LCN2 (lipocalin 2) - Rat Genome Database

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Gene: LCN2 (lipocalin 2) Canis lupus familiaris
Analyze
Symbol: LCN2
Name: lipocalin 2
RGD ID: 12210611
Description: ENCODES a protein that exhibits enterobactin binding (ortholog); identical protein binding (ortholog); iron ion binding (ortholog); INVOLVED IN acute-phase response (ortholog); cellular response to amyloid-beta (ortholog); cellular response to hydrogen peroxide (ortholog); ASSOCIATED WITH Abscess (ortholog); acute cystitis (ortholog); acute kidney failure (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); extracellular region (ortholog); INTERACTS WITH gentamycin
Type: protein-coding
RefSeq Status: MODEL
Also known as: lipocalin 2 (oncogene 24p3); neutrophil gelatinase-associated lipocalin
RGD Orthologs
Human
Mouse
Rat
Bonobo
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1955,328,118 - 55,342,535 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl955,328,133 - 55,332,038 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha954,522,898 - 54,537,231 (-)NCBI
ROS_Cfam_1.0956,250,316 - 56,264,670 (-)NCBI
UMICH_Zoey_3.1955,010,191 - 55,024,522 (-)NCBI
UNSW_CanFamBas_1.0955,324,906 - 55,339,237 (-)NCBI
UU_Cfam_GSD_1.0955,416,588 - 55,430,934 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Abscess  (ISO)
acute cystitis  (ISO)
acute kidney failure  (ISO)
adult respiratory distress syndrome  (ISO)
amyotrophic lateral sclerosis  (ISO)
Animal Hepatitis  (ISO)
autosomal dominant polycystic kidney disease  (ISO)
beta thalassemia  (ISO)
Brain Injuries, Traumatic  (ISO)
calcinosis  (ISO)
celiac disease  (ISO)
Cerebral Hemorrhage  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
Chlamydophila Infections  (ISO)
chronic kidney disease  (ISO)
colon cancer  (ISO)
congenital diaphragmatic hernia  (ISO)
congenital disorder of glycosylation Iu  (ISO)
contact dermatitis  (ISO)
Contrast-Induced Nephropathy  (ISO)
COVID-19  (ISO)
developmental and epileptic encephalopathy  (ISO)
developmental and epileptic encephalopathy 31  (ISO)
Diabetic Nephropathies  (ISO)
disease of cellular proliferation  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
early infantile epileptic encephalopathy  (ISO)
end stage renal disease  (ISO)
Endotoxemia  (ISO)
Escherichia Coli Infections  (ISO)
essential hypertension  (ISO)
Experimental Diabetes Mellitus  (ISO)
Experimental Liver Cirrhosis  (ISO)
Haemophilus Infections  (ISO)
heart valve disease  (ISO)
Helicobacter Infections  (ISO)
hidradenitis suppurativa  (ISO)
hydronephrosis  (ISO)
hyperuricemia  (ISO)
IgA glomerulonephritis  (ISO)
Inflammation  (ISO)
intrahepatic cholangiocarcinoma  (ISO)
kidney disease  (ISO)
Kidney Reperfusion Injury  (ISO)
Klebsiella pneumonia  (ISO)
myocardial infarction  (ISO)
myocarditis  (ISO)
Neoplasm Metastasis  (ISO)
obesity  (ISO)
oral candidiasis  (ISO)
pneumonia  (ISO)
polycystic kidney disease  (ISO)
pre-eclampsia  (ISO)
primary coenzyme Q10 deficiency 7  (ISO)
pulmonary hypertension  (ISO)
pulmonary tuberculosis  (ISO)
Radiation Injuries, Experimental  (ISO)
renal fibrosis  (ISO)
Renal Ischemia  (ISO)
renovascular hypertension  (ISO)
retinal degeneration  (ISO)
rheumatoid arthritis  (ISO)
Sepsis  (ISO)
Streptococcal Infections  (ISO)
Stroke  (ISO)
Subarachnoid Hemorrhage  (ISO)
transient cerebral ischemia  (ISO)
type 2 diabetes mellitus  (ISO)
urinary tract infection  (ISO)
uveitis  (ISO)
West Nile encephalitis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
gentamycin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acute-phase response  (ISO)
cellular response to amyloid-beta  (ISO)
cellular response to hydrogen peroxide  (ISO)
cellular response to increased oxygen levels  (ISO)
cellular response to interleukin-1  (ISO)
cellular response to interleukin-6  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to nerve growth factor stimulus  (ISO)
cellular response to nutrient levels  (ISO)
cellular response to oxygen-glucose deprivation  (ISO)
cellular response to tumor necrosis factor  (ISO)
cellular response to X-ray  (ISO)
defense response to bacterium  (ISO)
extrinsic apoptotic signaling pathway in absence of ligand  (ISO)
innate immune response  (ISO)
long-term memory  (ISO)
negative regulation of hippocampal neuron apoptotic process  (ISO)
positive regulation of apoptotic process  (ISO)
positive regulation of cell projection organization  (ISO)
positive regulation of cold-induced thermogenesis  (ISO)
positive regulation of endothelial cell migration  (ISO)
positive regulation of endothelial tube morphogenesis  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of iron ion import across plasma membrane  (ISO)
positive regulation of neuron apoptotic process  (ISO)
positive regulation of neuron death  (ISO)
positive regulation of reactive oxygen species biosynthetic process  (ISO)
positive regulation of reactive oxygen species metabolic process  (ISO)
response to bacterium  (ISO)
response to blue light  (ISO)
response to fructose  (ISO)
response to herbicide  (ISO)
response to iron(II) ion  (ISO)
response to mycotoxin  (ISO)
response to nutrient levels  (ISO)
response to oxidative stress  (ISO)
response to toxic substance  (ISO)
response to virus  (ISO)
response to xenobiotic stimulus  (ISO)
sequestering of iron ion  (ISO)
short-term memory  (ISO)
siderophore transport  (ISO)

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:25160665   PMID:26415728   PMID:26725776   PMID:27851800   PMID:31050171  


Genomics

Comparative Map Data
LCN2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1955,328,118 - 55,342,535 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl955,328,133 - 55,332,038 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha954,522,898 - 54,537,231 (-)NCBI
ROS_Cfam_1.0956,250,316 - 56,264,670 (-)NCBI
UMICH_Zoey_3.1955,010,191 - 55,024,522 (-)NCBI
UNSW_CanFamBas_1.0955,324,906 - 55,339,237 (-)NCBI
UU_Cfam_GSD_1.0955,416,588 - 55,430,934 (-)NCBI
LCN2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9128,149,071 - 128,153,453 (+)EnsemblGRCh38hg38GRCh38
GRCh389128,149,453 - 128,153,453 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379130,911,732 - 130,915,732 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369129,951,553 - 129,955,555 (+)NCBINCBI36hg18NCBI36
Build 349127,991,271 - 127,995,288NCBI
Celera9101,562,624 - 101,566,626 (+)NCBI
Cytogenetic Map9q34.11NCBI
HuRef9100,525,402 - 100,529,404 (+)NCBIHuRef
CHM1_19131,062,742 - 131,066,744 (+)NCBICHM1_1
Lcn2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39232,274,649 - 32,277,751 (-)NCBIGRCm39mm39
GRCm39 Ensembl232,274,645 - 32,278,264 (-)Ensembl
GRCm38232,384,637 - 32,387,739 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl232,384,633 - 32,388,252 (-)EnsemblGRCm38mm10GRCm38
MGSCv37232,240,157 - 32,243,259 (-)NCBIGRCm37mm9NCBIm37
MGSCv36232,206,646 - 32,209,748 (-)NCBImm8
Celera232,090,046 - 32,093,150 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map222.09NCBI
Lcn2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2315,680,688 - 15,684,033 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl311,414,186 - 11,417,546 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0311,414,189 - 11,417,534 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0316,763,059 - 16,766,404 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4311,511,402 - 11,514,747 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1311,407,773 - 11,411,119 (-)NCBI
Celera310,423,569 - 10,426,914 (-)NCBICelera
Cytogenetic Map3p12NCBI
LCN2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19127,940,799 - 127,944,798 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9127,940,799 - 127,944,798 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0999,259,278 - 99,274,494 (+)NCBIMhudiblu_PPA_v0panPan3
Lcn2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947195,953,204 - 195,956,869 (+)NCBI
SpeTri2.0NW_00493648715,721,752 - 15,725,396 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LCN2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11268,609,975 - 268,614,651 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21302,600,679 - 302,609,836 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LCN2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1129,976,278 - 9,981,087 (-)NCBI
ChlSab1.1 Ensembl129,976,614 - 9,980,870 (-)Ensembl
Vero_WHO_p1.0NW_0236660796,251,600 - 6,256,754 (+)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 6
Low 5 13 5 3 5 6 7 8 8
Below cutoff 5 9 1 3 1 6 5 2

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_022423769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_022423770 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038487291 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038487292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038487293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038549218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038549219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038549220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038613162 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038613163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038613164 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038618381 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038618383 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038678462 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038678463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038678464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000313 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000009 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000031971   ⟹   ENSCAFP00000029769
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl955,328,133 - 55,332,038 (-)Ensembl
RefSeq Acc Id: XM_022423769   ⟹   XP_022279477
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1955,328,118 - 55,334,752 (-)NCBI
Sequence:
RefSeq Acc Id: XM_022423770   ⟹   XP_022279478
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1955,328,118 - 55,342,535 (-)NCBI
Dog10K_Boxer_Tasha954,522,898 - 54,526,808 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038487291   ⟹   XP_038343219
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1955,010,191 - 55,014,101 (-)NCBI
RefSeq Acc Id: XM_038487292   ⟹   XP_038343220
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1955,010,191 - 55,024,522 (-)NCBI
RefSeq Acc Id: XM_038487293   ⟹   XP_038343221
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1955,010,191 - 55,016,827 (-)NCBI
RefSeq Acc Id: XM_038549218   ⟹   XP_038405146
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0955,416,588 - 55,420,498 (-)NCBI
RefSeq Acc Id: XM_038549219   ⟹   XP_038405147
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0955,416,588 - 55,430,934 (-)NCBI
RefSeq Acc Id: XM_038549220   ⟹   XP_038405148
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0955,416,588 - 55,423,224 (-)NCBI
RefSeq Acc Id: XM_038613162   ⟹   XP_038469090
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0955,324,906 - 55,328,816 (-)NCBI
RefSeq Acc Id: XM_038613163   ⟹   XP_038469091
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0955,324,906 - 55,339,237 (-)NCBI
RefSeq Acc Id: XM_038613164   ⟹   XP_038469092
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0955,324,906 - 55,331,542 (-)NCBI
RefSeq Acc Id: XM_038618381   ⟹   XP_038474309
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha954,522,898 - 54,537,231 (-)NCBI
RefSeq Acc Id: XM_038618383   ⟹   XP_038474311
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha954,522,898 - 54,529,534 (-)NCBI
RefSeq Acc Id: XM_038678462   ⟹   XP_038534390
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0956,250,316 - 56,254,227 (-)NCBI
RefSeq Acc Id: XM_038678463   ⟹   XP_038534391
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0956,250,316 - 56,264,670 (-)NCBI
RefSeq Acc Id: XM_038678464   ⟹   XP_038534392
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0956,250,316 - 56,256,953 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_022279478   ⟸   XM_022423770
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_022279477   ⟸   XM_022423769
- Sequence:
RefSeq Acc Id: ENSCAFP00000029769   ⟸   ENSCAFT00000031971
RefSeq Acc Id: XP_038343220   ⟸   XM_038487292
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038343221   ⟸   XM_038487293
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038343219   ⟸   XM_038487291
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038469091   ⟸   XM_038613163
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038469092   ⟸   XM_038613164
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038469090   ⟸   XM_038613162
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038534391   ⟸   XM_038678463
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038534392   ⟸   XM_038678464
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038534390   ⟸   XM_038678462
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038474309   ⟸   XM_038618381
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038474311   ⟸   XM_038618383
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038405147   ⟸   XM_038549219
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038405148   ⟸   XM_038549220
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038405146   ⟸   XM_038549218
- Peptide Label: isoform X1
Protein Domains
Lipocln_cytosolic_FA-bd_dom

Promoters
RGD ID:13684824
Promoter ID:EPDNEW_C2890
Type:single initiation site
Name:LCN2_1
Description:lipocalin 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1955,332,047 - 55,332,107EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000020088 Ensembl, ENTREZGENE
NCBI Gene LCN2 ENTREZGENE
VGNC ID VGNC:42612 ENTREZGENE