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LOC128927980 STARR-positive B cell enhancer ABC_E11042 [ Mus musculus (house mouse) ]

Gene ID: 128927980, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128927980
Gene description
STARR-positive B cell enhancer ABC_E11042
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
Rr370542
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 LOC128927980 in Genome Data Viewer
Location:
chromosome: 19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (57200357..57200657)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_46534 Neighboring gene von Willebrand factor A domain containing 2 Neighboring gene STARR-seq mESC enhancer starr_46535 Neighboring gene actin filament associated protein 1-like 2 Neighboring gene predicted gene, 38597 Neighboring gene STARR-positive B cell enhancer ABC_E3255 Neighboring gene actin-binding LIM protein 1 Neighboring gene STARR-seq mESC enhancer starr_46541 Neighboring gene STARR-positive B cell enhancer ABC_E1531 Neighboring gene STARR-positive B cell enhancer ABC_E4293 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:57205992-57206175 Neighboring gene STARR-seq mESC enhancer starr_46543 Neighboring gene STARR-seq mESC enhancer starr_46545 Neighboring gene STARR-seq mESC enhancer starr_46546 Neighboring gene STARR-seq mESC enhancer starr_46548 Neighboring gene STARR-positive B cell enhancer ABC_E7676 Neighboring gene RIKEN cDNA 4930449E18 gene Neighboring gene RIKEN cDNA B230217O12 gene Neighboring gene predicted gene, 50270

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_chr19:57286473-57286626
  • regulatory region 370542

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_153584.2 

    Range
    101..401
    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_000085.7 Reference GRCm39 C57BL/6J

    Range
    57200357..57200657
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version