U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Lcn6 lipocalin 6 [ Mus musculus (house mouse) ]

    Gene ID: 620709, updated on 12-May-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Lcn6provided by MGI
    Official Full Name
    lipocalin 6provided by MGI
    Primary source
    MGI:MGI:3045364
    See related
    Ensembl:ENSMUSG00000045684 AllianceGenome:MGI:3045364
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    9230101D24Rik
    Summary
    Orthologous to human LCN6 (lipocalin 6). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Restricted expression toward genital fat pad adult (RPKM 67.7) See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    2 A3; 2 17.73 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (25566650..25571620)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (25676638..25681608)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene lipocalin 8 Neighboring gene lipocalin 5 Neighboring gene lipocalin 10 Neighboring gene odorant binding protein 2A

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Impaired sperm maturation in conditional Lcn6 knockout mice. Yin Q, et al. Biol Reprod, 2018 Jan 1. PMID 29045572
    2. Update on the human and mouse lipocalin (LCN) gene family, including evidence the mouse Mup cluster is result of an "evolutionary bloom". Charkoftaki G, et al. Hum Genomics, 2019 Feb 19. PMID 30782214, Free PMC Article
    3. A mouse knockout library for secreted and transmembrane proteins. Tang T, et al. Nat Biotechnol, 2010 Jul. PMID 20562862
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • 9230101D24Rik

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    epididymal-specific lipocalin-6

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001276448.1 → NP_001263377.1  epididymal-specific lipocalin-6 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001263377.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BB584268, FJ465143, FJ465144
      UniProtKB/TrEMBL
      G8XSM1
      Conserved Domains (1) summary
      pfam00061
      Location:33 → 161
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    2. NM_177840.4 → NP_808508.2  epididymal-specific lipocalin-6 isoform 2 precursor

      See identical proteins and their annotated locations for NP_808508.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      BB584268, FJ465143
      Consensus CDS
      CCDS50535.1
      UniProtKB/TrEMBL
      A2AJB9
      Related
      ENSMUSP00000109837.2, ENSMUST00000114199.8
      Conserved Domains (1) summary
      pfam00061
      Location:33 → 161
      Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000068.8 Reference GRCm39 C57BL/6J

      Range
      25566650..25571620
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006498215.4 → XP_006498278.1  epididymal-specific lipocalin-6 isoform X5

      Conserved Domains (1) summary
      cl10502
      Location:21 → 79
      lipocalin_FABP; lipocalin/cytosolic fatty acid-binding protein family

    2. XM_006498211.4 → XP_006498274.1  epididymal-specific lipocalin-6 isoform X1

      Conserved Domains (1) summary
      cl10502
      Location:21 → 171
      lipocalin_FABP; lipocalin/cytosolic fatty acid-binding protein family

    3. XM_006498212.4 → XP_006498275.1  epididymal-specific lipocalin-6 isoform X2

      Conserved Domains (1) summary
      cl10502
      Location:21 → 171
      lipocalin_FABP; lipocalin/cytosolic fatty acid-binding protein family

    4. XM_006498213.4 → XP_006498276.1  epididymal-specific lipocalin-6 isoform X3

      Conserved Domains (1) summary
      cl10502
      Location:21 → 164
      lipocalin_FABP; lipocalin/cytosolic fatty acid-binding protein family

    5. XM_006498214.4 → XP_006498277.1  epididymal-specific lipocalin-6 isoform X4

      Conserved Domains (1) summary
      cl10502
      Location:21 → 171
      lipocalin_FABP; lipocalin/cytosolic fatty acid-binding protein family
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous