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LOC128924635 CapStarr-seq enhancer MGSCv37_chr2:121332344-121332527 [ Mus musculus (house mouse) ]

Gene ID: 128924635, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924635
Gene description
CapStarr-seq enhancer MGSCv37_chr2:121332344-121332527
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
Rr367286
Summary
This locus includes a subregion that was 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 CRM was validated as an active enhancer by high-throughput CapStarr-seq reporter assays showing strong activity in P5424 T cells and weak activity in NIH3T3 fibroblasts. This locus also includes a B cell regulatory element that was identified by FAIRE-seq (formaldehyde-assisted isolation of regulatory elements sequencing), and which was validated as an enhancer by STARR-seq (self-transcribing active regulatory region sequencing) in lipopolysaccharide-activated mouse splenic B cells. [provided by RefSeq, Oct 2023]
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Genomic context

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Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (121336971..121337272)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene microfibrillar-associated protein 1B Neighboring gene WD repeat domain 76 pseudogene Neighboring gene mitochondrial ribosomal protein L51 pseudogene Neighboring gene STARR-seq mESC enhancer starr_05528 Neighboring gene microfibrillar-associated protein 1A Neighboring gene WD repeat domain 76 Neighboring gene STARR-seq mESC enhancer starr_05532 Neighboring gene FERM domain containing 5 Neighboring gene STARR-seq mESC enhancer starr_05533 Neighboring gene STARR-seq mESC enhancer starr_05535 Neighboring gene STARR-seq mESC enhancer starr_05536 Neighboring gene septin 2 pseudogene Neighboring gene ribosomal protein S4, X-linked pseudogene

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

  • STARR-positive B cell enhancer ABC_E7853
  • regulatory region 367286

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_153061.2 

    Range
    101..402
    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_000068.8 Reference GRCm39 C57BL/6J

    Range
    121336971..121337272
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version