Free for academic non-profit institutions. Other users need a Commercial license

Aliases for LCN12 Gene

Aliases for LCN12 Gene

  • Lipocalin 12 2 3

External Ids for LCN12 Gene

Previous GeneCards Identifiers for LCN12 Gene

  • GC09P135205
  • GC09P137122
  • GC09P138963
  • GC09P139844
  • GC09P109306

Summaries for LCN12 Gene

Entrez Gene Summary for LCN12 Gene

  • Members of the lipocalin family, such as LCN12, 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 LCN12 Gene

LCN12 (Lipocalin 12) is a Protein Coding gene. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and Transport of vitamins, nucleosides, and related molecules. GO annotations related to this gene include transporter activity and retinoic acid binding. An important paralog of this gene is LCN2.

UniProtKB/Swiss-Prot for LCN12 Gene

  • Binds all-trans retinoic acid and may act as a retinoid carrier protein within the epididymis. May play a role in male fertility (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCN12 Gene

Genomics for LCN12 Gene

Regulatory Elements for LCN12 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for LCN12 Gene

Chromosome:
9
Start:
136,949,195 bp from pter
End:
136,955,498 bp from pter
Size:
6,304 bases
Orientation:
Plus strand

Genomic View for LCN12 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for LCN12 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCN12 Gene

Proteins for LCN12 Gene

  • Protein details for LCN12 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6JVE5-LCN12_HUMAN
    Recommended name:
    Epididymal-specific lipocalin-12
    Protein Accession:
    Q6JVE5
    Secondary Accessions:
    • A2AMJ7

    Protein attributes for LCN12 Gene

    Size:
    192 amino acids
    Molecular mass:
    21500 Da
    Quaternary structure:
    • Monomer.

neXtProt entry for LCN12 Gene

Proteomics data for LCN12 Gene at MOPED

Post-translational modifications for LCN12 Gene

No Post-translational modifications

Other Protein References for LCN12 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for LCN12 Gene

Domains & Families for LCN12 Gene

Gene Families for LCN12 Gene

Suggested Antigen Peptide Sequences for LCN12 Gene

Graphical View of Domain Structure for InterPro Entry

Q6JVE5

UniProtKB/Swiss-Prot:

LCN12_HUMAN :
  • Belongs to the calycin superfamily. Lipocalin family.
Family:
  • Belongs to the calycin superfamily. Lipocalin family.
genes like me logo Genes that share domains with LCN12: view

Function for LCN12 Gene

Molecular function for LCN12 Gene

UniProtKB/Swiss-Prot Function:
Binds all-trans retinoic acid and may act as a retinoid carrier protein within the epididymis. May play a role in male fertility (By similarity).

Gene Ontology (GO) - Molecular Function for LCN12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001972 retinoic acid binding ISS --
GO:0005215 transporter activity IEA --
genes like me logo Genes that share ontologies with LCN12: view

Phenotypes for LCN12 Gene

GenomeRNAi human phenotypes for LCN12:
genes like me logo Genes that share phenotypes with LCN12: view

Animal Model Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LCN12

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for LCN12 Gene

Localization for LCN12 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LCN12 Gene

Secreted.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LCN12 Gene COMPARTMENTS Subcellular localization image for LCN12 gene
Compartment Confidence
extracellular 4

Gene Ontology (GO) - Cellular Components for LCN12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
genes like me logo Genes that share ontologies with LCN12: view

Pathways & Interactions for LCN12 Gene

genes like me logo Genes that share pathways with LCN12: view

Interacting Proteins for LCN12 Gene

Selected Interacting proteins: Q6JVE5-LCN12_HUMAN for LCN12 Gene via I2D

Symbol External ID(s) Details
MYC

Gene Ontology (GO) - Biological Process for LCN12 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006629 lipid metabolic process IEA --
GO:0015909 long-chain fatty acid transport TAS --
GO:0055085 transmembrane transport TAS --
genes like me logo Genes that share ontologies with LCN12: view

No data available for SIGNOR curated interactions for LCN12 Gene

Drugs & Compounds for LCN12 Gene

No Compound Related Data Available

Transcripts for LCN12 Gene

Unigene Clusters for LCN12 Gene

Lipocalin 12:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for LCN12

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for LCN12 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6
SP1:
SP2: -
SP3: - -

Relevant External Links for LCN12 Gene

GeneLoc Exon Structure for
LCN12
ECgene alternative splicing isoforms for
LCN12

Expression for LCN12 Gene

mRNA expression in normal human tissues for LCN12 Gene

mRNA differential expression in normal tissues according to GTEx for LCN12 Gene

This gene is overexpressed in Thyroid (x13.7) and Liver (x4.8).

SOURCE GeneReport for Unigene cluster for LCN12 Gene Hs.440519

genes like me logo Genes that share expression patterns with LCN12: view

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues , Protein expression , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for LCN12 Gene

Orthologs for LCN12 Gene

This gene was present in the common ancestor of mammals.

Orthologs for LCN12 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia LCN12 35
  • 69.16 (n)
  • 52.41 (a)
LCN12 36
  • 28 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LCN12 35
  • 70.64 (n)
  • 56.25 (a)
LCN12 36
  • 53 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lcn12 35
  • 68.27 (n)
  • 56.68 (a)
Lcn12 16
Lcn12 36
  • 55 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia LCN12 35
  • 97.57 (n)
  • 96.87 (a)
LCN12 36
  • 97 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lcn12 35
  • 66.89 (n)
  • 55.1 (a)
oppossum
(Monodelphis domestica)
Mammalia LCN12 36
  • 25 (a)
OneToOne
Species with no ortholog for LCN12:
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 LCN12 Gene

ENSEMBL:
Gene Tree for LCN12 (if available)
TreeFam:
Gene Tree for LCN12 (if available)

Paralogs for LCN12 Gene

Paralogs for LCN12 Gene

(2) SIMAP similar genes for LCN12 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with LCN12: view

Variants for LCN12 Gene

Sequence variations from dbSNP and Humsavar for LCN12 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type MAF
rs555160746 -- 136,949,487(+) ACGAG(A/G)CACCC utr-variant-5-prime, upstream-variant-2KB
rs554884984 -- 136,954,602(+) GTCCT(G/T)GGCTA intron-variant, reference, synonymous-codon, nc-transcript-variant
rs554794081 -- 136,950,058(+) CAAGG(A/C)CCGCG intron-variant, upstream-variant-2KB
rs554696932 -- 136,955,065(+) ACACA(C/T)CTGCA intron-variant, utr-variant-3-prime
rs554626364 -- 136,951,273(+) TTTTT(A/G)GAGAT upstream-variant-2KB, intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LCN12 Gene

Variant ID Type Subtype PubMed ID
nsv469918 CNV Loss 18288195
nsv894387 CNV Gain 21882294
esv2422220 CNV Deletion 17116639
dgv8408n71 CNV Loss 21882294
dgv8412n71 CNV Loss 21882294
dgv8415n71 CNV Loss 21882294
dgv8416n71 CNV Loss 21882294
nsv818738 CNV Gain 17921354
dgv8419n71 CNV Loss 21882294
nsv524322 CNV Loss 19592680
nsv894469 CNV Loss 21882294
nsv894483 CNV Loss 21882294
dgv8423n71 CNV Loss 21882294
nsv894500 CNV Loss 21882294
nsv894502 CNV Loss 21882294
nsv894503 CNV Loss 21882294
dgv8424n71 CNV Loss 21882294
nsv894506 CNV Gain 21882294
esv2661667 CNV Deletion 23128226

Variation tolerance for LCN12 Gene

Residual Variation Intolerance Score: 82.63% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.47; 28.70% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LCN12 Gene

HapMap Linkage Disequilibrium report
LCN12

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCN12 Gene

Disorders for LCN12 Gene

Relevant External Links for LCN12

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LCN12
genes like me logo Genes that share disorders with LCN12: view

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LCN12 Gene

Publications for LCN12 Gene

  1. Molecular evolution of epididymal lipocalin genes localized on mouse chromosome 2. (PMID: 15363845) Suzuki K. … Orgebin-Crist M.-C. (Gene 2004) 2 23 67
  2. Genome-wide association analyses identify multiple loci associated with central corneal thickness and keratoconus. (PMID: 23291589) Lu Y. … Wong T.Y. (Nat. Genet. 2013) 67
  3. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray S.J. … Dunham I. (Nature 2004) 67
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 67

Products for LCN12 Gene

Sources for LCN12 Gene

Back to Top

Content