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LOC128925171 STARR-positive B cell enhancer ABC_E1679 [ Mus musculus (house mouse) ]

Gene ID: 128925171, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925171
Gene description
STARR-positive B cell enhancer ABC_E1679
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
Rr367804
Summary
This genomic region includes a B cell regulatory element that was identified by FAIRE-seq (formaldehyde-assisted isolation of regulatory elements sequencing). It was validated as an enhancer by STARR-seq (self-transcribing active regulatory region sequencing) in lipopolysaccharide-activated mouse splenic B cells. Two subregions were identified as candidate cis-regulatory modules (CRMs) in developing mouse thymocytes based on a combination of DNase I hypersensitivity and transcription factor binding. They were validated as enhancers by CapStarr-seq reporter assays, with both showing weak activity NIH3T3 fibroblasts, and one additionally showing weak activity in P5424 T cells. [provided by RefSeq, Sep 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 (31107147..31107463)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E4749 Neighboring gene ketohexokinase Neighboring gene cell growth regulator with EF hand domain 1 Neighboring gene abhydrolase domain containing 1 Neighboring gene prolactin regulatory element binding Neighboring gene transcription factor 23

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_chr5:31252210-31252319
  • CapStarr-seq enhancer MGSCv37_chr5:31252383-31252492
  • regulatory region 367804

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_150887.2 

    Range
    101..417
    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
    31107147..31107463
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version