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LOC128924507 STARR-seq mESC enhancer starr_04183 [ Mus musculus (house mouse) ]

Gene ID: 128924507, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924507
Gene description
STARR-seq mESC enhancer starr_04183
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
Rr367165
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 NIH3T3 fibroblasts. [provided by RefSeq, Jul 2023]
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Genomic context

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See LOC128924507 in Genome Data Viewer
Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (32062940..32066289)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 78, member A Neighboring gene predicted gene, 33126 Neighboring gene phospholipid phosphatase 7 (inactive) Neighboring gene STARR-seq mESC enhancer starr_04169 Neighboring gene VISTA enhancer mm194 Neighboring gene STARR-seq mESC enhancer starr_04172 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32011222-32011331 Neighboring gene STARR-seq mESC enhancer starr_04177 Neighboring gene proline-rich coiled-coil 2B Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32023467-32023668 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32036927-32037171 Neighboring gene predicted gene, 22192 Neighboring gene predicted gene, 25632

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_chr2:32031127-32031328
  • regulatory region 367165

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_150272.2 

    Range
    101..3450
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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_000068.8 Reference GRCm39 C57BL/6J

    Range
    32062940..32066289
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version