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HMG20B (high mobility group 20B)

Identity

Alias_nameshigh-mobility group 20B
Alias_symbol (synonym)SOXL
HMGX2
BRAF35
SMARCE1r
BRAF25
HMGXB2
Other aliasPP7706
pp8857
HGNC (Hugo) HMG20B
LocusID (NCBI) 10362
Atlas_Id 40833
Location 19p13.3  [Link to chromosome band 19p13]
Location_base_pair Starts at 3572945 and ends at 3579083 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
HIST1H2AJ (6p22.1) / HMG20B (19p13.3)NBPF9 (1q21.1) / HMG20B (19p13.3)

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)HMG20B   5002
Cards
Entrez_Gene (NCBI)HMG20B  10362  high mobility group 20B
AliasesBRAF25; BRAF35; HMGX2; HMGXB2; 
PP7706; SMARCE1r; SOXL; pp8857
GeneCards (Weizmann)HMG20B
Ensembl hg19 (Hinxton)ENSG00000064961 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000064961 [Gene_View]  chr19:3572945-3579083 [Contig_View]  HMG20B [Vega]
ICGC DataPortalENSG00000064961
TCGA cBioPortalHMG20B
AceView (NCBI)HMG20B
Genatlas (Paris)HMG20B
WikiGenes10362
SOURCE (Princeton)HMG20B
Genetics Home Reference (NIH)HMG20B
Genomic and cartography
GoldenPath hg38 (UCSC)HMG20B  -     chr19:3572945-3579083 +  19p13.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HMG20B  -     19p13.3   [Description]    (hg19-Feb_2009)
EnsemblHMG20B - 19p13.3 [CytoView hg19]  HMG20B - 19p13.3 [CytoView hg38]
Mapping of homologs : NCBIHMG20B [Mapview hg19]  HMG20B [Mapview hg38]
OMIM605535   
Gene and transcription
Genbank (Entrez)AF072165 AF072836 AF146223 AF288679 AF318366
RefSeq transcript (Entrez)NM_006339
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HMG20B
Cluster EST : UnigeneHs.406534 [ NCBI ]
CGAP (NCI)Hs.406534
Alternative Splicing GalleryENSG00000064961
Gene ExpressionHMG20B [ NCBI-GEO ]   HMG20B [ EBI - ARRAY_EXPRESS ]   HMG20B [ SEEK ]   HMG20B [ MEM ]
Gene Expression Viewer (FireBrowse)HMG20B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10362
GTEX Portal (Tissue expression)HMG20B
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9P0W2   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9P0W2  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9P0W2
Splice isoforms : SwissVarQ9P0W2
PhosPhoSitePlusQ9P0W2
Domaine pattern : Prosite (Expaxy)HMG_BOX_2 (PS50118)   
Domains : Interpro (EBI)HMG_box_dom   
Domain families : Pfam (Sanger)HMG_box (PF00505)   
Domain families : Pfam (NCBI)pfam00505   
Domain families : Smart (EMBL)HMG (SM00398)  
Conserved Domain (NCBI)HMG20B
DMDM Disease mutations10362
Blocks (Seattle)HMG20B
SuperfamilyQ9P0W2
Human Protein AtlasENSG00000064961
Peptide AtlasQ9P0W2
HPRD05703
IPIIPI00464951   IPI00478316   IPI00929221   IPI00007339   IPI00383284   IPI00979446   IPI00877739   IPI00878211   IPI00878034   IPI00878513   IPI00878364   
Protein Interaction databases
DIP (DOE-UCLA)Q9P0W2
IntAct (EBI)Q9P0W2
FunCoupENSG00000064961
BioGRIDHMG20B
STRING (EMBL)HMG20B
ZODIACHMG20B
Ontologies - Pathways
QuickGOQ9P0W2
Ontology : AmiGODNA binding  histone deacetylase activity  protein binding  nucleoplasm  nucleoplasm  chromosome  transcription, DNA-templated  regulation of transcription, DNA-templated  cell cycle  blood coagulation  histone deacetylation  nuclear body  negative regulation of protein sumoylation  skeletal muscle cell differentiation  positive regulation of neuron differentiation  protein heterodimerization activity  
Ontology : EGO-EBIDNA binding  histone deacetylase activity  protein binding  nucleoplasm  nucleoplasm  chromosome  transcription, DNA-templated  regulation of transcription, DNA-templated  cell cycle  blood coagulation  histone deacetylation  nuclear body  negative regulation of protein sumoylation  skeletal muscle cell differentiation  positive regulation of neuron differentiation  protein heterodimerization activity  
NDEx NetworkHMG20B
Atlas of Cancer Signalling NetworkHMG20B
Wikipedia pathwaysHMG20B
Orthology - Evolution
OrthoDB10362
GeneTree (enSembl)ENSG00000064961
Phylogenetic Trees/Animal Genes : TreeFamHMG20B
HOVERGENQ9P0W2
HOGENOMQ9P0W2
Homologs : HomoloGeneHMG20B
Homology/Alignments : Family Browser (UCSC)HMG20B
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHMG20B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HMG20B
dbVarHMG20B
ClinVarHMG20B
1000_GenomesHMG20B 
Exome Variant ServerHMG20B
ExAC (Exome Aggregation Consortium)HMG20B (select the gene name)
Genetic variants : HAPMAP10362
Genomic Variants (DGV)HMG20B [DGVbeta]
DECIPHERHMG20B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHMG20B 
Mutations
ICGC Data PortalHMG20B 
TCGA Data PortalHMG20B 
Broad Tumor PortalHMG20B
OASIS PortalHMG20B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHMG20B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHMG20B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch HMG20B
DgiDB (Drug Gene Interaction Database)HMG20B
DoCM (Curated mutations)HMG20B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HMG20B (select a term)
intoGenHMG20B
Cancer3DHMG20B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM605535   
Orphanet
MedgenHMG20B
Genetic Testing Registry HMG20B
NextProtQ9P0W2 [Medical]
TSGene10362
GENETestsHMG20B
Target ValidationHMG20B
Huge Navigator HMG20B [HugePedia]
snp3D : Map Gene to Disease10362
BioCentury BCIQHMG20B
ClinGenHMG20B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10362
Chemical/Pharm GKB GenePA29332
Clinical trialHMG20B
Miscellaneous
canSAR (ICR)HMG20B (select the gene name)
Probes
Litterature
PubMed35 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHMG20B
EVEXHMG20B
GoPubMedHMG20B
iHOPHMG20B
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 12:37:04 CEST 2017

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