Lcn2 lipocalin 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lcn2provided by RGD
Official Full Name: lipocalin 2provided by RGD
Primary source: RGD:69408
See related: Ensembl:ENSRNOG00000013973 AllianceGenome:RGD:69408
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: Sip24
Summary: Enables enterobactin binding activity; identical protein binding activity; and protease binding activity. Involved in several processes, including cellular response to cytokine stimulus; memory; and regulation of neuron apoptotic process. Located in cytosol and extracellular space. Used to study intrahepatic cholangiocarcinoma and retinal degeneration. Biomarker of several diseases, including acute kidney failure; congenital diaphragmatic hernia; obesity; pulmonary hypertension; and transient cerebral ischemia. Human ortholog(s) of this gene implicated in urinary tract infection. Orthologous to human LCN2 (lipocalin 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Testes (RPKM 27.4), Lung (RPKM 18.2) and 8 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 3p12

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (36078432..36081851, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (15680688..15684033, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (11414189..11417534, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The Transcription Factor Ets1 Influences Axonal Growth via Regulation of Lcn2.
Title: The Transcription Factor Ets1 Influences Axonal Growth via Regulation of Lcn2.
The effect of interval training on adipokine plasmatic levels in rats with induced myocardial infarction.
Title: The effect of interval training on adipokine plasmatic levels in rats with induced myocardial infarction.
Upregulation of Megalin, Cubilin, NGAL mRNA expression in kidney may represent tubular injury and apoptosis in chronic condition of rat diabetic model.
Title: Upregulation of Megalin, Cubilin, NGAL mRNA expression in kidney may represent tubular injury and apoptosis in chronic condition of rat diabetic model.
Silencing of lipocalin-2 improves cardiomyocyte viability under iron overload conditions via decreasing mitochondrial dysfunction and apoptosis.
Title: Silencing of lipocalin-2 improves cardiomyocyte viability under iron overload conditions via decreasing mitochondrial dysfunction and apoptosis.
Effect of Sleeve Gastrectomy on Glycometabolism via Forkhead Box O1 (FoxO1)/Lipocalin-2 (LCN2) Pathway.
Title: Effect of Sleeve Gastrectomy on Glycometabolism via Forkhead Box O1 (FoxO1)/Lipocalin-2 (LCN2) Pathway.
The gonadal expression pattern of lipocalin2 and 24p3 receptor is modified in the gonads of the offspring of obese rats.
Title: The gonadal expression pattern of lipocalin‑2 and 24p3 receptor is modified in the gonads of the offspring of obese rats.
Prediction Value of Serum NGAL in the Diagnosis and Prognosis of Experimental Acute and Chronic Kidney Injuries.
Title: Prediction Value of Serum NGAL in the Diagnosis and Prognosis of Experimental Acute and Chronic Kidney Injuries.
Time-dependent hemeoxygenase-1, lipocalin-2 and ferritin induction after non-contusion traumatic brain injury.
Title: Time-dependent hemeoxygenase-1, lipocalin-2 and ferritin induction after non-contusion traumatic brain injury.
Our findings suggest that elevated LCN2 in the blood after ischemic stroke might affect endothelial function, in part by reducing damage to endothelial junctional proteins and maintain blood-brain barrier integrity.
Title: Effects of lipocalin-2 on brain endothelial adhesion and permeability.
NGAL can directly affect cardiomyocytes and cause cardiomyocyte deteriorated hypoxia injury through inhibiting integrin ss3 signaling.
Title: Neutrophil Gelatinase-Associated Lipocalin2 Exaggerates Cardiomyocyte Hypoxia Injury by Inhibiting Integrin β3 Signaling.

Submit: New GeneRIF Correction See all GeneRIFs (55)

General gene information

Go to the top of the page Help

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables enterobactin binding	IPI Inferred from Physical Interaction more info	PubMed
enables enterobactin binding	ISO Inferred from Sequence Orthology more info
enables enterobactin binding	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables iron ion binding	ISO Inferred from Sequence Orthology more info
enables iron ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables iron ion sequestering activity	ISO Inferred from Sequence Orthology more info
enables iron ion sequestering activity	ISS Inferred from Sequence or Structural Similarity more info
enables protease binding	IPI Inferred from Physical Interaction more info	PubMed
enables small molecule binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in acute-phase response	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to X-ray	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to amyloid-beta	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to hydrogen peroxide	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to increased oxygen levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to interleukin-1	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to interleukin-6	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to nerve growth factor stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to tumor necrosis factor	IEP Inferred from Expression Pattern more info	PubMed
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
acts_upstream_of_or_within extrinsic apoptotic signaling pathway in absence of ligand	ISO Inferred from Sequence Orthology 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 long-term memory	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of hippocampal neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of cell projection organization	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cold-induced thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cold-induced thermogenesis	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in positive regulation of endothelial cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of endothelial tube morphogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of gene expression	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of hippocampal neuron apoptotic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of iron ion import across plasma membrane	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of reactive oxygen species biosynthetic process	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of reactive oxygen species metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to bacterium	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in response to blue light	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to fructose	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to herbicide	IDA Inferred from Direct Assay more info	PubMed
involved_in response to iron(II) ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to kainic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to mycotoxin	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to oxidative stress	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to toxic substance	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to virus	ISO Inferred from Sequence Orthology more info
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in short-term memory	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in siderophore transport	ISO Inferred from Sequence Orthology more info
involved_in siderophore transport	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasmic vesicle lumen	IEA Inferred from Electronic Annotation more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISS Inferred from Sequence or Structural Similarity more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: neutrophil gelatinase-associated lipocalin

Names: NGAL; alpha-2-microglobulin-related protein; alpha-2U globulin-related protein; lipocalin 2 (oncogene 24p3); lipocalin 24p3; p25; siderocalin LCN2

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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.

mRNA and Protein(s)

NM_130741.1 → NP_570097.1 neutrophil gelatinase-associated lipocalin precursor

See identical proteins and their annotated locations for NP_570097.1

Status: PROVISIONAL

Source sequence(s)

X13295

UniProtKB/Swiss-Prot

P30152, Q5HZF1

UniProtKB/TrEMBL

A6JU59

Related

ENSRNOP00000018776.3, ENSRNOT00000018776.6

Conserved Domains (1) summary

pfam00061
Location:48 → 193

Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

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_086021.1 Reference GRCr8

Range

36078432..36081851 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063283026.1 → XP_063139096.1 neutrophil gelatinase-associated lipocalin isoform X2
XM_063283025.1 → XP_063139095.1 neutrophil gelatinase-associated lipocalin isoform X1

UniProtKB/TrEMBL

A0A8I5ZNE2