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LOC128925073 STARR-positive B cell enhancer ABC_E2715 [ Mus musculus (house mouse) ]

Gene ID: 128925073, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925073
Gene description
STARR-positive B cell enhancer ABC_E2715
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
Rr367711
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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See LOC128925073 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 (129687607..129687908)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene KH domain containing, RNA binding, signal transduction associated 1 Neighboring gene STARR-seq mESC enhancer starr_11505 Neighboring gene STARR-seq mESC enhancer starr_11507 Neighboring gene STARR-positive B cell enhancer mm9_chr4:129438194-129438495 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:129439040-129439227 Neighboring gene predicted gene 12967 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:129449340-129449541 Neighboring gene CapStarr-seq enhancer MGSCv37_chr4:129449548-129449839 Neighboring gene STARR-positive B cell enhancer ABC_E4671 Neighboring gene STARR-seq mESC enhancer starr_11508 Neighboring gene STARR-seq mESC enhancer starr_11510 Neighboring gene STARR-positive B cell enhancer ABC_E11257 Neighboring gene protein tyrosine phosphatase 4a2 Neighboring gene STARR-positive B cell enhancer ABC_E6225 Neighboring gene STARR-seq mESC enhancer starr_11511 Neighboring gene RIKEN cDNA 1700108I11 gene

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_chr4:129471155-129471356
  • regulatory region 367711

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_150801.2 

    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_000070.7 Reference GRCm39 C57BL/6J

    Range
    129687607..129687908
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version