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LOC128925239 STARR-positive B cell enhancer ABC_E2748 [ Mus musculus (house mouse) ]

Gene ID: 128925239, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925239
Gene description
STARR-positive B cell enhancer ABC_E2748
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
Rr367871
Summary
This genomic region was identified as a putative B cell regulatory element by FAIRE-seq (formaldehyde-assisted isolation of regulatory elements sequencing), and was validated as an enhancer by STARR-seq (self-transcribing active regulatory region sequencing) in lipopolysaccharide-activated mouse splenic B cells. A subregion 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 and NIH3T3 fibroblasts. [provided by RefSeq, Oct 2023]
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Genomic context

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Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (88702042..88702343)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene enamelin Neighboring gene STARR-positive B cell enhancer ABC_E6342 Neighboring gene STARR-positive B cell enhancer ABC_E9255 Neighboring gene immunoglobulin joining chain Neighboring gene STARR-positive B cell enhancer ABC_E6343 Neighboring gene STARR-seq mESC enhancer starr_13570 Neighboring gene UTP3 small subunit processome component Neighboring gene predicted gene, 42107 Neighboring gene RUN and FYVE domain containing 3 Neighboring gene STARR-seq mESC enhancer starr_13573 Neighboring gene STARR-seq mESC enhancer starr_13574 Neighboring gene STARR-seq mESC enhancer starr_13575 Neighboring gene STARR-seq mESC enhancer starr_13576 Neighboring gene G-rich RNA sequence binding factor 1

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_chr5:88983248-88983431
  • regulatory region 367871

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_150953.2 

    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_000071.7 Reference GRCm39 C57BL/6J

    Range
    88702042..88702343
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version