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LOC114827957 VISTA enhancer mm1692 [ Mus musculus (house mouse) ]

Gene ID: 114827957, updated on 9-Aug-2024

Summary

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Gene symbol
LOC114827957
Gene description
VISTA enhancer mm1692
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
Rr1983
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 hindbrain, midbrain, forebrain and limb 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 ground-state (2iL) and 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 LOC114827957 in Genome Data Viewer
Location:
10; 10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (66836366..66841126)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (67001918..67005347)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1110002J07 gene Neighboring gene STARR-seq mESC enhancer starr_26972 Neighboring gene STARR-seq mESC enhancer starr_26973 Neighboring gene STARR-positive B cell enhancer ABC_E5143 Neighboring gene STARR-positive B cell enhancer ABC_E6865 Neighboring gene STARR-seq mESC enhancer starr_26976 Neighboring gene predicted gene, 53603 Neighboring gene STARR-seq mESC enhancer starr_26978 Neighboring gene STARR-seq mESC enhancer starr_26980 Neighboring gene STARR-seq mESC enhancer starr_26981 Neighboring gene predicted gene, 31763 Neighboring gene receptor accessory protein 3 Neighboring gene STARR-positive B cell enhancer mm9_chr10:66531454-66531755 Neighboring gene STARR-positive B cell enhancer ABC_E8340 Neighboring gene STARR-seq mESC enhancer starr_26991 Neighboring gene STARR-seq mESC enhancer starr_26992 Neighboring gene jumonji domain containing 1C Neighboring gene STARR-positive B cell enhancer ABC_E10618 Neighboring gene predicted gene, 26359

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_E9792
  • STARR-seq mESC enhancer starr_26979
  • regulatory region 1983

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_065313.2 

    Range
    101..4861
    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_000076.7 Reference GRCm39 C57BL/6J

    Range
    66836366..66841126
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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