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LOC128924656 CapStarr-seq enhancer MGSCv37_chr2:128029897-128030080 [ Mus musculus (house mouse) ]

Gene ID: 128924656, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924656
Gene description
CapStarr-seq enhancer MGSCv37_chr2:128029897-128030080
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
Rr367307
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 weak activity in P5424 T cells. 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 (128045887..128046264)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene acyl-Coenzyme A oxidase-like Neighboring gene STARR-positive B cell enhancer ABC_E9532 Neighboring gene STARR-positive B cell enhancer mm9_chr2:127953069-127953369 Neighboring gene STARR-seq mESC enhancer starr_05636 Neighboring gene predicted gene, 23101 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:127978569-127978830 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:127981992-127982193 Neighboring gene BCL2 like 11 Neighboring gene predicted gene 14009 Neighboring gene STARR-seq mESC enhancer starr_05639 Neighboring gene STARR-seq mESC enhancer starr_05640 Neighboring gene STARR-seq mESC enhancer starr_05641 Neighboring gene STARR-positive B cell enhancer ABC_E5979 Neighboring gene STARR-seq mESC enhancer starr_05642 Neighboring gene STARR-positive B cell enhancer ABC_E7860 Neighboring gene myeloid RNA regulator of BCL2L11 induced cell death Neighboring gene STARR-positive B cell enhancer ABC_E11707 Neighboring gene STARR-positive B cell enhancer ABC_E10142 Neighboring gene STARR-positive B cell enhancer ABC_E11160 Neighboring gene STARR-positive B cell enhancer mm9_chr2:128221938-128222238 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:128238239-128238556 Neighboring gene predicted gene 14010 Neighboring gene predicted gene, 36154 Neighboring gene predicted gene 29010

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_E5978
  • regulatory region 367307

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_150411.2 

    Range
    101..478
    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
    128045887..128046264
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version