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LCN10 lipocalin 10 [ Homo sapiens (human) ]

Gene ID: 414332, updated on 5-Mar-2024

Summary

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Official Symbol
LCN10provided by HGNC
Official Full Name
lipocalin 10provided by HGNC
Primary source
HGNC:HGNC:20892
See related
Ensembl:ENSG00000187922 MIM:612904; AllianceGenome:HGNC:20892
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Members of the lipocalin family, such as LCN10, 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]
Expression
Broad expression in spleen (RPKM 4.2), endometrium (RPKM 3.9) and 19 other tissues See more
Orthologs
mouse all
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Genomic context

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Location:
9q34.3
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (136738170..136742940, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (148971348..148976118, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (139632622..139637392, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene cuticle collagen 2-like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20538 Neighboring gene small nucleolar RNA, H/ACA box 17B Neighboring gene small nucleolar RNA host gene 7 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:139623217-139623386 Neighboring gene small nucleolar RNA, H/ACA box 17A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29323 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:139627044-139627888 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:139629713-139630212 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20539 Neighboring gene uncharacterized LOC100128593 Neighboring gene lipocalin 6 Neighboring gene microRNA 6722 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29324 Neighboring gene lipocalin 8

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Lipocalin 10 as a New Prognostic Biomarker in Sepsis-Induced Myocardial Dysfunction and Mortality: A Pilot Study. Wang L, et al. Mediators Inflamm, 2021. PMID 34121925, Free PMC Article
  2. Loss of Lipocalin 10 Exacerbates Diabetes-Induced Cardiomyopathy via Disruption of Nr4a1-Mediated Anti-Inflammatory Response in Macrophages. Li Q, et al. Front Immunol, 2022. PMID 35757735, Free PMC Article
  3. Molecular evolution of epididymal lipocalin genes localized on mouse chromosome 2. Suzuki K, et al. Gene, 2004 Sep 15. PMID 15363845
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Lipocalin 10 is essential for protection against inflammation-triggered vascular leakage by activating LDL receptor-related protein 2-slingshot homologue 1 signalling pathway.
    Title: Lipocalin 10 is essential for protection against inflammation-triggered vascular leakage by activating LDL receptor-related protein 2-slingshot homologue 1 signalling pathway.
  2. Loss of Lipocalin 10 Exacerbates Diabetes-Induced Cardiomyopathy via Disruption of Nr4a1-Mediated Anti-Inflammatory Response in Macrophages.
    Title: Loss of Lipocalin 10 Exacerbates Diabetes-Induced Cardiomyopathy via Disruption of Nr4a1-Mediated Anti-Inflammatory Response in Macrophages.
  3. Lipocalin 10 as a New Prognostic Biomarker in Sepsis-Induced Myocardial Dysfunction and Mortality: A Pilot Study.
    Title: Lipocalin 10 as a New Prognostic Biomarker in Sepsis-Induced Myocardial Dysfunction and Mortality: A Pilot Study.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

Potential readthrough

Included gene: LCN6

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables small molecule binding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
epididymal-specific lipocalin-10

NCBI Reference Sequences (RefSeq)

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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)

  1. NM_001001712.3 → NP_001001712.2  epididymal-specific lipocalin-10 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001001712.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AL355987
    Consensus CDS
    CCDS35182.2
    UniProtKB/TrEMBL
    B7ZMD1
    Related
    ENSP00000418491.1, ENST00000497771.6

  2. NM_001368089.1 → NP_001355018.1  epididymal-specific lipocalin-10 isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AL355987, AY301271
    Consensus CDS
    CCDS94536.1
    UniProtKB/Swiss-Prot
    A2RUU3, B0QZ79, Q6JVE6
    Related
    ENSP00000420564.1, ENST00000474369.1

  3. NM_001368090.1 → NP_001355019.1  epididymal-specific lipocalin-10 isoform 3 precursor

    Status: VALIDATED

    Source sequence(s)
    AL355987, BC144441
    Consensus CDS
    CCDS94537.1
    UniProtKB/TrEMBL
    B7ZMD1, E9PK15
    Related
    ENSP00000431726.1, ENST00000527229.5
    Conserved Domains (1) summary
    cl10502
    Location:36 → 108
    lipocalin_FABP; lipocalin/cytosolic fatty acid-binding protein family

RNA

  1. NR_160514.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL355987, BC171741

  2. NR_160515.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL355987, HY166769

  3. NR_160516.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL355987, DA965366

  4. NR_160517.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL355987
    Related
    ENST00000341040.11

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    136738170..136742940 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    148971348..148976118 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6JVE6.1 GenPept UniProtKB/Swiss-Prot:Q6JVE6

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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