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Aliases for LCN9 Gene

Aliases for LCN9 Gene

  • Lipocalin 9 2 3 5
  • MUP-Like Lipocalin 2 3 4
  • Epididymal-Specific Lipocalin-9 2 3
  • Epididymis Luminal Protein 129 3
  • HEL129 3

External Ids for LCN9 Gene

Previous GeneCards Identifiers for LCN9 Gene

  • GC09P133995
  • GC09P135781
  • GC09P137694
  • GC09P138555
  • GC09P108017

Summaries for LCN9 Gene

Entrez Gene Summary for LCN9 Gene

  • Members of the lipocalin family, such as LCN9, have a common structure consisting of an 8-stranded antiparallel beta-barrel that forms a cup-shaped ligand-binding pocket or calyx. Lipocalins generally bind small hydrophobic ligands and transport them to specific cells (Suzuki et al., 2004 [PubMed 15363845]).[supplied by OMIM, Aug 2009]

GeneCards Summary for LCN9 Gene

LCN9 (Lipocalin 9) is a Protein Coding gene. Diseases associated with LCN9 include Parasitic Ectoparasitic Infectious Disease. Among its related pathways are Transport of vitamins, nucleosides, and related molecules and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. Gene Ontology (GO) annotations related to this gene include transporter activity and pheromone binding.

Additional gene information for LCN9 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCN9 Gene

Genomics for LCN9 Gene

GeneHancer (GH) Regulatory Elements for LCN9 Gene

Promoters and enhancers for LCN9 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH09I135663 Promoter 0.5 EPDnew 550.8 0.0 -32 0.1 LCN9 GLT6D1
GH09I135661 Enhancer 0.2 ENCODE 550.8 -1.3 -1252 0.2 LCN9 GLT6D1
GH09I135662 Enhancer 0.2 ENCODE 550.8 -0.6 -555 0.9 LCN9 GLT6D1
GH09I135671 Enhancer 0.4 ENCODE 0.4 +8.5 8548 0.2 CTCF ZNF143 CTBP2 GLT6D1 LCN9 LOC105376318
GH09I135648 Enhancer 0.4 FANTOM5 0.4 -14.5 -14513 0.2 POLR2A PAEP GLT6D1 LCN9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around LCN9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LCN9 gene promoter:

Genomic Locations for LCN9 Gene

Genomic Locations for LCN9 Gene
3,448 bases
Plus strand

Genomic View for LCN9 Gene

Genes around LCN9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCN9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCN9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCN9 Gene

Proteins for LCN9 Gene

  • Protein details for LCN9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Epididymal-specific lipocalin-9
    Protein Accession:
    Secondary Accessions:
    • C9J5F0
    • Q6JVE7

    Protein attributes for LCN9 Gene

    176 amino acids
    Molecular mass:
    20285 Da
    Quaternary structure:
    No Data Available
    • Sequence=CAD13244.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

neXtProt entry for LCN9 Gene

Post-translational modifications for LCN9 Gene

No Post-translational modifications

Other Protein References for LCN9 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for LCN9 Gene

Domains & Families for LCN9 Gene

Gene Families for LCN9 Gene

Human Protein Atlas (HPA):
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for LCN9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the calycin superfamily. Lipocalin family.
  • Belongs to the calycin superfamily. Lipocalin family.
genes like me logo Genes that share domains with LCN9: view

Function for LCN9 Gene

Gene Ontology (GO) - Molecular Function for LCN9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0036094 small molecule binding IEA --
genes like me logo Genes that share ontologies with LCN9: view
genes like me logo Genes that share phenotypes with LCN9: view

miRNA for LCN9 Gene

miRTarBase miRNAs that target LCN9

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LCN9 Gene

Localization for LCN9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LCN9 Gene


Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LCN9 gene
Compartment Confidence
extracellular 5

Gene Ontology (GO) - Cellular Components for LCN9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
genes like me logo Genes that share ontologies with LCN9: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for LCN9 Gene

Pathways & Interactions for LCN9 Gene

genes like me logo Genes that share pathways with LCN9: view

Interacting Proteins for LCN9 Gene

Selected Interacting proteins: Q8WX39-LCN9_HUMAN for LCN9 Gene via IID

Symbol External ID(s) Details

Gene Ontology (GO) - Biological Process for LCN9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport IEA --
genes like me logo Genes that share ontologies with LCN9: view

No data available for SIGNOR curated interactions for LCN9 Gene

Drugs & Compounds for LCN9 Gene

(5) Drugs for LCN9 Gene - From: DrugBank

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
(4R)-limonene 1α,2α-epoxide Experimental Pharma Target 0
2-(Sec-Butyl)Thiazole Experimental Pharma Target 0
2-Isobutyl-3-Methoxypyrazine Experimental Pharma Target 0
2-Methoxy-3-Isopropylpyrazine Experimental Pharma Target 0
6-Hydroxy-6-Methyl-Heptan-3-One Experimental Pharma Target 0
genes like me logo Genes that share compounds with LCN9: view

Transcripts for LCN9 Gene

mRNA/cDNA for LCN9 Gene

(2) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(2) Selected AceView cDNA sequences:
(4) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for LCN9 Gene

Lipocalin 9:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LCN9 Gene

No ASD Table

Relevant External Links for LCN9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for LCN9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LCN9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LCN9 Gene

This gene is overexpressed in Brain - Substantia nigra (x5.1), Pituitary (x5.0), Brain - Putamen (basal ganglia) (x4.7), and Brain - Amygdala (x4.5).

Protein differential expression in normal tissues from HIPED for LCN9 Gene

This gene is overexpressed in Testis (41.1) and Ovary (27.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for LCN9 Gene

Protein tissue co-expression partners for LCN9 Gene

NURSA nuclear receptor signaling pathways regulating expression of LCN9 Gene:


SOURCE GeneReport for Unigene cluster for LCN9 Gene:

genes like me logo Genes that share expression patterns with LCN9: view

No data available for mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for LCN9 Gene

Orthologs for LCN9 Gene

This gene was present in the common ancestor of mammals.

Orthologs for LCN9 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia LCN9 33 34
  • 97.26 (n)
(Canis familiaris)
Mammalia LCN9 33 34
  • 74.2 (n)
(Mus musculus)
Mammalia Lcn9 33 16 34
  • 73.11 (n)
(Rattus norvegicus)
Mammalia Lcn9 33
  • 71.56 (n)
(Bos Taurus)
Mammalia LCN9 33 34
  • 69.11 (n)
(Monodelphis domestica)
Mammalia LCN9 34
  • 26 (a)
(Ornithorhynchus anatinus)
Mammalia LCN9 34
  • 18 (a)
Species where no ortholog for LCN9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for LCN9 Gene

Gene Tree for LCN9 (if available)
Gene Tree for LCN9 (if available)

Paralogs for LCN9 Gene

No data available for Paralogs for LCN9 Gene

Variants for LCN9 Gene

Sequence variations from dbSNP and Humsavar for LCN9 Gene

SNP ID Clin Chr 09 pos Variation AA Info Type
rs1000281509 -- 135,661,988(+) C/A/T upstream_transcript_variant
rs1000620567 -- 135,663,171(+) GGG/G upstream_transcript_variant
rs1000642527 -- 135,661,379(+) G/A upstream_transcript_variant
rs1000875584 -- 135,666,456(+) C/T downstream_transcript_variant, genic_downstream_transcript_variant, intron_variant
rs1000880304 -- 135,670,583(+) C/A/T genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for LCN9 Gene

Variant ID Type Subtype PubMed ID
esv2739304 CNV deletion 23290073
esv2739305 CNV deletion 23290073
nsv466659 CNV loss 19166990
nsv517335 CNV loss 19592680
nsv615912 CNV loss 21841781
nsv6760 CNV insertion 18451855
nsv818735 CNV gain 17921354
nsv831756 CNV loss 17160897
nsv951201 CNV deletion 24416366

Variation tolerance for LCN9 Gene

Residual Variation Intolerance Score: 88.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.25; 25.01% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LCN9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCN9 Gene

Disorders for LCN9 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LCN9 Gene - From: DISEASES

Disorder Aliases PubMed IDs
parasitic ectoparasitic infectious disease
  • ectoparasitism
- elite association - COSMIC cancer census association via MalaCards
Search LCN9 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for LCN9

genes like me logo Genes that share disorders with LCN9: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LCN9 Gene

Publications for LCN9 Gene

  1. Molecular evolution of epididymal lipocalin genes localized on mouse chromosome 2. (PMID: 15363845) Suzuki K … Orgebin-Crist MC (Gene 2004) 2 3 4 22 58
  2. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray SJ … Dunham I (Nature 2004) 3 4 58

Products for LCN9 Gene

Sources for LCN9 Gene

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