Gimap5 GTPase, IMAP family member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Gimap5provided by RGD
Official Full Name: GTPase, IMAP family member 5provided by RGD
Primary source: RGD:628871
See related: Ensembl:ENSRNOG00000008416 AllianceGenome:RGD:628871
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: lyp; IAN4; Ian5; Ian4l1
Summary: Predicted to enable GTP binding activity. Involved in several processes, including mononuclear cell differentiation; positive regulation of lymphocyte mediated immunity; and regulation of T cell activation. Located in mitochondrion. Used to study lymphopenia and type 1 diabetes mellitus. Human ortholog(s) of this gene implicated in portal hypertension. Orthologous to several human genes including GIMAP5 (GTPase, IMAP family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 123.9), Lung (RPKM 62.0) and 7 other tissues See more
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Genomic context

Location:: 4q24

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (79025151..79031917)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (77693417..77701025)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (78377228..78386683)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

These findings confirm a critical albeit differential role of T-cell lymphopenia in the susceptibility to organ-specific autoimmune responses.
Title: Distinct roles of T-cell lymphopenia and the microbial flora for gastrointestinal and CNS autoimmunity.
functional Gimap5 is required for optimal signaling through TCR and IL-7R in T cells.
Title: TCR and IL-7 Signaling Are Altered in the Absence of Functional GTPase of the Immune Associated Nucleotide Binding Protein 5 (GIMAP5).
Data indicate that reduced Ca2+ influx in GTPase of the immune-associated nucleotide-binding protein 5 (GIMAP5)-deficient T-cells is associated with the inability of their mitochondria to sequester Ca2+ following capacitative entry.
Title: GTPase of the immune-associated nucleotide-binding protein 5 (GIMAP5) regulates calcium influx in T-lymphocytes by promoting mitochondrial calcium accumulation.
results suggest that lack of the Gimap5 protein in the DR.(lyp/lyp) congenic rat was associated with impaired expression of the entire family of Gimap genes and may regulate T cell homeostasis in the peripheral lymphoid organs.
Title: BB rat Gimap gene expression in sorted lymphoid T and B cells.
Obesity and type 2 diabetes in the BioBreeding diabetes-resistant (BBDR) rat result in islet expansion associated with protection from T1D in female but not male BBDR(lepr-/lepr-,Gimap5-/Gimap5-) congenic rats.
Title: Differential effects of leptin receptor mutation on male and female BBDR Gimap5-/Gimap5- spontaneously diabetic rats.
results show that spontaneous type 1 diabetes is controlled by at least two genetic loci 7 Mb apart on rat chromosome 4
Title: Genetic dissection reveals diabetes loci proximal to the gimap5 lymphopenia gene.
GIMAP5 is an important regulator of calcium response in T lymphocytes and impaired calcium signaling might underlie spontaneous apoptosis of gimap5(lyp/lyp) T cells.
Title: Loss of GIMAP5 (GTPase of immunity-associated nucleotide binding protein 5) impairs calcium signaling in rat T lymphocytes.
Knockdown of CHOP by siRNA protected Gimap5(-/-) T cells from endoplasmic reticulum stress-induced apoptosis.
Title: CHOP mediates endoplasmic reticulum stress-induced apoptosis in Gimap5-deficient T cells.
These findings suggest that GIMAP5 regulates T lymphocyte survival by mechanisms that operate upstream of mitochondria.
Title: GIMAP5 regulates mitochondrial integrity from a distinct subcellular compartment.
Ian4 is a tissue-specific regulator of mitochondrial integrity and is required for T cell survival
Title: Ian4 is required for mitochondrial integrity and T cell survival.

Submit: New GeneRIF Correction See all GeneRIFs (15)

General gene information

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Markers

PMC186618P1 (e-PCR)
- UniSTS:271713

PMC186618P2 (e-PCR)
- UniSTS:271714

PMC186618P3 (e-PCR)
- UniSTS:271715

RH141689 (e-PCR)
- UniSTS:223682

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTP binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in T cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in T cell homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in myeloid dendritic cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of T cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of lipid catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of nitric oxide biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of type II interferon production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of calcium ion transport into cytosol	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gamma-delta T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of humoral immune response mediated by circulating immunoglobulin	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of membrane potential	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of natural killer cell cytokine production	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of natural killer cell mediated cytotoxicity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of mitochondrial membrane permeability	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in temperature homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in multivesicular body membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: GTPase IMAP family member 5

Names: IAN-4; immune associated nucleotide 4 like 1; immunity-associated nucleotide 4 protein; immunity-associated nucleotide 4-like 1 protein; lymphopenia

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_001033913.1 → NP_001029085.1 GTPase IMAP family member 5 isoform 1

See identical proteins and their annotated locations for NP_001029085.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and it encodes the longer protein (isoform 1).

Source sequence(s)

AY550018

UniProtKB/Swiss-Prot

Q5YEJ2, Q5YEJ3, Q8K3L6, Q8K3L7

UniProtKB/TrEMBL

A6K0I1

Related

ENSRNOP00000072663.2, ENSRNOT00000084927.2

Conserved Domains (2) summary

cd01852
Location:45 → 245

AIG1; AvrRpt2-Induced Gene 1 (AIG1)

cl21455
Location:14 → 66

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
NM_145680.3 → NP_663713.1 GTPase IMAP family member 5 isoform 2

See identical proteins and their annotated locations for NP_663713.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region, compared to variant 1, that results in the use of an upstream start codon. It encodes isoform 2 which has a shorter and distinct N-terminus compared to isoform 1.

Source sequence(s)

AY055776, AY550018

UniProtKB/TrEMBL

Q0R3W7

Conserved Domains (1) summary

cd01852
Location:27 → 227

AIG1; AvrRpt2-Induced Gene 1 (AIG1)