19-Feb_2009)
EnsemblH3F3A - 1q42.12 [CytoView hg19]  H3F3A - 1q42.12 [CytoView hg38]
Mapping of homologs : NCBIH3F3A [Mapview hg19]  H3F3A [Mapview hg38]
OMIM601128   
Gene and transcription
Genbank (Entrez)AK293541 AK311905 BC013857 BC029405 BC038989
RefSeq transcript (Entrez)NM_002107
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)H3F3A
Cluster EST : UnigeneHs.726012 [ NCBI ]
CGAP (NCI)Hs.726012
Alternative Splicing GalleryENSG00000163041
Gene ExpressionH3F3A [ NCBI-GEO ]   H3F3A [ EBI - ARRAY_EXPRESS ]   H3F3A [ SEEK ]   H3F3A [ MEM ]
Gene Expression Viewer (FireBrowse)H3F3A [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3020
GTEX Portal (Tissue expression)H3F3A
Protein : pattern, domain, 3D structure
UniProt/SwissProtP84243   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP84243  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP84243
Splice isoforms : SwissVarP84243
PhosPhoSitePlusP84243
Domaine pattern : Prosite (Expaxy)HISTONE_H3_1 (PS00322)    HISTONE_H3_2 (PS00959)   
Domains : Interpro (EBI)Histone-fold    Histone_H2A/H2B/H3    Histone_H3/CENP-A   
Domain families : Pfam (Sanger)Histone (PF00125)   
Domain families : Pfam (NCBI)pfam00125   
Domain families : Smart (EMBL)H3 (SM00428)  
Conserved Domain (NCBI)H3F3A
DMDM Disease mutations3020
Blocks (Seattle)H3F3A
PDB (SRS)2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
PDB (PDBSum)2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
PDB (IMB)2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
PDB (RSDB)2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
Structural Biology KnowledgeBase2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
SCOP (Structural Classification of Proteins)2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
CATH (Classification of proteins structures)2L43    3ASK    3ASL    3AV2    3JVK    3MUK    3MUL    3QL9    3QLA    3QLC    3WTP    4GNE    4GNF    4GNG    4GU0    4GUR    4GUS    4GY5    4H9N    4H9O    4H9P    4H9Q    4H9R    4H9S    4HGA    4L58    4N4I    4O62    4QQ4    4TMP    4U7T    4W5A    5AY8    5B32    5B33    5BNV    5BNX    5DWQ    5DX0    5JA4    5JJY    5JLB    5KDM   
SuperfamilyP84243
Human Protein AtlasENSG00000163041
Peptide AtlasP84243
HPRD03082
IPIIPI00219038   IPI00909530   IPI00477080   
Protein Interaction databases
DIP (DOE-UCLA)P84243
IntAct (EBI)P84243
FunCoupENSG00000163041
BioGRIDH3F3A
STRING (EMBL)H3F3A
ZODIACH3F3A
Ontologies - Pathways
QuickGOP84243
Ontology : AmiGOchromatin silencing at rDNA  nuclear chromosome  nuclear chromosome, telomeric region  nucleosome  nuclear nucleosome  RNA polymerase II core promoter sequence-specific DNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding  osteoblast differentiation  Barr body  protein binding  extracellular region  nucleus  nucleoplasm  nucleosome assembly  nucleosome assembly  DNA replication-independent nucleosome assembly  nucleus organization  spermatid development  single fertilization  brain development  embryo implantation  blood coagulation  cell proliferation  male gonad development  response to hormone  positive regulation of cell growth  gene silencing by RNA  nucleosomal DNA binding  pericentric heterochromatin assembly  telomeric heterochromatin assembly  telomere organization  multicellular organism growth  histone binding  muscle cell differentiation  protein complex  cellular protein metabolic process  negative regulation of gene expression, epigenetic  positive regulation of gene expression, epigenetic  protein heterodimerization activity  oogenesis  extracellular exosome  regulation of centromere complex assembly  negative regulation of chromosome condensation  
Ontology : EGO-EBIchromatin silencing at rDNA  nuclear chromosome  nuclear chromosome, telomeric region  nucleosome  nuclear nucleosome  RNA polymerase II core promoter sequence-specific DNA binding  RNA polymerase II distal enhancer sequence-specific DNA binding  osteoblast differentiation  Barr body  protein binding  extracellular region  nucleus  nucleoplasm  nucleosome assembly  nucleosome assembly  DNA replication-independent nucleosome assembly  nucleus organization  spermatid development  single fertilization  brain development  embryo implantation  blood coagulation  cell proliferation  male gonad development  response to hormone  positive regulation of cell growth  gene silencing by RNA  nucleosomal DNA binding  pericentric heterochromatin assembly  telomeric heterochromatin assembly  telomere organization  multicellular organism growth  histone binding  muscle cell differentiation  protein complex  cellular protein metabolic process  negative regulation of gene expression, epigenetic  positive regulation of gene expression, epigenetic  protein heterodimerization activity  oogenesis  extracellular exosome  regulation of centromere complex assembly  negative regulation of chromosome condensation  
Pathways : KEGGAlcoholism    Transcriptional misregulation in cancer    Systemic lupus erythematosus   
NDEx NetworkH3F3A
Atlas of Cancer Signalling NetworkH3F3A
Wikipedia pathwaysH3F3A
Orthology - Evolution
OrthoDB3020
GeneTree (enSembl)ENSG00000163041
Phylogenetic Trees/Animal Genes : TreeFamH3F3A
HOVERGENP84243
HOGENOMP84243
Homologs : HomoloGeneH3F3A
Homology/Alignments : Family Browser (UCSC)H3F3A
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerH3F3A [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)H3F3A
dbVarH3F3A
ClinVarH3F3A
1000_GenomesH3F3A 
Exome Variant ServerH3F3A
ExAC (Exome Aggregation Consortium)H3F3A (select the gene name)
Genetic variants : HAPMAP3020
Genomic Variants (DGV)H3F3A [DGVbeta]
DECIPHERH3F3A [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisH3F3A 
Mutations
ICGC Data PortalH3F3A 
TCGA Data PortalH3F3A 
Broad Tumor PortalH3F3A
OASIS PortalH3F3A [ Somatic mutations - Copy number]
Cancer Gene: CensusH3F3A 
Somatic Mutations in Cancer : COSMICH3F3A  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDH3F3A
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch H3F3A
DgiDB (Drug Gene Interaction Database)H3F3A
DoCM (Curated mutations)H3F3A (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)H3F3A (select a term)
intoGenH3F3A
Cancer3DH3F3A(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601128   
Orphanet
MedgenH3F3A
Genetic Testing Registry H3F3A
NextProtP84243 [Medical]
TSGene3020
GENETestsH3F3A
Target ValidationH3F3A
Huge Navigator H3F3A [HugePedia]
snp3D : Map Gene to Disease3020
BioCentury BCIQH3F3A
ClinGenH3F3A
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3020
Chemical/Pharm GKB GenePA29139
Clinical trialH3F3A
Miscellaneous
canSAR (ICR)H3F3A (select the gene name)
Probes
Litterature
PubMed137 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineH3F3A
EVEXH3F3A
GoPubMedH3F3A
iHOPH3F3A
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Jun 7 12:36:19 CEST 2017

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