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LOC128926772 CapStarr-seq enhancer MGSCv37_chr11:98824669-98824852 [ Mus musculus (house mouse) ]

Gene ID: 128926772, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128926772
Gene description
CapStarr-seq enhancer MGSCv37_chr11:98824669-98824852
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
Rr369367
Summary
This genomic region includes a candidate cis-regulatory module (CRM) that was identified in developing mouse thymocytes based on a combination of DNase I hypersensitivity and transcription factor binding. That CRM was validated as an active enhancer by high-throughput CapStarr-seq reporter assays showing weak activity in NIH3T3 fibroblasts. 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. [provided by RefSeq, Jul 2023]
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Genomic context

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See LOC128926772 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (98854181..98857013)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene retinoic acid receptor, alpha Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:98803426-98803613 Neighboring gene predicted gene, 46294 Neighboring gene STARR-positive B cell enhancer ABC_E9373 Neighboring gene predicted gene, 22061 Neighboring gene STARR-seq mESC enhancer starr_30692 Neighboring gene gap junction protein, delta 3 Neighboring gene STARR-seq mESC enhancer starr_30695 Neighboring gene topoisomerase (DNA) II alpha Neighboring gene predicted gene, 23451

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. 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

  • STARR-seq mESC enhancer starr_30693
  • regulatory region 369367

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_152413.2 

    Range
    101..2933
    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_000077.7 Reference GRCm39 C57BL/6J

    Range
    98854181..98857013
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version