Atlas of Genetics and Cytogenetics in Oncology and Haematology


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HMGN3 (high mobility group nucleosomal binding domain 3)

Identity

Alias_namesTRIP7
thyroid hormone receptor interactor 7
Other aliasPNAS-24
PNAS-25
HGNC (Hugo) HMGN3
LocusID (NCBI) 9324
Atlas_Id 46679
Location 6q14.1  [Link to chromosome band 6q14]
Location_base_pair Starts at 79201245 and ends at 79234738 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)
BC070061 () / HMGN3 (6q14.1)HMGN3 (6q14.1) / HMGN3 (6q14.1)HMGN3 (6q14.1) / NCOA2 (8q13.3)
HMGN3 (6q14.1) / PAQR8 (6p12.2)HMGN3 (6q14.1) / TMEM5 (12q14.2)TNRC18 (7p22.1) / HMGN3 (6q14.1)

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 1 ]
  t(6;6)(p12;q14) HMGN3/PAQR8


External links

Nomenclature
HGNC (Hugo)HMGN3   12312
Cards
Entrez_Gene (NCBI)HMGN3  9324  high mobility group nucleosomal binding domain 3
AliasesPNAS-24; PNAS-25; TRIP7
GeneCards (Weizmann)HMGN3
Ensembl hg19 (Hinxton)ENSG00000118418 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000118418 [Gene_View]  ENSG00000118418 [Sequence]  chr6:79201245-79234738 [Contig_View]  HMGN3 [Vega]
ICGC DataPortalENSG00000118418
TCGA cBioPortalHMGN3
AceView (NCBI)HMGN3
Genatlas (Paris)HMGN3
WikiGenes9324
SOURCE (Princeton)HMGN3
Genetics Home Reference (NIH)HMGN3
Genomic and cartography
GoldenPath hg38 (UCSC)HMGN3  -     chr6:79201245-79234738 -  6q14.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)HMGN3  -     6q14.1   [Description]    (hg19-Feb_2009)
EnsemblHMGN3 - 6q14.1 [CytoView hg19]  HMGN3 - 6q14.1 [CytoView hg38]
Mapping of homologs : NCBIHMGN3 [Mapview hg19]  HMGN3 [Mapview hg38]
OMIM604502   
Gene and transcription
Genbank (Entrez)AF274949 AF401520 AI672466 AK124181 AK315391
RefSeq transcript (Entrez)NM_001201362 NM_001201363 NM_001318884 NM_001318885 NM_001318886 NM_001318887 NM_001318888 NM_004242 NM_138730
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)HMGN3
Cluster EST : UnigeneHs.77558 [ NCBI ]
CGAP (NCI)Hs.77558
Alternative Splicing GalleryENSG00000118418
Gene ExpressionHMGN3 [ NCBI-GEO ]   HMGN3 [ EBI - ARRAY_EXPRESS ]   HMGN3 [ SEEK ]   HMGN3 [ MEM ]
Gene Expression Viewer (FireBrowse)HMGN3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9324
GTEX Portal (Tissue expression)HMGN3
Human Protein AtlasENSG00000118418-HMGN3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ15651   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ15651  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ15651
Splice isoforms : SwissVarQ15651
PhosPhoSitePlusQ15651
Domaine pattern : Prosite (Expaxy)HMG14_17 (PS00355)   
Domains : Interpro (EBI)HMGN3    HMGN_fam   
Domain families : Pfam (Sanger)HMG14_17 (PF01101)   
Domain families : Pfam (NCBI)pfam01101   
Domain families : Smart (EMBL)HMG17 (SM00527)  
Conserved Domain (NCBI)HMGN3
DMDM Disease mutations9324
Blocks (Seattle)HMGN3
SuperfamilyQ15651
Human Protein Atlas [tissue]ENSG00000118418-HMGN3 [tissue]
Peptide AtlasQ15651
HPRD16062
IPIIPI00018842   IPI00171277   IPI00978575   IPI01008742   
Protein Interaction databases
DIP (DOE-UCLA)Q15651
IntAct (EBI)Q15651
FunCoupENSG00000118418
BioGRIDHMGN3
STRING (EMBL)HMGN3
ZODIACHMGN3
Ontologies - Pathways
QuickGOQ15651
Ontology : AmiGOchromatin  nucleoplasm  cytosol  chromatin organization  biological_process  nucleosomal DNA binding  positive regulation of transcription by RNA polymerase II  thyroid hormone receptor binding  regulation of insulin secretion involved in cellular response to glucose stimulus  
Ontology : EGO-EBIchromatin  nucleoplasm  cytosol  chromatin organization  biological_process  nucleosomal DNA binding  positive regulation of transcription by RNA polymerase II  thyroid hormone receptor binding  regulation of insulin secretion involved in cellular response to glucose stimulus  
NDEx NetworkHMGN3
Atlas of Cancer Signalling NetworkHMGN3
Wikipedia pathwaysHMGN3
Orthology - Evolution
OrthoDB9324
GeneTree (enSembl)ENSG00000118418
Phylogenetic Trees/Animal Genes : TreeFamHMGN3
HOVERGENQ15651
HOGENOMQ15651
Homologs : HomoloGeneHMGN3
Homology/Alignments : Family Browser (UCSC)HMGN3
Gene fusions - Rearrangements
Fusion : MitelmanHMGN3/PAQR8 [6q14.1/6p12.2]  
Fusion Cancer (Beijing)BC070061 [HMGN3]  -  6q14.1 [FUSC002615]  [FUSC002615]
Fusion : QuiverHMGN3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerHMGN3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)HMGN3
dbVarHMGN3
ClinVarHMGN3
1000_GenomesHMGN3 
Exome Variant ServerHMGN3
ExAC (Exome Aggregation Consortium)ENSG00000118418
GNOMAD BrowserENSG00000118418
Varsome BrowserHMGN3
Genetic variants : HAPMAP9324
Genomic Variants (DGV)HMGN3 [DGVbeta]
DECIPHERHMGN3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisHMGN3 
Mutations
ICGC Data PortalHMGN3 
TCGA Data PortalHMGN3 
Broad Tumor PortalHMGN3
OASIS PortalHMGN3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICHMGN3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDHMGN3
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 HMGN3
DgiDB (Drug Gene Interaction Database)HMGN3
DoCM (Curated mutations)HMGN3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)HMGN3 (select a term)
intoGenHMGN3
Cancer3DHMGN3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM604502   
Orphanet
DisGeNETHMGN3
MedgenHMGN3
Genetic Testing Registry HMGN3
NextProtQ15651 [Medical]
TSGene9324
GENETestsHMGN3
Target ValidationHMGN3
Huge Navigator HMGN3 [HugePedia]
snp3D : Map Gene to Disease9324
BioCentury BCIQHMGN3
ClinGenHMGN3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9324
Chemical/Pharm GKB GenePA36990
Clinical trialHMGN3
Miscellaneous
canSAR (ICR)HMGN3 (select the gene name)
Probes
Litterature
PubMed19 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineHMGN3
EVEXHMGN3
GoPubMedHMGN3
iHOPHMGN3
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 : Tue Nov 6 11:11:21 CET 2018

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