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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

IRX6 Gene

protein-coding   GIFtS: 46
GCID: GC16P055357

iroquois homeobox 6

(Previous names: iroquois homeobox protein 7, iroquois homeobox protein...)
(Previous symbol: IRX7)
 Explore 3 diseases affiliated with
IRX6 via our new
 Human Malady Compendium 
Biological research products
for IRX6
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Iroquois Homeobox 61 2     Iroquois Homeobox Protein 71 2
IRX71 2 3 5     Homeodomain Protein IRXB32 3
Iroquois Homeobox Protein 61 2 3     IRXB32 3
IRX-31 2     Iroquois-Class Homeodomain Protein IRX-62

External Ids:    HGNC: 146751   Entrez Gene: 791902   Ensembl: ENSG000001593877   OMIM: 6061965   UniProtKB: P784123   

Export aliases for IRX6 gene to outside databases

Previous GC identifers: GC16M055413 GC16P055096 GC16P055137 GC16P055136 GC16P053915 GC16P041244


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Gene Wiki entry for IRX6


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000016.9  NC_018927.1  NT_010498.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the IRX6 gene promoter:
         Bach1   HFH-3   POU3F1   AP-2gamma   FOXL1   FOXI1   SRY   Nkx6-1   ATF6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidIRX6 promoter sequence
   Search SABiosciences Chromatin IP Primers for IRX6

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat IRX6


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 16q12.2   Ensembl cytogenetic band:  16q12.2   HGNC cytogenetic band: 16q12.2

IRX6 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IRX6 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P055357:  view genomic region     (about GC identifiers)

Start:
55,357,672 bp from pter      End:
55,364,672 bp from pter
Size:
7,001 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: IRX6_HUMAN, P78412 (See protein sequence)
Recommended Name: Iroquois-class homeodomain protein IRX-6  
Size: 446 amino acids; 48240 Da
Subcellular location: Nucleus (Probable)
Secondary accessions: B2RN06 Q7Z2K0

Explore the universe of human proteins at neXtProt for IRX6: NX_P78412

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P78412

  • IRX6 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_077311.2  
    ENSEMBL proteins: 
     ENSP00000290552  

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    Uscn Proteins for IRX6

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--


    IRX6 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    IRX6 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR003893 Iroquois_homeo
     IPR017970 Homeobox_CS
     IPR001356 Homeodomain
     IPR009057 Homeodomain-like
     IPR008422 Homeobox_KN_domain

    Graphical View of Domain Structure for InterPro Entry P78412

    ProtoNet protein and cluster: P78412

    1 Blocks protein family: IPB003893 Iroquois-class homeodomain protein

    UniProtKB/Swiss-Prot: IRX6_HUMAN, P78412
    Similarity: Belongs to the TALE/IRO homeobox family
    Similarity: Contains 1 homeobox DNA-binding domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat IRX6
    6 QIAGEN miScript miRNA Assays for microRNAs that regulate IRX6:
    hsa-miR-1197 hsa-miR-520d-5p hsa-miR-524-5p hsa-miR-520g hsa-miR-1253 hsa-miR-4267
    SwitchGear 3'UTR luciferase reporter plasmidIRX6 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003700sequence-specific DNA binding transcription factor activity IEA--
    GO:0043565sequence-specific DNA binding IEA--


    IRX6 for ontologies           About GeneDecksing


    Animal Models:
         2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Irx6):
     nervous system  vision/eye 

    IRX6 for phenotypes           About GeneDecksing


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for IRX6

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for IRX6
    Search CenterWatch for drugs/clinical trials and news about IRX6 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for IRX6 gene: 
    NM_024335.2  

    Unigene Cluster for IRX6:

    Iroquois homeobox 6
    Hs.369907  [show with all ESTs]
    Unigene Representative Sequence: AK125053
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000290552(uc002ehx.3 uc002ehy.3) ENST00000558315(uc010ccb.1)


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    hsa-miR-1197 hsa-miR-520d-5p hsa-miR-524-5p hsa-miR-520g hsa-miR-1253 hsa-miR-4267
    SwitchGear 3'UTR luciferase reporter plasmidIRX6 3' UTR sequence
    Inhib. RNA
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    Clone
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat IRX6
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    Additional cDNA sequence: 

    AK125053.1 AK309149.1 AY335937.1 BC136573.1 BC136576.1 

    1 DOTS entry:

    DT.101980181 

    22 AceView cDNA sequences:

    BM929891 AI792465 AY335937 NM_024335 AI185773 AI820799 AI792142 BM724662 
    AK125053 BM667197 AI263887 BM698030 AI821795 BG739786 AW449920 BX114798 
    BU741332 AW149016 AI191445 AJ707304 U90305 BF204113 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    IRX6 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CTTGGAGAAA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    IRX6 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    3 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    EyeInner Nuclear LayerCone Bipolar Precursor CellsBipolar, Retina
    EyeInner Nuclear LayerType2 Off Cone Bipolar CellsBipolar, Retina
    EyeInner Nuclear LayerType3a Off Cone Bipolar CellsBipolar, Retina
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See IRX6 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.369907
        SABiosciences Custom PCR Arrays for IRX6
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for IRX6

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for IRX6 gene from 4/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves F1NHU5_CHICK6
    Uncharacterized protein
    96(a)
    possible ortholog
    11(3852180-3852389)
    lizard
    (Anolis carolinensis)
    Reptilia IRX66
    --
    89(a)
    1 ↔ 1
    LGc(2125168-2125383)
    zebrafish
    (Danio rerio)
    Actinopterygii irx6a1 iroquois homeobox protein 6a 63.23(n)
    58.79(a)
      474317  NM_001023575.1  NP_001018869.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta mirr1 mirror 49.43(n)
    41.38(a)
      39441  NM_168505.1  NP_729818.1 


    ENSEMBL Gene Tree for IRX6 (if available)
    TreeFam Gene Tree for IRX6 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for IRX6 gene
    IRX12  IRX32  IRX52  MKX2  IRX22  IRX42  
    4 SIMAP similar genes for IRX6 using alignment to 1 protein entry:     IRX6_HUMAN:
    TGIF1    IRX4    IRX1    IRX3

    IRX6 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/229 NCBI SNPs in IRX6 are shown (see all 229    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1384560301,2
    C,--55356574(+) ACTTT-/AAAAAA 1 -- us2k10--------
    rs1878204911,2
    --55356601(+) CCAAGA/CTGCAA 1 -- us2k10--------
    rs47845231,2
    C,F,A,H,--55356697(+) AGGACT/CATAAT 1 -- us2k123Minor allele frequency- C:0.45NS EA NA WA CSA 2345
    rs1435405111,2
    --55356707(+) TTCTTC/TTTCTA 1 -- us2k10--------
    rs1467907151,2
    --55356809(+) GAGCTC/TGTCCT 1 -- us2k10--------
    rs1929056931,2
    --55356830(+) ATCTCC/TTAAGC 1 -- us2k10--------
    rs1852798091,2
    --55356885(+) AGAATG/TTGTTT 1 -- us2k10--------
    rs1901743561,2
    --55357026(+) GAGCCA/GTTGCT 1 -- us2k10--------
    rs310741,2
    C,F,A,H,--55357170(+) TATAAA/CGCGCG 1 -- us2k1 tfbs325Minor allele frequency- C:0.36NS EA NA WA CSA 2708
    rs310751,2
    C,F,A,H,--55357238(+) TGGATT/CCCTGC 1 -- us2k124Minor allele frequency- C:0.36NS EA NA WA CSA 2532

    HapMap Linkage Disequilibrium report for IRX6 (55357672 - 55364672 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for IRX6
         1 CNV: 4956

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    IRX6 for disorders           About GeneDecksing

    OMIM gene information: 606196    OMIM disorders: --

    3 diseases for IRX6:    About MalaCards
    brugada syndrome    astigmatism    keratoconus

    1 disease from the University of Copenhagen DISEASES database for IRX6:
    Astigmatism

    Export disorders for IRX6 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for IRX6 gene, integrated from 9 sources (see all 11):
    (articles sorted by number of sources associating them with IRX6)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    2. Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women. (PubMed id 22589738)1 Fox C.S....Borecki I.B. (2012)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    5. Cloning and chromosome mapping of human and chicken Iroquois (IRX) genes. (PubMed id 11435706)1 Ogura K.... Ogura T. (2001)
    6. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)
    7. Regulated expression patterns of IRX-2, an Iroquois-class homeobox gene, in the human breast. (PubMed id 10370142)1 Lewis M.T.... Daniel C.W. (1999)
    8. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (1996)
    9. Irx3 is differentially up-regulated in female gonads during sex determination. (PubMed id 15963769)9 Jorgensen J.S. and Gao L. (2005)
    10. Identification of biomarkers in Dupuytren's disease by comparative analysis of fibroblasts versus tissue biopsies in disease-specific phenotypes. (PubMed id 19121738)9 Shih B....Bayat A. (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 79190 HGNC: 14675 AceView: IRX6 Ensembl:ENSG00000159387 euGenes: HUgn79190
    ECgene: IRX6 H-InvDB: IRX6

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for IRX6 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for IRX6 gene:
    Search GeneIP for patents involving IRX6

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
    In Situ Hybridization Assays from
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    About This Section

     
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 27 Apr 2013

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    VWF
    (GIFTS: 73)
    von Willebrand factor
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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