Lcn8 (lipocalin 8) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Lcn8 (lipocalin 8) Mus musculus
Analyze
Symbol: Lcn8
Name: lipocalin 8
RGD ID: 1551878
MGI Page MGI
Description: Predicted to enable small molecule binding activity. Acts upstream of or within response to hormone. Predicted to be located in extracellular region. Orthologous to human LCN8 (lipocalin 8).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 9230106L18Rik; EP1; EP17; epididymal 17 kDa lipocalin; epididymal-specific lipocalin-8; Lcn5; lipocalin 5; mEP1; mEP17
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,543,130 - 25,546,229 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,543,132 - 25,546,229 (+)EnsemblGRCm39 Ensembl
GRCm38225,653,118 - 25,656,217 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,653,120 - 25,656,217 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,508,638 - 25,511,737 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,475,127 - 25,478,226 (+)NCBIMGSCv36mm8
Celera225,381,431 - 25,384,530 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.67NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. MGDs mouse GO annotations MGD data from the GO Consortium
3. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11181548   PMID:12477932   PMID:12586764   PMID:12586765   PMID:15363845   PMID:15489334   PMID:15782199   PMID:16141072   PMID:16141073  
PMID:21267068   PMID:30782214   PMID:33631677   PMID:34328598  


Genomics

Comparative Map Data
Lcn8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,543,130 - 25,546,229 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,543,132 - 25,546,229 (+)EnsemblGRCm39 Ensembl
GRCm38225,653,118 - 25,656,217 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,653,120 - 25,656,217 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,508,638 - 25,511,737 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,475,127 - 25,478,226 (+)NCBIMGSCv36mm8
Celera225,381,431 - 25,384,530 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.67NCBI
LCN8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,754,386 - 136,758,543 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9136,754,386 - 136,758,543 (-)EnsemblGRCh38hg38GRCh38
GRCh379139,648,838 - 139,652,995 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,768,661 - 138,772,552 (-)NCBINCBI36Build 36hg18NCBI36
Celera9110,161,959 - 110,165,851 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,107,983 - 109,111,935 (-)NCBIHuRef
CHM1_19139,797,366 - 139,801,258 (-)NCBICHM1_1
T2T-CHM13v2.09148,987,564 - 148,991,721 (-)NCBIT2T-CHM13v2.0
Lcn8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,866,061 - 28,869,045 (+)NCBIGRCr8
mRatBN7.238,467,934 - 8,473,691 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,467,934 - 8,470,918 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,573,170 - 11,576,154 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,159,394 - 20,162,378 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,349,246 - 18,352,230 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,871,890 - 2,875,682 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,872,031 - 2,875,015 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,853,444 - 2,856,428 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,820,216 - 3,823,200 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.133,820,237 - 3,822,481 (+)NCBI
Celera33,292,835 - 3,295,819 (+)NCBICelera
Cytogenetic Map3p13NCBI
Lcn8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,877,501 - 4,879,978 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555134,877,845 - 4,879,978 (-)NCBIChiLan1.0ChiLan1.0
LCN8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,641,561 - 2,649,604 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,643,829 - 2,651,939 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09107,811,520 - 107,817,297 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19136,782,390 - 136,787,292 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9136,783,245 - 136,787,178 (-)Ensemblpanpan1.1panPan2
LCN8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,789,948 - 48,796,002 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl948,769,526 - 48,794,188 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha948,003,406 - 48,009,615 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,667,935 - 49,674,144 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,669,396 - 49,672,318 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,444,078 - 48,450,287 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,742,733 - 48,748,941 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,789,748 - 48,795,960 (+)NCBIUU_Cfam_GSD_1.0
Lcn8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,240,745 - 202,243,830 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,131,292 - 1,133,597 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366691,131,292 - 1,134,313 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LCN8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,434,872 - 1,439,861 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,435,151 - 1,438,604 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660583,833,411 - 3,836,435 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lcn8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247601,052,765 - 1,055,559 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lcn8
67 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:253
Count of miRNA genes:237
Interacting mature miRNAs:245
Transcripts:ENSMUST00000038482
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301838Sluc16_msusceptibility to lung cancer 16 (mouse)Not determined2126529589Mouse
12904743Carcdq3_mcardiac collagen deposition QTL 3 (mouse)2323494028179150Mouse
1301769Orgwq2_morgan weight QTL 2 (mouse)Not determined2388712693421651Mouse
1301980Fcsa5_mfemoral cross-sectional area 5 (mouse)Not determined2767911541679261Mouse
1301790Pcfm1_mperiosteal circumference and femur length 1 (mouse)Not determined2823629642236396Mouse
10043876Adip22_madiposity 22 (mouse)Not determined2830805142308240Mouse
1300624Insq7_minsulin QTL 7 (mouse)Not determined2938444643384575Mouse
10755513Amzn4_manatomical modifier of Zfp423 4 (mouse)2938444643384575Mouse
12903993Opfaq1_mopen field activity QTL 1 (mouse)2967669127022642Mouse
8552707Cia23_mcollagen induced arthritis QTL 23 (mouse)Not determined21212953766556453Mouse
1301641Sbmd2_mspinal bone mineral density 2 (mouse)Not determined21421456748214713Mouse
1357881Estoq1_membryo survival total QTL 1 (mouse)Not determined220897778118894840Mouse
1357454Kidq1_mkidney weight QTL 1 (mouse)Not determined220897778118894840Mouse
1357436Splq1_mspleen weight QTL 1 (mouse)Not determined220897778118894840Mouse
39128209Lwq14_mliver weight QTL 14 (mouse)220897778118894840Mouse
1558899Egq1_mearly growth QTL 1 (mouse)Not determined220897778118894840Mouse
1558966W10q9_mweight 10 weeks QTL 9 (mouse)Not determined220897778118894840Mouse
1558915W3q1_mweight 3 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1558738W6q1_mweight 6 weeks QTL 1 (mouse)Not determined220897778118894840Mouse
1357681Hrtq1_mheart weight QTL 1 (mouse)Not determined220897778118894840Mouse
1301376Etohc1_methanol consumption 1 (mouse)Not determined22112972555129871Mouse
4141708Pbwg1.2_mpostnatal body weight growth 1.2 (mouse)Not determined2112972555129871Mouse
13463470Tubisq1_mtubulointerstitial injury severity, QTL 1 (mouse)22368914557689269Mouse
1302174Dssc2_mdextran sodium sulfate induced colitis QTL2 (mouse)Not determined224224632148700377Mouse
26884438Sklq12_mskull length QTL 12, 16 week (mouse)22459001254890012Mouse
8552705Cia25_mcollagen induced arthritis 25 (mouse)Not determined22467911533523172Mouse
8552706Cia24_mcollagen induced arthritis QTL 24 (mouse)Not determined22467911533523172Mouse
12792980Fbmd1_mfemoral bone mineral density 1, females only (mouse)22503449245034492Mouse
4142130Pgis2_mproteoglycan induced spondylitis 2 (mouse)Not determined22530805156971811Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000038482   ⟹   ENSMUSP00000043902
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl225,543,132 - 25,546,229 (+)Ensembl
GRCm38.p6 Ensembl225,653,120 - 25,656,217 (+)Ensembl
RefSeq Acc Id: NM_033145   ⟹   NP_149157
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39225,543,130 - 25,546,229 (+)NCBI
GRCm38225,653,118 - 25,656,217 (+)ENTREZGENE
MGSCv37225,508,638 - 25,511,737 (+)RGD
Celera225,381,431 - 25,384,530 (+)RGD
cM Map2 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_149157 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH48433 (Get FASTA)   NCBI Sequence Viewer  
  AAK58105 (Get FASTA)   NCBI Sequence Viewer  
  BAC25622 (Get FASTA)   NCBI Sequence Viewer  
  EDL08269 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000043902
  ENSMUSP00000043902.7
GenBank Protein Q924P3 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_149157   ⟸   NM_033145
- Peptide Label: precursor
- UniProtKB: Q924P3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000043902   ⟸   ENSMUST00000038482

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q924P3-F1-model_v2 AlphaFold Q924P3 1-175 view protein structure

Promoters
RGD ID:6876636
Promoter ID:EPDNEW_M1769
Type:multiple initiation site
Name:Lcn8_1
Description:Mus musculus lipocalin 8 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38225,653,119 - 25,653,179EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2135945 AgrOrtholog
Ensembl Genes ENSMUSG00000036449 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000038482 ENTREZGENE
  ENSMUST00000038482.7 UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.128.20 UniProtKB/Swiss-Prot
InterPro Calycin UniProtKB/Swiss-Prot
  Lipocalin UniProtKB/Swiss-Prot
  Lipocln_cytosolic_FA-bd_dom UniProtKB/Swiss-Prot
KEGG Report mmu:78076 UniProtKB/Swiss-Prot
MGD MGI:2135945 ENTREZGENE
NCBI Gene 78076 ENTREZGENE
PANTHER EPIDIDYMAL-SPECIFIC LIPOCALIN-8 UniProtKB/Swiss-Prot
  PTHR11430 UniProtKB/Swiss-Prot
Pfam Lipocalin UniProtKB/Swiss-Prot
PhenoGen Lcn8 PhenoGen
Superfamily-SCOP SSF50814 UniProtKB/Swiss-Prot
UniProt LCN8_MOUSE UniProtKB/Swiss-Prot
  Q8CEK9_MOUSE UniProtKB/TrEMBL
  Q924P3 ENTREZGENE