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LOC114827955 VISTA enhancer mm1679 [ Mus musculus (house mouse) ]

Gene ID: 114827955, updated on 9-Aug-2024

Summary

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Gene symbol
LOC114827955
Gene description
VISTA enhancer mm1679
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
Rr1970
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 forebrain of transgenic mice. A subregion was also identified as a candidate cis-regulatory module (CRM) in developing mouse thymocytes based on a combination of DNase I hypersensitivity and transcription factor binding. That subregion was validated as an enhancer by high-throughput CapStarr-seq reporter assays showing weak activity in NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC114827955 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 (72892268..72895168)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (73020419..73023319)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene trafficking protein particle complex 9 Neighboring gene STARR-seq mESC enhancer starr_38939 Neighboring gene CapStarr-seq enhancer MGSCv37_chr15:72759279-72759495 Neighboring gene STARR-seq mESC enhancer starr_38940 Neighboring gene guanine nucleotide binding protein (G protein), gamma 5 pseudogene Neighboring gene STARR-seq mESC enhancer starr_38942 Neighboring gene predicted gene, 31665 Neighboring gene STARR-positive B cell enhancer ABC_E1908 Neighboring gene STARR-positive B cell enhancer ABC_E1479 Neighboring gene STARR-positive B cell enhancer ABC_E7378 Neighboring gene STARR-seq mESC enhancer starr_38946 Neighboring gene chromatin accessibility complex 1 Neighboring gene predicted gene, 31725 Neighboring gene argonaute RISC catalytic subunit 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. 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_chr15:72853511-72853620
  • regulatory region 1970

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_065311.1 

    Range
    101..3001
    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
    72892268..72895168
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version