U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Protein

    • Showing Current items.

    IRGM immunity related GTPase M [ Homo sapiens (human) ]

    Gene ID: 345611, updated on 10-Dec-2024

    Summary

    Official Symbol
    IRGMprovided by HGNC
    Official Full Name
    immunity related GTPase Mprovided by HGNC
    Primary source
    HGNC:HGNC:29597
    See related
    Ensembl:ENSG00000237693 MIM:608212; AllianceGenome:HGNC:29597
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    IFI1; IBD19; IRGM1; LRG47; LRG-47
    Summary
    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]
    Expression
    Low expression observed in reference dataset See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See IRGM in Genome Data Viewer
    Location:
    5q33.1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (150846521..150902402)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (151383019..151438900)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (150226083..150281964)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene dynactin subunit 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23426 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23427 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23428 Neighboring gene uncharacterized LOC124901110 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16517 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:150158841-150159702 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:150168717-150169696 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:150169697-150170675 Neighboring gene small integral membrane protein 3 Neighboring gene Sharpr-MPRA regulatory region 7532 Neighboring gene uncharacterized LOC124901113 Neighboring gene uncharacterized LOC124901111 Neighboring gene uncharacterized LOC124901112 Neighboring gene zinc finger protein 300 Neighboring gene zinc finger protein 300 pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    Associated conditions

    Description Tests
    Inflammatory bowel disease 19
    MedGen: C2677079 OMIM: 612278 GeneReviews: Not available
    Compare labs
    Mycobacterium tuberculosis, susceptibility to
    MedGen: C1834752 OMIM: 607948 GeneReviews: Not available
    Compare labs

    EBI GWAS Catalog

    Description
    Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease.
    EBI GWAS Catalog
    Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls.
    EBI GWAS Catalog
    Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
    EBI GWAS Catalog
    Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
    EBI GWAS Catalog
    Sequence variants in the autophagy gene IRGM and multiple other replicating loci contribute to Crohn's disease susceptibility.
    EBI GWAS Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Nef nef Depletion of IRGM reduces HIV-1-increased LC3-II expression. IRGM is involved in HIV-mediated autophagosome accumulation via its interaction with Nef PubMed
    nef Protein/protein interactions of virus/autophagy-associated proteins by yeast two-hybrid array reveals the interaction between HIV-1 Nef and immunity-related GTPase family M protein (IRGM) PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC149263, MGC149264

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables BH3 domain binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables CARD domain binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables G protein activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables GTPase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables cardiolipin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables membrane scission GTPase motor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein serine/threonine kinase activator activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein serine/threonine kinase activator activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables protein-macromolecule adaptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in CAMKK-AMPK signaling cascade IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in autophagosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in autophagosome assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in autophagosome maturation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to interferon-beta IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cellular response to lipopolysaccharide IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular response to virus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in defense response to Gram-negative bacterium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in defense response to bacterium IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in defense response to bacterium IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in innate immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of NLRP3 inflammasome complex assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of cGAS/STING signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of canonical NF-kappaB signal transduction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of defense response to virus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of inflammatory response IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of type I interferon production IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of type II interferon production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in nucleotide-binding oligomerization domain containing 2 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of autophagosome maturation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of autophagy IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of autophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of lysosome organization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of macrophage activation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of mitochondrial fission IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of mitophagy IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of peptidyl-serine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of peptidyl-threonine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of protein phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of protein serine/threonine kinase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of type II interferon-mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of xenophagy IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein destabilization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein lipidation involved in autophagosome assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein stabilization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in protein targeting to vacuole involved in autophagy IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in protein-containing complex assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of protein complex stability IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of protein-containing complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in Golgi membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in autophagosome membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in late endosome membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in lysosomal membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in mitochondrial membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in phagocytic cup IEA
    Inferred from Electronic Annotation
    more info
     
    located_in phagocytic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    immunity-related GTPase family M protein
    Names
    LPS-stimulated RAW 264.7 macrophage protein 47 homolog
    LRG-47-like protein
    immunity-related GTPase family, M1
    interferon-inducible protein 1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_027809.2 RefSeqGene

      Range
      4999..7180
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001145805.2NP_001139277.1  immunity-related GTPase family M protein isoform 2

      See identical proteins and their annotated locations for NP_001139277.1

      Status: REVIEWED

      Source sequence(s)
      AC010441
      Consensus CDS
      CCDS47313.1
      UniProtKB/Swiss-Prot
      A1A4Y4, B3VEX0, H0YBM2
      Related
      ENSP00000428220.1, ENST00000522154.2
      Conserved Domains (1) summary
      cl21455
      Location:33180
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
    2. NM_001346557.2NP_001333486.1  immunity-related GTPase family M protein isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC010441
      Conserved Domains (1) summary
      cl38936
      Location:33179
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

    RNA

    1. NR_170598.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC010441

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      150846521..150902402
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      151383019..151438900
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)