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Aliases for IRGM Gene

Aliases for IRGM Gene

  • Immunity Related GTPase M 2 3 5
  • LPS-Stimulated RAW 264.7 Macrophage Protein 47 Homolog 3 4
  • Immunity-Related GTPase Family, M1 2 3
  • Interferon-Inducible Protein 1 3 4
  • LRG-47 3 4
  • IRGM1 3 4
  • LRG47 3 4
  • IFI1 3 4
  • Immunity-Related GTPase Family M Protein 1 4
  • Immunity-Related GTPase Family M Protein 3
  • LRG-47-Like Protein 3
  • EC 3.6.5.- 4

External Ids for IRGM Gene

Previous HGNC Symbols for IRGM Gene

  • IRGM1

Previous GeneCards Identifiers for IRGM Gene

  • GC05P150208
  • GC05P145371

Summaries for IRGM Gene

Entrez Gene Summary for IRGM Gene

  • This gene encodes a member of the p47 immunity-related GTPase family. The encoded protein may play a role in the innate immune response by regulating autophagy formation in response to intracellular pathogens. Polymorphisms that affect the normal expression of this gene are associated with a susceptibility to Crohn's disease and tuberculosis. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Oct 2016]

GeneCards Summary for IRGM Gene

IRGM (Immunity Related GTPase M) is a Protein Coding gene. Diseases associated with IRGM include Inflammatory Bowel Disease 19 and Crohn's Disease. Among its related pathways are Toxoplasmosis. Gene Ontology (GO) annotations related to this gene include GTP binding and hydrolase activity, acting on acid anhydrides. An important paralog of this gene is IRGC.

UniProtKB/Swiss-Prot for IRGM Gene

  • Putative GTPase which is required for clearance of acute protozoan and bacterial infections. Functions in innate immune response probably through regulation of autophagy. May regulate proinflammatory cytokine production and prevent endotoxemia upon infection. May also play a role in macrophages adhesion and motility (By similarity).

Gene Wiki entry for IRGM Gene

Additional gene information for IRGM Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IRGM Gene

Genomics for IRGM Gene

GeneHancer (GH) Regulatory Elements for IRGM Gene

Promoters and enhancers for IRGM Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I150846 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 550.8 +0.6 582 1.4 ATF1 ARID4B SIN3A ZNF2 IRF4 ZNF143 ATF7 RUNX3 JUNB REST IRGM ZNF300P1 SMIM3 DCTN4 GPX3 ZNF300
GH05I150904 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 12.1 +58.5 58478 1.6 HDGF ARNT ARID4B SIN3A DMAP1 YY1 POLR2B ZNF766 SP3 NFYC ZNF300 ZNF300P1 HMGXB3 TCOF1 G3BP1 IRGM SMIM3 RBM22 CCDC69 TIGD6
GH05I151074 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 4.9 +234.7 234749 13.6 HDGF PKNOX1 FOXA2 SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 IRF4 TNIP1 ZNF300P1 TCOF1 G3BP1 ANXA6 RPL7P1 ZNF300 RPS14 SMIM3 PDGFRB
GH05I150887 Enhancer 0.2 FANTOM5 3.6 +41.3 41291 0.3 ZNF300P1 IRGM ZNF300
GH05I150882 Enhancer 0.2 FANTOM5 3.2 +36.0 35968 0.4 ZNF300P1 GPX3 IRGM ZNF300
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around IRGM on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the IRGM gene promoter:

Genomic Locations for IRGM Gene

Genomic Locations for IRGM Gene
55,878 bases
Plus strand

Genomic View for IRGM Gene

Genes around IRGM on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
IRGM Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for IRGM Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IRGM Gene

Proteins for IRGM Gene

  • Protein details for IRGM Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Immunity-related GTPase family M protein
    Protein Accession:
    Secondary Accessions:
    • B3VEX0

    Protein attributes for IRGM Gene

    181 amino acids
    Molecular mass:
    20142 Da
    Quaternary structure:
    No Data Available
    • Depletion of IRGM by siRNA favors mycobacteria survival in macrophages.
    • There is a huge difference in terms of sequence and regulation of expression compared to the mouse ortholog and hence, the function might be slightly different.
    • Sequence=AAI28169.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=EAW61704.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for IRGM Gene

Post-translational modifications for IRGM Gene

No Post-translational modifications

Other Protein References for IRGM Gene

No data available for DME Specific Peptides for IRGM Gene

Domains & Families for IRGM Gene

Gene Families for IRGM Gene

Human Protein Atlas (HPA):
  • Disease related genes
  • Predicted intracellular proteins

Protein Domains for IRGM Gene

Suggested Antigen Peptide Sequences for IRGM Gene

Graphical View of Domain Structure for InterPro Entry



  • The G5 motif of the IRG-type G domain is missing because the IRGM protein is truncated in anthropoids.
  • Belongs to the TRAFAC class dynamin-like GTPase superfamily. IRG family.
  • The G5 motif of the IRG-type G domain is missing because the IRGM protein is truncated in anthropoids.
  • Belongs to the TRAFAC class dynamin-like GTPase superfamily. IRG family.
genes like me logo Genes that share domains with IRGM: view

Function for IRGM Gene

Molecular function for IRGM Gene

UniProtKB/Swiss-Prot Function:
Putative GTPase which is required for clearance of acute protozoan and bacterial infections. Functions in innate immune response probably through regulation of autophagy. May regulate proinflammatory cytokine production and prevent endotoxemia upon infection. May also play a role in macrophages adhesion and motility (By similarity).
UniProtKB/Swiss-Prot Induction:
Not up-regulated by IFNG/IFN-gamma.

Enzyme Numbers (IUBMB) for IRGM Gene

Phenotypes From GWAS Catalog for IRGM Gene

Gene Ontology (GO) - Molecular Function for IRGM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0005515 protein binding IPI 25891078
GO:0005525 GTP binding IEA --
GO:0016787 hydrolase activity IEA --
GO:0019901 protein kinase binding IPI 25891078
genes like me logo Genes that share ontologies with IRGM: view

Phenotypes for IRGM Gene

genes like me logo Genes that share phenotypes with IRGM: view

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for IRGM Gene

Localization for IRGM Gene

Subcellular locations from UniProtKB/Swiss-Prot for IRGM Gene

Golgi apparatus membrane. Cell membrane. Cytoplasmic vesicle, phagosome membrane. Cytoplasmic vesicle, autophagosome membrane. Cell projection, phagocytic cup. Note=Behaves like an integral membrane protein. Recruited to the plasma membrane around forming phagocytic cups, it remains associated with maturing autophagosomes. Preferentially associated with cis- and medial-Golgi. {ECO:0000250}.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for IRGM gene
Compartment Confidence
mitochondrion 5
cytosol 5
golgi apparatus 5
plasma membrane 3
extracellular 2
nucleus 2
cytoskeleton 1
lysosome 1

Gene Ontology (GO) - Cellular Components for IRGM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA,IDA 28389568
GO:0000421 autophagosome membrane IEA --
GO:0001891 phagocytic cup IEA --
GO:0005739 mitochondrion IDA 25891078
GO:0005794 Golgi apparatus IDA,IEA 28389568
genes like me logo Genes that share ontologies with IRGM: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for IRGM Gene

Pathways & Interactions for IRGM Gene

SuperPathway Contained pathways
1 Toxoplasmosis
genes like me logo Genes that share pathways with IRGM: view

Pathways by source for IRGM Gene

1 KEGG pathway for IRGM Gene

Interacting Proteins for IRGM Gene

Gene Ontology (GO) - Biological Process for IRGM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000045 autophagosome assembly IMP 16888103
GO:0001934 positive regulation of protein phosphorylation IMP 28389568
GO:0002376 immune system process IEA --
GO:0006914 autophagy IEA --
GO:0006954 inflammatory response IEA --
genes like me logo Genes that share ontologies with IRGM: view

No data available for SIGNOR curated interactions for IRGM Gene

Drugs & Compounds for IRGM Gene

No Compound Related Data Available

Transcripts for IRGM Gene

mRNA/cDNA for IRGM Gene

(3) REFSEQ mRNAs :
(2) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for IRGM Gene

No ASD Table

Relevant External Links for IRGM Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for IRGM Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for IRGM Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for IRGM Gene

This gene is overexpressed in Whole Blood (x5.1).

NURSA nuclear receptor signaling pathways regulating expression of IRGM Gene:


SOURCE GeneReport for Unigene cluster for IRGM Gene:


mRNA Expression by UniProt/SwissProt for IRGM Gene:

Tissue specificity: Widely expressed (at protein level). Expressed in several tissues including colon, small bowel and peripheral blood leukocytes.

Phenotype-based relationships between genes and organs from Gene ORGANizer for IRGM Gene

Germ Layers:
  • endoderm
  • digestive
  • intestine
  • large intestine
genes like me logo Genes that share expression patterns with IRGM: view

Primer Products

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Evidence on tissue expression from TISSUES for IRGM Gene

Orthologs for IRGM Gene

This gene was present in the common ancestor of chordates.

Orthologs for IRGM Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia IRGM 33 34
  • 98.34 (n)
(Canis familiaris)
Mammalia IRGM 33
  • 72.66 (n)
-- 34
  • 24 (a)
IRGM5 34
  • 24 (a)
  • 21 (a)
(Rattus norvegicus)
Mammalia Irgm2 33
  • 70.64 (n)
(Mus musculus)
Mammalia Irgm2 33 16 34
  • 68.74 (n)
Irgm1 34
  • 23 (a)
Igtp 34
  • 21 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 25 (a)
-- 34
  • 8 (a)
(Monodelphis domestica)
Mammalia IRGM 34
  • 17 (a)
(Bos Taurus)
Mammalia IFI47 34
  • 16 (a)
(Anolis carolinensis)
Reptilia IRGM 34
  • 12 (a)
(Danio rerio)
Actinopterygii irgf3 34
  • 15 (a)
irgq2 34
  • 10 (a)
irgq1 34
  • 9 (a)
CT027800.1 34
  • 5 (a)
Species where no ortholog for IRGM was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for IRGM Gene

Gene Tree for IRGM (if available)
Gene Tree for IRGM (if available)

Paralogs for IRGM Gene

Paralogs for IRGM Gene

(1) SIMAP similar genes for IRGM Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with IRGM: view

Variants for IRGM Gene

Sequence variations from dbSNP and Humsavar for IRGM Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs10065172 pathogenic, Inflammatory bowel disease 19 150,848,436(+) C/T coding_sequence_variant, synonymous_variant
rs1000009084 -- 150,900,856(+) C/T 3_prime_UTR_variant, genic_downstream_transcript_variant
rs1000113 -- 150,860,514(+) C/T genic_downstream_transcript_variant, intron_variant
rs1000143829 -- 150,877,665(+) G/C genic_downstream_transcript_variant, intron_variant
rs1000183137 -- 150,878,523(+) A/G/T genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for IRGM Gene

Variant ID Type Subtype PubMed ID
dgv10114n54 CNV loss 21841781
dgv5817n100 CNV loss 25217958
esv2759386 CNV loss 17122850
esv2760955 CNV loss 21179565
nsv1021146 CNV loss 25217958
nsv428129 CNV loss 18775914
nsv5067 CNV deletion 18451855
nsv599994 CNV loss 21841781
nsv600003 CNV loss 21841781

Variation tolerance for IRGM Gene

Gene Damage Index Score: 3.58; 56.15% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for IRGM Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IRGM Gene

Disorders for IRGM Gene

MalaCards: The human disease database

(6) MalaCards diseases for IRGM Gene - From: HGMD, OMIM, ClinVar, GTR, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
inflammatory bowel disease 19
  • ibd19
crohn's disease
  • crohn disease
ulcerative colitis
  • left-sided ulcerative colitis
inflammatory bowel disease
  • inflammatory bowel diseases
- elite association - COSMIC cancer census association via MalaCards
Search IRGM in MalaCards View complete list of genes associated with diseases


  • Inflammatory bowel disease 19 (IBD19) [MIM:612278]: A chronic, relapsing inflammation of the gastrointestinal tract with a complex etiology. It is subdivided into Crohn disease and ulcerative colitis phenotypes. Crohn disease may affect any part of the gastrointestinal tract from the mouth to the anus, but most frequently it involves the terminal ileum and colon. Bowel inflammation is transmural and discontinuous; it may contain granulomas or be associated with intestinal or perianal fistulas. In contrast, in ulcerative colitis, the inflammation is continuous and limited to rectal and colonic mucosal layers; fistulas and granulomas are not observed. Both diseases include extraintestinal inflammation of the skin, eyes, or joints. {ECO:0000269 PubMed:17554261, ECO:0000269 PubMed:19174780, ECO:0000269 PubMed:21278745}. Note=Disease susceptibility is associated with variations affecting the gene represented in this entry.

Additional Disease Information for IRGM

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with IRGM: view

No data available for Genatlas for IRGM Gene

Publications for IRGM Gene

  1. Confirmation of multiple Crohn's disease susceptibility loci in a large Dutch-Belgian cohort. (PMID: 19174780) Weersma RK … Vermeire S (The American journal of gastroenterology 2009) 3 4 44 58
  2. Autophagy gene variant IRGM -261T contributes to protection from tuberculosis caused by Mycobacterium tuberculosis but not by M. africanum strains. (PMID: 19750224) Intemann CD … Meyer CG (PLoS pathogens 2009) 3 22 44 58
  3. Sequence variants in the autophagy gene IRGM and multiple other replicating loci contribute to Crohn's disease susceptibility. (PMID: 17554261) Parkes M … Mathew CG (Nature genetics 2007) 3 4 44 58
  4. A targeted association study in systemic lupus erythematosus identifies multiple susceptibility alleles. (PMID: 20962850) Budarf ML … Rioux JD (Genes and immunity 2011) 3 44 58
  5. Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci. (PMID: 21102463) Franke A … Parkes M (Nature genetics 2010) 3 44 58

Products for IRGM Gene

  • Addgene plasmids for IRGM

Sources for IRGM Gene

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