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LOC128925148 STARR-seq mESC enhancer starr_12114 [ Mus musculus (house mouse) ]

Gene ID: 128925148, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925148
Gene description
STARR-seq mESC enhancer starr_12114
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
Rr367781
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 and NIH3T3 fibroblasts. [provided by RefSeq, Jul 2023]
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Genomic context

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See LOC128925148 in Genome Data Viewer
Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (149529545..149532049)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene kinesin family member 1B Neighboring gene STARR-positive B cell enhancer ABC_E845 Neighboring gene ubiquitination factor E4B, opposite strand 3 Neighboring gene ubiquitination factor E4B Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:148775428-148775611 Neighboring gene STARR-positive B cell enhancer ABC_E8033 Neighboring gene STARR-seq mESC enhancer starr_12112 Neighboring gene STARR-seq mESC enhancer starr_12113 Neighboring gene tRNA methyltransferase 11-2, pseudogene 2 Neighboring gene STARR-seq mESC enhancer starr_12115 Neighboring gene retinol binding protein 7, cellular Neighboring gene nicotinamide nucleotide adenylyltransferase 1 Neighboring gene transmembrame protein 274

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_chr4:148819618-148819727
  • regulatory region 367781

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_150866.2 

    Range
    101..2605
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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_000070.7 Reference GRCm39 C57BL/6J

    Range
    149529545..149532049
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version