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LOC114827894 VISTA enhancer mm1661 [ Mus musculus (house mouse) ]

Gene ID: 114827894, updated on 9-Aug-2024

Summary

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Gene symbol
LOC114827894
Gene description
VISTA enhancer mm1661
Gene type
biological region
Feature type(s)
regulatory: enhancer
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Rr1952
Summary
This locus includes a conserved genomic element that can function as an enhancer. It can activate a Hsp68 promoter coupled to a LacZ reporter gene in embryonic neural tube and forebrain of transgenic mice. This locus also includes an enhancer that was validated by the STARR-seq (self-transcribing active regulatory region sequencing) reporter assay in metastable (SL) mouse embryonic stem cells, where it was defined as a C1 class enhancer that overlaps an active chromatin signature. Another subregion was identified as a putative B cell regulatory element by FAIRE-seq (formaldehyde-assisted isolation of regulatory elements sequencing), and was validated as an enhancer by STARR-seq in lipopolysaccharide-activated mouse splenic B cells. [provided by RefSeq, Sep 2023]
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Genomic context

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See LOC114827894 in Genome Data Viewer
Location:
9; 9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (121140780..121144348)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (121311714..121314947)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene unc-51-like kinase 4 Neighboring gene STARR-positive B cell enhancer ABC_E3868 Neighboring gene predicted gene, 34735 Neighboring gene predicted gene, 34655 Neighboring gene STARR-seq mESC enhancer starr_25526 Neighboring gene STARR-seq mESC enhancer starr_25527 Neighboring gene trafficking protein, kinesin binding 1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:121280653-121280762 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:121388759-121388868 Neighboring gene predicted gene, 51661 Neighboring gene predicted gene, 38661 Neighboring gene cholecystokinin

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. VISTA Enhancer Browser--a database of tissue-specific human enhancers. Visel A, et al. Nucleic Acids Res, 2007 Jan. PMID 17130149, Free PMC Article
  2. Gene regulatory networks STARR-ing B cells. Martínez de Paz A, et al. Nat Immunol, 2020 Feb. PMID 31873293, Free PMC Article
  3. Charting the cis-regulome of activated B cells by coupling structural and functional genomics. Chaudhri VK, et al. Nat Immunol, 2020 Feb. PMID 31873292
  4. STARR-seq identifies active, chromatin-masked, and dormant enhancers in pluripotent mouse embryonic stem cells. Peng T, et al. Genome Biol, 2020 Sep 10. PMID 32912294, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Other Names

  • STARR-positive B cell enhancer ABC_E2923
  • STARR-seq mESC enhancer starr_25523
  • regulatory region 1952

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.

Genomic

  1. NG_065250.2 

    Range
    101..3669
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

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_000075.7 Reference GRCm39 C57BL/6J

    Range
    121140780..121144348
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version