Free for academic non-profit institutions. Other users need a Commercial license

Aliases for IRGM Gene

Aliases for IRGM Gene

  • Immunity-Related GTPase Family, M 2 3
  • LRG47 3 4 6
  • IFI1 3 4 6
  • 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
  • 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
  • IBD19 6

External Ids for IRGM Gene

Previous Symbols for IRGM Gene

  • IRGM1

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.[provided by RefSeq, Oct 2010]

GeneCards Summary for IRGM Gene

IRGM (Immunity-Related GTPase Family, M) is a Protein Coding gene. Diseases associated with IRGM include tuberculosis and crohns disease. Among its related pathways are Leishmaniasis. 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

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

Genomics for IRGM Gene

Genomic Location for IRGM Gene

Start:
150,846,523 bp from pter
End:
150,900,736 bp from pter
Size:
54,214 bases
Orientation:
Plus strand

Genomic View for IRGM Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
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:
    A1A4Y4-IRGM_HUMAN
    Recommended name:
    Immunity-related GTPase family M protein
    Protein Accession:
    A1A4Y4
    Secondary Accessions:
    • B3VEX0

    Protein attributes for IRGM Gene

    Size:
    181 amino acids
    Molecular mass:
    20142 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • 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.
    SequenceCaution:
    • Sequence=AAI28169.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=EAW61704.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for IRGM Gene

Proteomics data for IRGM Gene at MOPED

Post-translational modifications for IRGM Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for IRGM Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for IRGM Gene

Domains for IRGM Gene

Protein Domains for IRGM Gene

UniProtKB/Swiss-Prot:

IRGM_HUMAN
Domain:
  • The G5 motif of the IRG-type G domain is missing because the IRGM protein is truncated in anthropoids:
    • A1A4Y4
  • Contains 1 IRG-type G (guanine nucleotide-binding) domain.:
    • A1A4Y4
Family:
  • Belongs to the TRAFAC class dynamin-like GTPase superfamily. IRG family.:
    • A1A4Y4
genes like me logo Genes that share domains with IRGM: view

No data available for Gene Families for IRGM Gene

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

Gene Ontology (GO) - Molecular Function for IRGM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005525 GTP binding IEA --
GO:0016787 hydrolase activity IEA --
GO:0016817 hydrolase activity, acting on acid anhydrides --
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

Animal Models for IRGM Gene

MGI Knock Outs for IRGM:

No data available for miRNA , Transcription Factor Targeting 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

COMPARTMENTS
Jensen Localization Image for IRGM Gene COMPARTMENTS Subcellular localization image for IRGM gene
Compartment Confidence
cytosol 2
golgi apparatus 2
lysosome 2
nucleus 2
plasma membrane 2
vacuole 2
cytoskeleton 1
extracellular 1

Gene Ontology (GO) - Cellular Components for IRGM Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IEA --
GO:0000421 autophagic vacuole membrane IEA --
GO:0001891 phagocytic cup IEA --
GO:0005794 Golgi apparatus --
GO:0005886 plasma membrane --
genes like me logo Genes that share ontologies with IRGM: view

Pathways for IRGM Gene

SuperPathways for IRGM Gene

Superpath Contained pathways
1 Leishmaniasis
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:0006914 autophagy IEA --
GO:0006954 inflammatory response IEA --
GO:0045087 innate immune response IEA --
genes like me logo Genes that share ontologies with IRGM: view

Transcripts for IRGM Gene

mRNA/cDNA for IRGM Gene

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

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

No ASD Table

Relevant External Links for IRGM Gene

GeneLoc Exon Structure for
IRGM
ECgene alternative splicing isoforms for
IRGM

Expression for IRGM Gene

mRNA expression in normal human tissues 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 (5.1).

SOURCE GeneReport for Unigene cluster for IRGM Gene Hs.519680

mRNA Expression by UniProt/SwissProt for IRGM Gene

A1A4Y4-IRGM_HUMAN
Tissue specificity: Widely expressed (at protein level). Expressed in several tissues including colon, small bowel and peripheral blood leukocytes.
genes like me logo Genes that share expressions with IRGM: view

Orthologs for IRGM Gene

This gene was present in the common ancestor of chordates.

Orthologs for IRGM Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia IRGM 36
  • 98.34 (n)
  • 96.69 (a)
IRGM 37
  • 97 (a)
OneToOne
cow
(Bos Taurus)
Mammalia IFI47 37
  • 16 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 37
  • 24 (a)
OneToMany
IFGGD3 37
  • 21 (a)
OneToMany
IRGM 36
  • 72.66 (n)
  • 60.11 (a)
IRGM5 37
  • 24 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Igtp 37
  • 21 (a)
OneToMany
Irgm1 16
Irgm1 37
  • 23 (a)
OneToMany
Irgm2 36
  • 68.74 (n)
  • 54.8 (a)
Irgm2 37
  • 23 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia IRGM 37
  • 17 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 25 (a)
OneToMany
-- 37
  • 8 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Irgm2 36
  • 70.64 (n)
  • 55.68 (a)
lizard
(Anolis carolinensis)
Reptilia IRGM 37
  • 12 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii CT027800.1 37
  • 5 (a)
ManyToMany
irgf3 37
  • 15 (a)
ManyToMany
irgq1 37
  • 9 (a)
ManyToMany
irgq2 37
  • 10 (a)
ManyToMany
Species with no ortholog for IRGM:
  • 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

ENSEMBL:
Gene Tree for IRGM (if available)
TreeFam:
Gene Tree for IRGM (if available)

Paralogs for IRGM Gene

Paralogs for IRGM Gene

Selected 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 Sequence Context AA Info Type MAF
rs751627 -- 150,845,551(-) CTGAG(C/T)GCGGG upstream-variant-2KB
rs2004711 -- 150,845,506(-) GGCCC(A/G)CAAGC upstream-variant-2KB
rs3057121 -- 150,845,021(-) ATACA(-/CACA)TCCCT upstream-variant-2KB
rs4958423 -- 150,845,390(+) CCGCC(A/G)CTGCA upstream-variant-2KB
rs4958424 -- 150,845,474(+) aggca(C/T)gggca upstream-variant-2KB

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

Variant ID Type Subtype PubMed ID
dgv1862e1 CNV Complex 17122850
nsv428129 CNV Loss 18775914
dgv1863e1 CNV Complex 17122850
nsv5067 CNV Loss 18451855
nsv883032 CNV Loss 21882294

Relevant External Links for IRGM Gene

HapMap Linkage Disequilibrium report
IRGM
Human Gene Mutation Database (HGMD)
IRGM
Locus Specific Mutation Databases (LSDB)
IRGM

Disorders for IRGM Gene

(2) OMIM Diseases for IRGM Gene (608212)

UniProtKB/Swiss-Prot

IRGM_HUMAN
  • 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.

(3) University of Copenhagen DISEASES for IRGM Gene

Relevant External Links for IRGM

Genetic Association Database (GAD)
IRGM
Human Genome Epidemiology (HuGE) Navigator
IRGM
genes like me logo Genes that share disorders with IRGM: view

Publications for IRGM Gene

  1. Autophagy gene variant IRGM -261T contributes to protection from tuberculosis caused by Mycobacterium tuberculosis but not by M. africanum strains. (PMID: 19750224) Intemann C.D. … Meyer C.G. (PLoS Pathog. 2009) 3 23 49
  2. Confirmation of multiple Crohn's disease susceptibility loci in a large Dutch-Belgian cohort. (PMID: 19174780) Weersma R.K. … Vermeire S. (Am. J. Gastroenterol. 2009) 3 4 49
  3. Sequence variants in the autophagy gene IRGM and multiple other replicating loci contribute to Crohn's disease susceptibility. (PMID: 17554261) Parkes M. … Mathew C.G. (Nat. Genet. 2007) 3 4 49
  4. Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. (PMID: 17554300) (Nature 2007) 3 49
  5. Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci. (PMID: 21102463) Franke A. … Parkes M. (Nat. Genet. 2010) 3 49

Products for IRGM Gene

Sources for IRGM Gene

Back to Top

Content