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LOC110120528 VISTA enhancer mm1175 [ Mus musculus (house mouse) ]

Gene ID: 110120528, updated on 9-Aug-2024

Summary

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Gene symbol
LOC110120528
Gene description
VISTA enhancer mm1175
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
Rr1598
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 blood vessels 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 LOC110120528 in Genome Data Viewer
Location:
13; 13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (83719986..83722241)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (83571867..83572485)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_35149 Neighboring gene predicted gene, 33217 Neighboring gene predicted gene, 33274 Neighboring gene STARR-positive B cell enhancer ABC_E5408 Neighboring gene STARR-positive B cell enhancer mm9_chr13:83664236-83664536 Neighboring gene STARR-positive B cell enhancer mm9_chr13:83666025-83666326 Neighboring gene STARR-positive B cell enhancer mm9_chr13:83678903-83679204 Neighboring gene myocyte enhancer factor 2C Neighboring gene STARR-positive B cell enhancer ABC_E8895 Neighboring gene STARR-positive B cell enhancer ABC_E747 Neighboring gene predicted gene, 26803 Neighboring gene STARR-positive B cell enhancer mm9_chr13:83788426-83788726 Neighboring gene STARR-positive B cell enhancer mm9_chr13:83789544-83789845 Neighboring gene STARR-positive B cell enhancer mm9_chr13:83790286-83790587 Neighboring gene STARR-positive B cell enhancer ABC_E10805 Neighboring gene STARR-seq mESC enhancer starr_35152 Neighboring gene STARR-seq mESC enhancer starr_35153 Neighboring gene Mir9-2 host gene Neighboring gene microRNA 9b-2 Neighboring gene microRNA 9-2

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. 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
  2. VISTA Enhancer Browser--a database of tissue-specific human enhancers. Visel A, et al. Nucleic Acids Res, 2007 Jan. PMID 17130149, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Other Names

  • STARR-positive B cell enhancer ABC_E3089
  • STARR-seq mESC enhancer starr_35151
  • regulatory region 1598

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_054588.2 

    Range
    101..2356
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    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_000079.7 Reference GRCm39 C57BL/6J

    Range
    83719986..83722241
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version