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LOC128927577 STARR-seq mESC enhancer starr_41606 [ Mus musculus (house mouse) ]

Gene ID: 128927577, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128927577
Gene description
STARR-seq mESC enhancer starr_41606
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
Rr370150
Summary
This genomic region represents 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. This locus also 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 P5424 T cells. [provided by RefSeq, Jul 2023]
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Genomic context

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Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 16 NC_000082.7 (95567594..95571131)

Chromosome 16 - NC_000082.7Genomic Context describing neighboring genes Neighboring gene E26 avian leukemia oncogene 2, 3' domain Neighboring gene STARR-positive B cell enhancer mm9_chr16:95950428-95950729 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:95971936-95972137 Neighboring gene STARR-seq mESC enhancer starr_41603 Neighboring gene STARR-seq mESC enhancer starr_41604 Neighboring gene predicted gene 6599 Neighboring gene predicted gene, 32130 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:96032911-96033064 Neighboring gene predicted gene, 41509 Neighboring gene STARR-positive B cell enhancer ABC_E8915 Neighboring gene RIKEN cDNA 1600002D24 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:96091084-96091462 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:96091906-96092255 Neighboring gene CapStarr-seq enhancer MGSCv37_chr16:96121787-96122048 Neighboring gene predicted gene 15340

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. 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_chr16:95991401-95991510
  • regulatory region 370150

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_153200.2 

    Range
    101..3638
    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_000082.7 Reference GRCm39 C57BL/6J

    Range
    95567594..95571131
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version