Irgm immunity-related GTPase M [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Irgmprovided by RGD
Official Full Name: immunity-related GTPase Mprovided by RGD
Primary source: RGD:1305163
See related: Ensembl:ENSRNOG00000031138 AllianceGenome:RGD:1305163
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Ifi1; Ifggd3
Summary: Predicted to enable several functions, including GTPase activity; protein domain specific binding activity; and protein serine/threonine kinase activator activity. Predicted to be involved in several processes, including intracellular signal transduction; positive regulation of protein phosphorylation; and response to bacterium. Predicted to act upstream of or within cellular response to interferon-gamma and response to bacterium. Predicted to be located in several cellular components, including Golgi membrane; autolysosome; and cytoplasmic vesicle. Predicted to be active in endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in inflammatory bowel disease 19 and tuberculosis. Orthologous to human IRGM (immunity related GTPase M). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 112.1), Spleen (RPKM 103.0) and 9 other tissues See more
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Genomic context

Location:: 10q21

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (33734640..33742720, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (33233513..33241594, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (34213885..34221968, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

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Markers

RH133553 (e-PCR)
- UniSTS:216836

RH131017 (e-PCR)
- UniSTS:214300

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables BH3 domain binding	ISO Inferred from Sequence Orthology more info
enables CARD domain binding	ISO Inferred from Sequence Orthology more info
enables G protein activity	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
enables GTPase activity	ISS Inferred from Sequence or Structural Similarity more info
enables cardiolipin binding	ISO Inferred from Sequence Orthology more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol-3,4,5-trisphosphate binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol-3,4-bisphosphate binding	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine kinase activator activity	ISO Inferred from Sequence Orthology more info
enables protein-macromolecule adaptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in CAMKK-AMPK signaling cascade	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome maturation	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to type II interferon	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within defense response	ISO Inferred from Sequence Orthology more info
involved_in defense response to Gram-negative bacterium	ISO Inferred from Sequence Orthology more info
involved_in defense response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in defense response to bacterium	ISS Inferred from Sequence or Structural Similarity more info
involved_in defense response to other organism	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	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of NLRP3 inflammasome complex assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of NLRP3 inflammasome complex assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cGAS/STING signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of defense response to virus	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of hematopoietic stem cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of hematopoietic stem cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of type I interferon production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of type I interferon production	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of type II interferon production	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of CD4-positive, alpha-beta T cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of CD4-positive, alpha-beta T cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of autophagosome maturation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of lysosome organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of macrophage activation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of macrophage activation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of mitochondrial fission	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitophagy	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of peptidyl-serine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of peptidyl-threonine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type II interferon-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of xenophagy	ISO Inferred from Sequence Orthology more info
involved_in protein destabilization	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in protein targeting to vacuole involved in autophagy	ISO Inferred from Sequence Orthology more info
involved_in protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitochondrial fission	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitochondrial fission	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of protein complex stability	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
is_active_in Golgi membrane	ISO Inferred from Sequence Orthology more info
located_in Golgi membrane	ISO Inferred from Sequence Orthology more info
is_active_in Golgi membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in autolysosome	ISO Inferred from Sequence Orthology more info
located_in autophagosome	ISO Inferred from Sequence Orthology more info
is_active_in autophagosome membrane	ISO Inferred from Sequence Orthology more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
is_active_in lysosomal membrane	ISO Inferred from Sequence Orthology more info
is_active_in lysosomal membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in mitochondrial membrane	ISO Inferred from Sequence Orthology more info
is_active_in mitochondrial membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in phagocytic cup	IEA Inferred from Electronic Annotation more info
located_in phagocytic vesicle	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: immunity-related GTPase family M protein

Names: immunity-related GTPase family, M; interferon inducible protein 1; interferon-gamma-inducible GTPase Ifggd3 protein

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001012007.1 → NP_001012007.1 immunity-related GTPase family M protein

See identical proteins and their annotated locations for NP_001012007.1

Status: PROVISIONAL

Source sequence(s)

BC079106

UniProtKB/Swiss-Prot

Q6AYC2

UniProtKB/TrEMBL

A6HDU6

Related

ENSRNOP00000047579.2, ENSRNOT00000045545.4

Conserved Domains (2) summary

cd04104
Location:78 → 258

p47_IIGP_like; p47 GTPase family includes IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1

pfam05049
Location:44 → 401

IIGP; Interferon-inducible GTPase (IIGP)

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

33734640..33742720 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006246178.4 → XP_006246240.1 immunity-related GTPase family M protein isoform X1

See identical proteins and their annotated locations for XP_006246240.1

UniProtKB/Swiss-Prot

Q6AYC2

UniProtKB/TrEMBL

A6HDU6

Conserved Domains (2) summary

cd04104
Location:78 → 258

p47_IIGP_like; p47 GTPase family includes IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1

pfam05049
Location:44 → 401

IIGP; Interferon-inducible GTPase (IIGP)
XM_006246179.4 → XP_006246241.1 immunity-related GTPase family M protein isoform X2

See identical proteins and their annotated locations for XP_006246241.1

UniProtKB/TrEMBL

A0A8I6AM97, J7NUQ1

Related

ENSRNOP00000094495.1

Conserved Domains (2) summary

cd04104
Location:62 → 242

p47_IIGP_like; p47 GTPase family includes IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1

pfam05049
Location:28 → 385

IIGP; Interferon-inducible GTPase (IIGP)