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HMGB2 (high mobility group box 2)

Identity

Alias_namesHMG2
high-mobility group (nonhistone chromosomal) protein 2
high-mobility group box 2
Other alias
HGNC (Hugo) HMGB2
LocusID (NCBI) 3148
Atlas_Id 40835
Location 4q34.1  [Link to chromosome band 4q34]
Location_base_pair Starts at 173331376 and ends at 173334358 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
HMGB2 (4q34.1) / CAMK1D (10p13)HMGB2 (4q34.1) / EARS2 (16p12.2)HMGB2 (4q34.1) / MFAP1 (15q15.3)
HMGB2 (4q34.1) / PTMA (2q37.1)MINOS1-NBL1 (1p36.13) / HMGB2 (4q34.1)MTDH (8q22.1) / HMGB2 (4q34.1)
NARS2 (11q14.1) / HMGB2 (4q34.1)TRA2A (7p15.3) / HMGB2 (4q34.1)

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)HMGB2   5000
Cards
Entrez_Gene (NCBI)HMGB2  3148  high mobility group box 2
AliasesHMG2
GeneCards (Weizmann)HMGB2
Ensembl hg19 (Hinxton)ENSG00000164104 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000164104 [Gene_View]  chr4:173331376-173334358 [Contig_View]  HMGB2 [Vega]
ICGC DataPortalENSG00000164104
TCGA cBioPortalHMGB2
AceView (NCBI)HMGB2
Genatlas (Paris)HMGB2
WikiGenes3148
SOURCE (Princeton)HMGB2
Genetics Home Reference (NIH)HMGB2
Genomic and cartography
GoldenPath hg38 (UCSC)HMGB2  -     chr4:173331376-173334358 -  4q34.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HMGB2  -     4q34.1   [Description]    (hg19-Feb_2009)
EnsemblHMGB2 - 4q34.1 [CytoView hg19]  HMGB2 - 4q34.1 [CytoView hg38]
Mapping of homologs : NCBIHMGB2 [Mapview hg19]  HMGB2 [Mapview hg38]
OMIM163906   
Gene and transcription
Genbank (Entrez)AA576809 AK311864 AU129699 BC000903 BC001063
RefSeq transcript (Entrez)NM_001130688 NM_001130689 NM_002129
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HMGB2
Cluster EST : UnigeneHs.434953 [ NCBI ]
CGAP (NCI)Hs.434953
Alternative Splicing GalleryENSG00000164104
Gene ExpressionHMGB2 [ NCBI-GEO ]   HMGB2 [ EBI - ARRAY_EXPRESS ]   HMGB2 [ SEEK ]   HMGB2 [ MEM ]
Gene Expression Viewer (FireBrowse)HMGB2 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3148
GTEX Portal (Tissue expression)HMGB2
Protein : pattern, domain, 3D structure
UniProt/SwissProtP26583   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP26583  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP26583
Splice isoforms : SwissVarP26583
PhosPhoSitePlusP26583
Domaine pattern : Prosite (Expaxy)HMG_BOX_1 (PS00353)    HMG_BOX_2 (PS50118)   
Domains : Interpro (EBI)HMG_box_dom    HMG_boxA_CS   
Domain families : Pfam (Sanger)HMG_box (PF00505)    HMG_box_2 (PF09011)   
Domain families : Pfam (NCBI)pfam00505    pfam09011   
Domain families : Smart (EMBL)HMG (SM00398)  
Conserved Domain (NCBI)HMGB2
DMDM Disease mutations3148
Blocks (Seattle)HMGB2
SuperfamilyP26583
Human Protein AtlasENSG00000164104
Peptide AtlasP26583
HPRD01229
IPIIPI00219097   IPI00967671   
Protein Interaction databases
DIP (DOE-UCLA)P26583
IntAct (EBI)P26583
FunCoupENSG00000164104
BioGRIDHMGB2
STRING (EMBL)HMGB2
ZODIACHMGB2
Ontologies - Pathways
QuickGOP26583
Ontology : AmiGOfour-way junction DNA binding  nuclear chromatin  condensed chromosome  enhancer sequence-specific DNA binding  positive regulation of endothelial cell proliferation  inflammatory response to antigenic stimulus  DNA binding  damaged DNA binding  double-stranded DNA binding  single-stranded DNA binding  transcription factor activity, sequence-specific DNA binding  RNA binding  protein binding  extracellular space  cell  nucleus  nucleoplasm  nucleolus  cytoplasm  DNA topological change  apoptotic DNA fragmentation  chromatin organization  nucleosome assembly  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  spermatid nucleus differentiation  transcription factor binding  drug binding  DNA binding, bending  male gonad development  protein domain specific binding  positive regulation of nuclease activity  DNA geometric change  response to lipopolysaccharide  positive regulation of interferon-beta production  V(D)J recombination  chemoattractant activity  response to drug  protein complex  positive regulation of DNA binding  transcription regulatory region DNA binding  non-sequence-specific DNA binding, bending  innate immune response  positive regulation of innate immune response  positive regulation of erythrocyte differentiation  positive regulation of megakaryocyte differentiation  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  perinuclear region of cytoplasm  response to steroid hormone  regulation of neurogenesis  RAGE receptor binding  defense response to Gram-negative bacterium  defense response to Gram-positive bacterium  positive chemotaxis  DNA ligation involved in DNA repair  cell chemotaxis  cellular response to lipopolysaccharide  regulation of stem cell proliferation  supercoiled DNA binding  negative regulation of extrinsic apoptotic signaling pathway via death domain receptors  
Ontology : EGO-EBIfour-way junction DNA binding  nuclear chromatin  condensed chromosome  enhancer sequence-specific DNA binding  positive regulation of endothelial cell proliferation  inflammatory response to antigenic stimulus  DNA binding  damaged DNA binding  double-stranded DNA binding  single-stranded DNA binding  transcription factor activity, sequence-specific DNA binding  RNA binding  protein binding  extracellular space  cell  nucleus  nucleoplasm  nucleolus  cytoplasm  DNA topological change  apoptotic DNA fragmentation  chromatin organization  nucleosome assembly  transcription, DNA-templated  regulation of transcription from RNA polymerase II promoter  spermatid nucleus differentiation  transcription factor binding  drug binding  DNA binding, bending  male gonad development  protein domain specific binding  positive regulation of nuclease activity  DNA geometric change  response to lipopolysaccharide  positive regulation of interferon-beta production  V(D)J recombination  chemoattractant activity  response to drug  protein complex  positive regulation of DNA binding  transcription regulatory region DNA binding  non-sequence-specific DNA binding, bending  innate immune response  positive regulation of innate immune response  positive regulation of erythrocyte differentiation  positive regulation of megakaryocyte differentiation  negative regulation of transcription, DNA-templated  positive regulation of transcription, DNA-templated  positive regulation of transcription from RNA polymerase II promoter  perinuclear region of cytoplasm  response to steroid hormone  regulation of neurogenesis  RAGE receptor binding  defense response to Gram-negative bacterium  defense response to Gram-positive bacterium  positive chemotaxis  DNA ligation involved in DNA repair  cell chemotaxis  cellular response to lipopolysaccharide  regulation of stem cell proliferation  supercoiled DNA binding  negative regulation of extrinsic apoptotic signaling pathway via death domain receptors  
Pathways : BIOCARTAApoptotic DNA fragmentation and tissue homeostasis [Genes]    Granzyme A mediated Apoptosis Pathway [Genes]   
NDEx NetworkHMGB2
Atlas of Cancer Signalling NetworkHMGB2
Wikipedia pathwaysHMGB2
Orthology - Evolution
OrthoDB3148
GeneTree (enSembl)ENSG00000164104
Phylogenetic Trees/Animal Genes : TreeFamHMGB2
HOVERGENP26583
HOGENOMP26583
Homologs : HomoloGeneHMGB2
Homology/Alignments : Family Browser (UCSC)HMGB2
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHMGB2 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HMGB2
dbVarHMGB2
ClinVarHMGB2
1000_GenomesHMGB2 
Exome Variant ServerHMGB2
ExAC (Exome Aggregation Consortium)HMGB2 (select the gene name)
Genetic variants : HAPMAP3148
Genomic Variants (DGV)HMGB2 [DGVbeta]
DECIPHERHMGB2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHMGB2 
Mutations
ICGC Data PortalHMGB2 
TCGA Data PortalHMGB2 
Broad Tumor PortalHMGB2
OASIS PortalHMGB2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHMGB2  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHMGB2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch HMGB2
DgiDB (Drug Gene Interaction Database)HMGB2
DoCM (Curated mutations)HMGB2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HMGB2 (select a term)
intoGenHMGB2
Cancer3DHMGB2(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM163906   
Orphanet
MedgenHMGB2
Genetic Testing Registry HMGB2
NextProtP26583 [Medical]
TSGene3148
GENETestsHMGB2
Target ValidationHMGB2
Huge Navigator HMGB2 [HugePedia]
snp3D : Map Gene to Disease3148
BioCentury BCIQHMGB2
ClinGenHMGB2
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD3148
Chemical/Pharm GKB GenePA35091
Clinical trialHMGB2
Miscellaneous
canSAR (ICR)HMGB2 (select the gene name)
Probes
Litterature
PubMed83 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHMGB2
EVEXHMGB2
GoPubMedHMGB2
iHOPHMGB2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Mon Sep 25 19:11:50 CEST 2017

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