Atlas of Genetics and Cytogenetics in Oncology and Haematology


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IRX3 (iroquois homeobox 3)

Identity

Alias_symbol (synonym)IRX-1
Other aliasIRXB1
HGNC (Hugo) IRX3
LocusID (NCBI) 79191
Atlas_Id 54385
Location 5p15.33  [Link to chromosome band 5p15]
Location_base_pair Starts at 54283300 and ends at 54286466 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)
IRX3 (16q12.2) / IRX3 (16q12.2)IRX3 (16q12.2) / MYH9 (22q12.3)IRX3 (16q12.2) / TP53INP1 (8q22.1)
USF2 (19q13.12) / IRX3 (16q12.2)

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(16;19)(q12;q13) USF2/IRX3


External links

Nomenclature
HGNC (Hugo)IRX3   14360
Cards
Entrez_Gene (NCBI)IRX3  79191  iroquois homeobox 3
AliasesIRX-1; IRXB1
GeneCards (Weizmann)IRX3
Ensembl hg19 (Hinxton)ENSG00000177508 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000177508 [Gene_View]  ENSG00000177508 [Sequence]  chr16:54283300-54286466 [Contig_View]  IRX3 [Vega]
ICGC DataPortalENSG00000177508
TCGA cBioPortalIRX3
AceView (NCBI)IRX3
Genatlas (Paris)IRX3
WikiGenes79191
SOURCE (Princeton)IRX3
Genetics Home Reference (NIH)IRX3
Genomic and cartography
GoldenPath hg38 (UCSC)IRX3  -     chr16:54283300-54286466 -  5p15.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)IRX3  -     5p15.33   [Description]    (hg19-Feb_2009)
EnsemblIRX3 - 5p15.33 [CytoView hg19]  IRX3 - 5p15.33 [CytoView hg38]
Mapping of homologs : NCBIIRX3 [Mapview hg19]  IRX3 [Mapview hg38]
OMIM612985   
Gene and transcription
Genbank (Entrez)AK309146 AY335943 BC023667 BC034328 U90308
RefSeq transcript (Entrez)NM_024336
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)IRX3
Cluster EST : UnigeneHs.499205 [ NCBI ]
CGAP (NCI)Hs.499205
Alternative Splicing GalleryENSG00000177508
Gene ExpressionIRX3 [ NCBI-GEO ]   IRX3 [ EBI - ARRAY_EXPRESS ]   IRX3 [ SEEK ]   IRX3 [ MEM ]
Gene Expression Viewer (FireBrowse)IRX3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)79191
GTEX Portal (Tissue expression)IRX3
Human Protein AtlasENSG00000177508-IRX3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP78415   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP78415  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP78415
Splice isoforms : SwissVarP78415
PhosPhoSitePlusP78415
Domaine pattern : Prosite (Expaxy)HOMEOBOX_1 (PS00027)    HOMEOBOX_2 (PS50071)   
Domains : Interpro (EBI)Homeobox-like_sf    Homeobox_CS    Homeobox_dom    Homeobox_KN_domain    Iroquois_homeo   
Domain families : Pfam (Sanger)Homeobox_KN (PF05920)   
Domain families : Pfam (NCBI)pfam05920   
Domain families : Smart (EMBL)HOX (SM00389)  IRO (SM00548)  
Conserved Domain (NCBI)IRX3
DMDM Disease mutations79191
Blocks (Seattle)IRX3
SuperfamilyP78415
Human Protein Atlas [tissue]ENSG00000177508-IRX3 [tissue]
Peptide AtlasP78415
HPRD17162
IPIIPI00328253   IPI00166699   
Protein Interaction databases
DIP (DOE-UCLA)P78415
IntAct (EBI)P78415
FunCoupENSG00000177508
BioGRIDIRX3
STRING (EMBL)IRX3
ZODIACIRX3
Ontologies - Pathways
QuickGOP78415
Ontology : AmiGORNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  metanephros development  nucleus  cytoplasm  transcription, DNA-templated  regulation of transcription by RNA polymerase II  mesoderm development  axon  sequence-specific DNA binding  negative regulation of neuron differentiation  positive regulation of neuron differentiation  specification of loop of Henle identity  
Ontology : EGO-EBIRNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  RNA polymerase II transcription factor activity, sequence-specific DNA binding  metanephros development  nucleus  cytoplasm  transcription, DNA-templated  regulation of transcription by RNA polymerase II  mesoderm development  axon  sequence-specific DNA binding  negative regulation of neuron differentiation  positive regulation of neuron differentiation  specification of loop of Henle identity  
NDEx NetworkIRX3
Atlas of Cancer Signalling NetworkIRX3
Wikipedia pathwaysIRX3
Orthology - Evolution
OrthoDB79191
GeneTree (enSembl)ENSG00000177508
Phylogenetic Trees/Animal Genes : TreeFamIRX3
HOVERGENP78415
HOGENOMP78415
Homologs : HomoloGeneIRX3
Homology/Alignments : Family Browser (UCSC)IRX3
Gene fusions - Rearrangements
Fusion : MitelmanUSF2/IRX3 [19q13.12/16q12.2]  [t(16;19)(q12;q13)]  
Fusion : QuiverIRX3
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerIRX3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)IRX3
dbVarIRX3
ClinVarIRX3
1000_GenomesIRX3 
Exome Variant ServerIRX3
ExAC (Exome Aggregation Consortium)ENSG00000177508
GNOMAD BrowserENSG00000177508
Varsome BrowserIRX3
Genetic variants : HAPMAP79191
Genomic Variants (DGV)IRX3 [DGVbeta]
DECIPHERIRX3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisIRX3 
Mutations
ICGC Data PortalIRX3 
TCGA Data PortalIRX3 
Broad Tumor PortalIRX3
OASIS PortalIRX3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICIRX3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDIRX3
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 IRX3
DgiDB (Drug Gene Interaction Database)IRX3
DoCM (Curated mutations)IRX3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)IRX3 (select a term)
intoGenIRX3
Cancer3DIRX3(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM612985   
Orphanet
DisGeNETIRX3
MedgenIRX3
Genetic Testing Registry IRX3
NextProtP78415 [Medical]
TSGene79191
GENETestsIRX3
Target ValidationIRX3
Huge Navigator IRX3 [HugePedia]
snp3D : Map Gene to Disease79191
BioCentury BCIQIRX3
ClinGenIRX3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD79191
Chemical/Pharm GKB GenePA29926
Clinical trialIRX3
Miscellaneous
canSAR (ICR)IRX3 (select the gene name)
Probes
Litterature
PubMed15 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineIRX3
EVEXIRX3
GoPubMedIRX3
iHOPIRX3
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Thu Aug 16 11:08:44 CEST 2018

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