Atlas of Genetics and Cytogenetics in Oncology and Haematology


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HMGXB4 (HMG-box containing 4)

Identity

Alias_namesHMG2L1
high-mobility group protein 2-like 1
HMG box domain containing 4
Alias_symbol (synonym)THC211630
Other aliasHMGBCG
HGNC (Hugo) HMGXB4
LocusID (NCBI) 10042
Atlas_Id 47370
Location 22q12.3  [Link to chromosome band 22q12]
Location_base_pair Starts at 35257452 and ends at 35295807 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ANKHD1 (5q31.3) / HMGXB4 (22q12.3)RAB11FIP2 (10q26.11) / HMGXB4 (22q12.3)TOM1 (22q12.3) / HMGXB4 (22q12.3)
TOM1 22q12.3 / HMGXB4 22q12.3

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)HMGXB4   5003
Cards
Entrez_Gene (NCBI)HMGXB4  10042  HMG-box containing 4
AliasesHMG2L1; HMGBCG; THC211630
GeneCards (Weizmann)HMGXB4
Ensembl hg19 (Hinxton)ENSG00000100281 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000100281 [Gene_View]  chr22:35257452-35295807 [Contig_View]  HMGXB4 [Vega]
ICGC DataPortalENSG00000100281
TCGA cBioPortalHMGXB4
AceView (NCBI)HMGXB4
Genatlas (Paris)HMGXB4
WikiGenes10042
SOURCE (Princeton)HMGXB4
Genetics Home Reference (NIH)HMGXB4
Genomic and cartography
GoldenPath hg38 (UCSC)HMGXB4  -     chr22:35257452-35295807 +  22q12.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HMGXB4  -     22q12.3   [Description]    (hg19-Feb_2009)
EnsemblHMGXB4 - 22q12.3 [CytoView hg19]  HMGXB4 - 22q12.3 [CytoView hg38]
Mapping of homologs : NCBIHMGXB4 [Mapview hg19]  HMGXB4 [Mapview hg38]
OMIM604702   
Gene and transcription
Genbank (Entrez)AI471703 AJ010069 AJ010070 AK299833 AL079310
RefSeq transcript (Entrez)NM_001003681 NM_005487 NM_014250
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HMGXB4
Cluster EST : UnigeneHs.588815 [ NCBI ]
CGAP (NCI)Hs.588815
Alternative Splicing GalleryENSG00000100281
Gene ExpressionHMGXB4 [ NCBI-GEO ]   HMGXB4 [ EBI - ARRAY_EXPRESS ]   HMGXB4 [ SEEK ]   HMGXB4 [ MEM ]
Gene Expression Viewer (FireBrowse)HMGXB4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10042
GTEX Portal (Tissue expression)HMGXB4
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UGU5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ9UGU5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9UGU5
Splice isoforms : SwissVarQ9UGU5
PhosPhoSitePlusQ9UGU5
Domaine pattern : Prosite (Expaxy)HMG_BOX_2 (PS50118)   
Domains : Interpro (EBI)DUF4171    HMG_box_dom   
Domain families : Pfam (Sanger)DUF4171 (PF13775)    HMG_box (PF00505)   
Domain families : Pfam (NCBI)pfam13775    pfam00505   
Domain families : Smart (EMBL)HMG (SM00398)  
Conserved Domain (NCBI)HMGXB4
DMDM Disease mutations10042
Blocks (Seattle)HMGXB4
SuperfamilyQ9UGU5
Human Protein AtlasENSG00000100281
Peptide AtlasQ9UGU5
HPRD05267
IPIIPI00455982   IPI00412406   IPI00878820   IPI00878973   
Protein Interaction databases
DIP (DOE-UCLA)Q9UGU5
IntAct (EBI)Q9UGU5
FunCoupENSG00000100281
BioGRIDHMGXB4
STRING (EMBL)HMGXB4
ZODIACHMGXB4
Ontologies - Pathways
QuickGOQ9UGU5
Ontology : AmiGODNA binding  endosome to lysosome transport  Wnt signaling pathway  NURF complex  negative regulation of Wnt signaling pathway  
Ontology : EGO-EBIDNA binding  endosome to lysosome transport  Wnt signaling pathway  NURF complex  negative regulation of Wnt signaling pathway  
NDEx NetworkHMGXB4
Atlas of Cancer Signalling NetworkHMGXB4
Wikipedia pathwaysHMGXB4
Orthology - Evolution
OrthoDB10042
GeneTree (enSembl)ENSG00000100281
Phylogenetic Trees/Animal Genes : TreeFamHMGXB4
HOVERGENQ9UGU5
HOGENOMQ9UGU5
Homologs : HomoloGeneHMGXB4
Homology/Alignments : Family Browser (UCSC)HMGXB4
Gene fusions - Rearrangements
Fusion : MitelmanTOM1/HMGXB4 [22q12.3/22q12.3]  [t(22;22)(q12;q12)]  
Fusion: TCGATOM1 22q12.3 HMGXB4 22q12.3 BRCA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHMGXB4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HMGXB4
dbVarHMGXB4
ClinVarHMGXB4
1000_GenomesHMGXB4 
Exome Variant ServerHMGXB4
ExAC (Exome Aggregation Consortium)HMGXB4 (select the gene name)
Genetic variants : HAPMAP10042
Genomic Variants (DGV)HMGXB4 [DGVbeta]
DECIPHERHMGXB4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHMGXB4 
Mutations
ICGC Data PortalHMGXB4 
TCGA Data PortalHMGXB4 
Broad Tumor PortalHMGXB4
OASIS PortalHMGXB4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHMGXB4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHMGXB4
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch HMGXB4
DgiDB (Drug Gene Interaction Database)HMGXB4
DoCM (Curated mutations)HMGXB4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HMGXB4 (select a term)
intoGenHMGXB4
Cancer3DHMGXB4(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604702   
Orphanet
MedgenHMGXB4
Genetic Testing Registry HMGXB4
NextProtQ9UGU5 [Medical]
TSGene10042
GENETestsHMGXB4
Target ValidationHMGXB4
Huge Navigator HMGXB4 [HugePedia]
snp3D : Map Gene to Disease10042
BioCentury BCIQHMGXB4
ClinGenHMGXB4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10042
Chemical/Pharm GKB GenePA164720673
Clinical trialHMGXB4
Miscellaneous
canSAR (ICR)HMGXB4 (select the gene name)
Probes
Litterature
PubMed21 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHMGXB4
EVEXHMGXB4
GoPubMedHMGXB4
iHOPHMGXB4
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 25 19:11:53 CEST 2017

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