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LOC109280010 VISTA enhancer mm104 [ Mus musculus (house mouse) ]

Gene ID: 109280010, updated on 8-Feb-2024

Summary

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Gene symbol
LOC109280010
Gene description
VISTA enhancer mm104
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
Mm104; Rr1091
Summary
This locus represents a conserved genomic element that can function as an enhancer. It can activate a Hsp68 promoter coupled to a LacZ reporter gene in embryonic heart, melanocytes and liver of transgenic mice. Two subregions were also identified as candidate cis-regulatory modules (CRMs) in developing mouse thymocytes based on a combination of DNase I hypersensitivity and transcription factor binding. They were validated as enhancers by high-throughput CapStarr-seq reporter assays, with both subregions showing weak activity in P5424 T cells, and one subregion additionally showing weak activity in NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC109280010 in Genome Data Viewer
Location:
15; 15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (66696150..66699011)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (66824301..66827162)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 71 Neighboring gene STARR-positive B cell enhancer mm9_chr15:66392494-66392795 Neighboring gene PHD finger protein 20-like 1 Neighboring gene STARR-positive B cell enhancer mm9_chr15:66511565-66511866 Neighboring gene thyroglobulin Neighboring gene STARR-positive B cell enhancer mm9_chr15:66616909-66617209 Neighboring gene STARR-positive B cell enhancer ABC_E5484 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:66650248-66650357 Neighboring gene src-like adaptor Neighboring gene STARR-positive B cell enhancer ABC_E5485 Neighboring gene predicted gene, 46514 Neighboring gene cellular communication network factor 4

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. High-throughput and quantitative assessment of enhancer activity in mammals by CapStarr-seq. Vanhille L, et al. Nat Commun, 2015 Apr 15. PMID 25872643

GeneRIFs: Gene References Into Functions

General gene information

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Other Names

  • CapStarr-seq enhancer MGSCv37_chr15:66656293-66656565
  • CapStarr-seq enhancer MGSCv37_chr15:66657026-66657179
  • regulatory region 1091

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_054280.1 

    Range
    101..2962
    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_000081.7 Reference GRCm39 C57BL/6J

    Range
    66696150..66699011
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version