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HMGXB3 (HMG-box containing 3)

Identity

Alias_namesHMGX3
HMG box domain containing 3
Alias_symbol (synonym)SMF
KIAA0194
Other alias
HGNC (Hugo) HMGXB3
LocusID (NCBI) 22993
Atlas_Id 54364
Location 5q32  [Link to chromosome band 5q32]
Location_base_pair Starts at 150000606 and ends at 150053143 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
HMGXB3 (5q32) / CAPN1 (11q13.1)KNDC1 (10q26.3) / HMGXB3 (5q32)HMGXB3 5q32 / CAPN1 11q13.1

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)HMGXB3   28982
Cards
Entrez_Gene (NCBI)HMGXB3  22993  HMG-box containing 3
AliasesHMGX3; SMF
GeneCards (Weizmann)HMGXB3
Ensembl hg19 (Hinxton)ENSG00000113716 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000113716 [Gene_View]  chr5:150000606-150053143 [Contig_View]  HMGXB3 [Vega]
ICGC DataPortalENSG00000113716
TCGA cBioPortalHMGXB3
AceView (NCBI)HMGXB3
Genatlas (Paris)HMGXB3
WikiGenes22993
SOURCE (Princeton)HMGXB3
Genetics Home Reference (NIH)HMGXB3
Genomic and cartography
GoldenPath hg38 (UCSC)HMGXB3  -     chr5:150000606-150053143 +  5q32   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HMGXB3  -     5q32   [Description]    (hg19-Feb_2009)
EnsemblHMGXB3 - 5q32 [CytoView hg19]  HMGXB3 - 5q32 [CytoView hg38]
Mapping of homologs : NCBIHMGXB3 [Mapview hg19]  HMGXB3 [Mapview hg38]
Gene and transcription
Genbank (Entrez)BC005880 BC035219 BC035434 BC051025 BC063691
RefSeq transcript (Entrez)NM_014983
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HMGXB3
Cluster EST : UnigeneHs.719189 [ NCBI ]
CGAP (NCI)Hs.719189
Alternative Splicing GalleryENSG00000113716
Gene ExpressionHMGXB3 [ NCBI-GEO ]   HMGXB3 [ EBI - ARRAY_EXPRESS ]   HMGXB3 [ SEEK ]   HMGXB3 [ MEM ]
Gene Expression Viewer (FireBrowse)HMGXB3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)22993
GTEX Portal (Tissue expression)HMGXB3
Human Protein AtlasENSG00000113716-HMGXB3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ12766   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ12766  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ12766
Splice isoforms : SwissVarQ12766
PhosPhoSitePlusQ12766
Domaine pattern : Prosite (Expaxy)HMG_BOX_2 (PS50118)   
Domains : Interpro (EBI)HMG_box_dom   
Domain families : Pfam (Sanger)HMG_box_2 (PF09011)   
Domain families : Pfam (NCBI)pfam09011   
Domain families : Smart (EMBL)HMG (SM00398)  
Conserved Domain (NCBI)HMGXB3
DMDM Disease mutations22993
Blocks (Seattle)HMGXB3
SuperfamilyQ12766
Human Protein Atlas [tissue]ENSG00000113716-HMGXB3 [tissue]
Peptide AtlasQ12766
IPIIPI00465164   IPI00982437   IPI00967465   IPI00964425   
Protein Interaction databases
DIP (DOE-UCLA)Q12766
IntAct (EBI)Q12766
FunCoupENSG00000113716
BioGRIDHMGXB3
STRING (EMBL)HMGXB3
ZODIACHMGXB3
Ontologies - Pathways
QuickGOQ12766
Ontology : AmiGODNA binding  cellular_component  nucleus  biological_process  kinase activity  phosphorylation  
Ontology : EGO-EBIDNA binding  cellular_component  nucleus  biological_process  kinase activity  phosphorylation  
NDEx NetworkHMGXB3
Atlas of Cancer Signalling NetworkHMGXB3
Wikipedia pathwaysHMGXB3
Orthology - Evolution
OrthoDB22993
GeneTree (enSembl)ENSG00000113716
Phylogenetic Trees/Animal Genes : TreeFamHMGXB3
HOVERGENQ12766
HOGENOMQ12766
Homologs : HomoloGeneHMGXB3
Homology/Alignments : Family Browser (UCSC)HMGXB3
Gene fusions - Rearrangements
Fusion : MitelmanHMGXB3/CAPN1 [5q32/11q13.1]  
Fusion: TCGA_MDACCHMGXB3 5q32 CAPN1 11q13.1 HNSC
Tumor Fusion PortalHMGXB3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHMGXB3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HMGXB3
dbVarHMGXB3
ClinVarHMGXB3
1000_GenomesHMGXB3 
Exome Variant ServerHMGXB3
ExAC (Exome Aggregation Consortium)ENSG00000113716
GNOMAD BrowserENSG00000113716
Genetic variants : HAPMAP22993
Genomic Variants (DGV)HMGXB3 [DGVbeta]
DECIPHERHMGXB3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHMGXB3 
Mutations
ICGC Data PortalHMGXB3 
TCGA Data PortalHMGXB3 
Broad Tumor PortalHMGXB3
OASIS PortalHMGXB3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHMGXB3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHMGXB3
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 HMGXB3
DgiDB (Drug Gene Interaction Database)HMGXB3
DoCM (Curated mutations)HMGXB3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HMGXB3 (select a term)
intoGenHMGXB3
Cancer3DHMGXB3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETHMGXB3
MedgenHMGXB3
Genetic Testing Registry HMGXB3
NextProtQ12766 [Medical]
TSGene22993
GENETestsHMGXB3
Target ValidationHMGXB3
Huge Navigator HMGXB3 [HugePedia]
snp3D : Map Gene to Disease22993
BioCentury BCIQHMGXB3
ClinGenHMGXB3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD22993
Chemical/Pharm GKB GenePA164720627
Clinical trialHMGXB3
Miscellaneous
canSAR (ICR)HMGXB3 (select the gene name)
Probes
Litterature
PubMed10 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHMGXB3
EVEXHMGXB3
GoPubMedHMGXB3
iHOPHMGXB3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Tue Nov 21 14:16:27 CET 2017

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