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IRG1 Gene

protein-coding   GIFtS: 36
GCID: GC13P077511          (predicted)

Immunoresponsive 1 Homolog (Mouse)

  Search for IRG1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Immunoresponsive 1 Homolog (Mouse)1 2     Cis-Aconitate Decarboxylase2
Aconitate Decarboxylase2 3     Immune-Responsive Gene 1 Protein Homolog2
Cis-Aconitic Acid Decarboxylase2 3     EC 4.1.1.63
CAD2 3     Immune-Responsive Gene 1 Protein3

External Ids:    HGNC: 339041   Entrez Gene: 7302492   Ensembl: ENSG000001027947   OMIM: 6152755   UniProtKB: A6NK063   

Export aliases for IRG1 gene to outside databases

Previous GC identifer: GC13P076411


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for IRG1 Gene:
IRG1 (immunoresponsive 1 homolog (mouse)) is a protein-coding gene. GO annotations related to this gene include 2-methylcitrate dehydratase activity and aconitate decarboxylase activity.

UniProtKB/Swiss-Prot: IRG1_HUMAN, A6NK06
Function: Involved in the inhibition of the inflammatory response. Acts as a negative regulator of the Toll-like
receptors (TLRs)-mediated inflammatory innate response by stimulating the tumor necrosis factor alpha-induced
protein TNFAIP3 expression via reactive oxygen species (ROS) in LPS-tolerized macrophages. Involved in
antimicrobial response of innate immune cells; IRG1-mediated itaconic acid production contributes to the
antimicrobial activity of macrophages. Plays a role in the embryo implantation




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000013.11  NC_018924.2  NT_024524.15  
Regulatory elements:
   Regulatory transcription factor binding sites in the IRG1 gene promoter:
         Pax-6   Nkx2-5   HNF-1A   Evi-1   PPAR-alpha   POU2F1   HSF2   HNF-1   POU2F1a   STAT3   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidIRG1 promoter sequence
   Search Chromatin IP Primers for IRG1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat IRG1


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

Entrez Gene cytogenetic band: 13q22.3   Ensembl cytogenetic band:  13q22.3   HGNC cytogenetic band: 13q22.3

IRG1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
IRG1 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13P077511:  view genomic region     (about GC identifiers)

Start:
77,511,985 bp from pter      End:
77,532,794 bp from pter
Size:
20,810 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: IRG1_HUMAN, A6NK06 (See protein sequence)
Recommended Name: Cis-aconitate decarboxylase  
Size: 481 amino acids; 52628 Da

Explore the universe of human proteins at neXtProt for IRG1: NX_A6NK06

Explore proteomics data for IRG1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See IRG1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001245335.1  
    ENSEMBL proteins: 
     ENSP00000366682   ENSP00000401584  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR005656 MmgE_PrpD

    Graphical View of Domain Structure for InterPro Entry A6NK06

    ProtoNet protein and cluster: A6NK06

    UniProtKB/Swiss-Prot: IRG1_HUMAN, A6NK06
    Similarity: Belongs to the PrpD family


    Find genes that share domains with IRG1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: IRG1_HUMAN, A6NK06
    Function: Involved in the inhibition of the inflammatory response. Acts as a negative regulator of the Toll-like
    receptors (TLRs)-mediated inflammatory innate response by stimulating the tumor necrosis factor alpha-induced
    protein TNFAIP3 expression via reactive oxygen species (ROS) in LPS-tolerized macrophages. Involved in
    antimicrobial response of innate immune cells; IRG1-mediated itaconic acid production contributes to the
    antimicrobial activity of macrophages. Plays a role in the embryo implantation
    Catalytic activity: Cis-aconitate = itaconate + CO(2)
    Induction: Up-regulated after lipopolysaccharide (LPS) stimulation. Up-regulated in LPS-tolerized macrophage by
    LPS. Up-regulated in peripheral blood mononuclear cells (PBMC) of patient after acute sepsis

         Enzyme Number (IUBMB): EC 4.1.1.61

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:00475472-methylcitrate dehydratase activity IEA--
    GO:0047613aconitate decarboxylase activity IDA--
         
    Find genes that share ontologies with IRG1           About GenesLikeMe


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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    IRG1_HUMAN, A6NK06: Mitochondrion (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol2
    nucleus2
    peroxisome2
    extracellular1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005739mitochondrion ISS--

    Find genes that share ontologies with IRG1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for IRG1
    Interactions:

        Search GeneGlobe Interaction Network for IRG1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 8)

    Selected Interacting proteins for IRG1 (ENSP000003666824) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBQLN1ENSP000003655764STRING: ENSP00000365576
    UBQLN2ENSP000003451954STRING: ENSP00000345195
    UBQLN4ENSP000003572924STRING: ENSP00000357292
    UBL7ENSP000003548834STRING: ENSP00000354883
    UBQLN3ENSP000003479974STRING: ENSP00000347997
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 22):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002760positive regulation of antimicrobial humoral response IDA--
    GO:0006952defense response IDA--
    GO:0006954inflammatory response IEA--
    GO:0007566embryo implantation ISS--
    GO:0008152metabolic process IDA--

    Find genes that share ontologies with IRG1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for IRG1



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for IRG1 gene: 
    NM_001258406.1  

    Unigene Cluster for IRG1:

    Immunoresponsive 1 homolog (mouse)
    Hs.160789  [show with all ESTs]
    Unigene Representative Sequence: NM_001258406
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000377462 ENST00000449753
    miRNA
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    1 DOTS entry:

    DT.70104351 

    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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    IRG1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    IRG1 Expression
    About this image

    IRG1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    IRG1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.160789

    UniProtKB/Swiss-Prot: IRG1_HUMAN, A6NK06
    Tissue specificity: Expressed in LPS-tolerized macrophages (at protein level). Expressed in peripheral blood
    mononuclear cells (PBMCs), microglia and macrophage cells

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    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for IRG1 gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Irg11 immunoresponsive gene 1 83.23(n)
    84.01(a)
      16365  NM_008392.1  NP_032418.1 
    chicken
    (Gallus gallus)
    Aves IRG11 immunoresponsive 1 homolog (mouse) 66.67(n)
    66.67(a)
      418812  NM_001030821.1  NP_001025992.1 
    lizard
    (Anolis carolinensis)
    Reptilia IRG16
    immunoresponsive 1 homolog (mouse)
    63(a)
    1 ↔ 1
    3(86669814-86679100)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia irg11 immunoresponsive 1 homolog (mouse) 65.09(n)
    66.59(a)
      100490699  XM_002931937.2  XP_002931983.2 
    zebrafish
    (Danio rerio)
    Actinopterygii irg11 immunoresponsive gene 1 59.29(n)
    59.51(a)
      795305  NM_001126456.1  NP_001119928.1 


    ENSEMBL Gene Tree for IRG1 (if available)
    TreeFam Gene Tree for IRG1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for IRG1 (see all 245)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1814294651,2
    C--77520723(+) CTCATA/CCCCAG 1 -- us2k10--------
    rs1453223701,2
    --77520738(+) GACCAA/CTAGCT 1 -- us2k10--------
    rs1859545581,2
    --77520805(+) GGGTAA/GGGAGA 1 -- us2k10--------
    rs1896717761,2
    --77520840(+) TCGTTA/GCTACA 1 -- us2k10--------
    rs174701711,2
    C,F,H--77520859(+) TTAGAC/AAATAA 1 -- us2k112Minor allele frequency- A:0.13NA NS EA WA 994
    rs1813131501,2
    --77520907(+) CTAAGA/CTTGAT 1 -- us2k10--------
    rs772696441,2
    C,F--77520926(+) GAAGAG/CATAAC 1 -- us2k12Minor allele frequency- C:0.07CSA WA 120
    rs352715641,2
    C--77521005(+) ATGTG-/A/A   
      TG
    /TGA
    TGGTT
    3 -- us2k1 cds10--------
    rs1860687761,2
    --77521088(+) GTTTTA/GGATGA 1 -- us2k10--------
    rs774266561,2
    F--77521192(+) AAAAGG/CCTGAC 1 -- us2k11Minor allele frequency- C:0.09WA 118

    HapMap Linkage Disequilibrium report for IRG1 (77511985 - 77532794 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for IRG1: --
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing IRG1
    DNA2.0 Custom Variant and Variant Library Synthesis for IRG1

    (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.)
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    OMIM gene information: 615275    OMIM disorders: --


    Find genes that share disorders with IRG1           About GenesLikeMe

    Genetic Association Database (GAD): IRG1

    Export disorders for IRG1 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)
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    PubMed articles for IRG1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with IRG1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Immune-responsive gene 1 protein links metabolism to immunity by catalyzing itaconic acid production. (PubMed id 23610393)1, 2, 3 Michelucci A.... Hiller K. (Proc. Natl. Acad. Sci. U.S.A. 2013)
    2. Immune responsive gene 1 (IRG1) promotes endotoxin tolerance by increasing A20 expression in macrophages through ROS. (PubMed id 23609450)1, 2 Li Y.... Cao X. (J. Biol. Chem. 2013)
    3. Expression profile of human immune-responsive gene 1 and generation and characterization of polyclonal antiserum. (PubMed id 21424586)1 Xiao W....He Y. (Mol. Cell. Biochem. 2011)
    4. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)2 Dunham A.... Ross M.T. (Nature 2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 730249 HGNC: 33904 Ensembl:ENSG00000102794 euGenes: HUgn730249 ECgene: IRG1
    H-InvDB: IRG1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for IRG1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for IRG1 gene:
    Search GeneIP for patents involving IRG1

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014

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