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LCN12 lipocalin 12 [ Homo sapiens (human) ]

Gene ID: 286256, updated on 21-Dec-2019

Summary

Official Symbol
LCN12provided by HGNC
Official Full Name
lipocalin 12provided by HGNC
Primary source
HGNC:HGNC:28733
See related
Ensembl:ENSG00000184925 MIM:612905
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 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]
Expression
Biased expression in thyroid (RPKM 11.7), spleen (RPKM 1.8) and 4 other tissues See more
Orthologs

Genomic context

See LCN12 in Genome Data Viewer
Location:
9q34.3
Exon count:
10
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (136949180..136955505)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (139844032..139849957)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene F-box and WD repeat domain containing 5 Neighboring gene complement C8 gamma chain Neighboring gene long intergenic non-protein coding RNA 2692 Neighboring gene prostaglandin D2 synthase

Genomic regions, transcripts, and products

Expression

  • 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

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association analyses identify multiple loci associated with central corneal thickness and keratoconus.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC34753, MGC48935

Gene Ontology Provided by GOA

Function Evidence Code Pubs
retinoic acid binding ISS
Inferred from Sequence or Structural Similarity
more info
 
Process Evidence Code Pubs
long-chain fatty acid transport TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
extracellular region TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
epididymal-specific lipocalin-12
Names
epididymis secretory sperm binding protein
lipocalcin 12

NCBI Reference Sequences (RefSeq)

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_178536.4NP_848631.2  epididymal-specific lipocalin-12 precursor

    See identical proteins and their annotated locations for NP_848631.2

    Status: VALIDATED

    Source sequence(s)
    AI681012, AL807752, AY301272, BX281250
    Consensus CDS
    CCDS7018.2
    UniProtKB/Swiss-Prot
    Q6JVE5
    Related
    ENSP00000360696.3, ENST00000371633.8
    Conserved Domains (1) summary
    pfam00061
    Location:40184
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    136949180..136955505
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006717065.3XP_006717128.1  epididymal-specific lipocalin-12 isoform X3

    See identical proteins and their annotated locations for XP_006717128.1

    UniProtKB/TrEMBL
    Q8IW14
    Conserved Domains (1) summary
    pfam00061
    Location:40184
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family
  2. XM_011518562.2XP_011516864.1  epididymal-specific lipocalin-12 isoform X3

    See identical proteins and their annotated locations for XP_011516864.1

    UniProtKB/TrEMBL
    Q8IW14
    Conserved Domains (1) summary
    pfam00061
    Location:40184
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family
  3. XM_011518560.2XP_011516862.1  epididymal-specific lipocalin-12 isoform X2

    Conserved Domains (1) summary
    pfam00061
    Location:67211
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family
  4. XM_011518561.2XP_011516863.2  epididymal-specific lipocalin-12 isoform X1

  5. XM_017014631.1XP_016870120.1  epididymal-specific lipocalin-12 isoform X4

  6. XM_017014632.1XP_016870121.1  epididymal-specific lipocalin-12 isoform X5

RNA

  1. XR_001746278.1 RNA Sequence

  2. XR_001746279.2 RNA Sequence

  3. XR_001746280.2 RNA Sequence

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