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LOC128927072 CapStarr-seq enhancer MGSCv37_chr13:28925292-28925505 [ Mus musculus (house mouse) ]

Gene ID: 128927072, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128927072
Gene description
CapStarr-seq enhancer MGSCv37_chr13:28925292-28925505
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
Rr369660
Summary
This genomic region 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. It was validated as an active enhancer by high-throughput CapStarr-seq reporter assays showing weak activity in P5424 T cells. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC128927072 in Genome Data Viewer
Location:
chromosome: 13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (29017406..29017619)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2610307P16 gene Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:28604501-28604741 Neighboring gene STARR-positive B cell enhancer ABC_E8520 Neighboring gene peptidylprolyl isomerase A pseudogene 13_297.1 Neighboring gene STARR-seq mESC enhancer starr_34032 Neighboring gene VISTA enhancer mm265 Neighboring gene STARR-seq mESC enhancer starr_34035 Neighboring gene microRNA 6368 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:28849781-28849890 Neighboring gene STARR-seq mESC enhancer starr_34037 Neighboring gene STARR-seq mESC enhancer starr_34040 Neighboring gene predicted gene, 53780 Neighboring gene predicted gene, 34639

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

  • regulatory region 369660

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_152706.1 

    Range
    101..314
    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_000079.7 Reference GRCm39 C57BL/6J

    Range
    29017406..29017619
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version