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LOC128925459 STARR-positive B cell enhancer mm9_chr6:66987352-66987653 [ Mus musculus (house mouse) ]

Gene ID: 128925459, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925459
Gene description
STARR-positive B cell enhancer mm9_chr6:66987352-66987653
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
Rr368084
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 NIH3T3 fibroblasts. [provided by RefSeq, Oct 2023]
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Genomic context

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Location:
chromosome: 6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (67014342..67014643)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene guanine nucleotide binding protein (G protein), gamma 12 Neighboring gene STARR-seq mESC enhancer starr_16163 Neighboring gene STARR-seq mESC enhancer starr_16164 Neighboring gene protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin) pseudogene Neighboring gene RIKEN cDNA E230016M11 gene Neighboring gene predicted gene, 53333 Neighboring gene predicted gene, 25260 Neighboring gene growth arrest and DNA-damage-inducible 45 alpha Neighboring gene STARR-seq mESC enhancer starr_16168 Neighboring gene predicted gene, 29928 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:67078989-67079098 Neighboring gene STARR-seq mESC enhancer starr_16169 Neighboring gene RIKEN cDNA A430010J10 gene Neighboring gene STARR-positive B cell enhancer ABC_E2786

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_chr6:66987354-66987537
  • regulatory region 368084

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_151151.2 

    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_000072.7 Reference GRCm39 C57BL/6J

    Range
    67014342..67014643
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version