U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Lncenc1 long non-coding RNA, embryonic stem cells expressed 1 [ Mus musculus (house mouse) ]

    Gene ID: 100039691, updated on 2-Nov-2024

    Summary

    Official Symbol
    Lncenc1provided by MGI
    Official Full Name
    long non-coding RNA, embryonic stem cells expressed 1provided by MGI
    Primary source
    MGI:MGI:3780541
    See related
    Ensembl:ENSMUSG00000078952 AllianceGenome:MGI:3780541
    Gene type
    ncRNA
    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
    Gm2373; Gm11019; Platr18; Lincenc1; linc-Enc1
    Summary
    Acts upstream of or within regulation of gene expression. Is expressed in brain. Orthologous to human LINC01157 (long intergenic non-protein coding RNA 1157). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Low expression observed in reference dataset See more
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Lncenc1 in Genome Data Viewer
    Location:
    13 D1; 13 50.71 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (97571441..97641366)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (97434970..97497664)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 33390 Neighboring gene STARR-seq mESC enhancer starr_35381 Neighboring gene STARR-seq mESC enhancer starr_35383 Neighboring gene predicted gene, 33447 Neighboring gene STARR-seq mESC enhancer starr_35388 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:98212351-98212677 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene predicted gene 2379 Neighboring gene predicted gene, 41030

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

    Other Names

    • long intergenic non-coding RNA, embryonic stem cells expressed 1

    NCBI Reference Sequences (RefSeq)

    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.

    RNA

    1. NR_110430.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AC124581
      Related
      ENSMUST00000179324.2
    2. NR_110431.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC124581
      Related
      ENSMUST00000246094.1
    3. NR_110432.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two exons and contains an alternate 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC124581, CT030035
      Related
      ENSMUST00000109431.10
    4. NR_188726.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC124581, CT030035
    5. NR_188727.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC124581
    6. NR_188728.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC124581, CT030035

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      97571441..97641366
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)