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LOC128927720 CapStarr-seq enhancer MGSCv37_chr17:52095713-52095914 [ Mus musculus (house mouse) ]

Gene ID: 128927720, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128927720
Gene description
CapStarr-seq enhancer MGSCv37_chr17:52095713-52095914
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
Rr370290
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 LOC128927720 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (52263416..52263617)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene special AT-rich sequence binding protein 1 Neighboring gene STARR-seq mESC enhancer starr_42810 Neighboring gene STARR-positive B cell enhancer ABC_E10962 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:51972530-51972717 Neighboring gene STARR-seq mESC enhancer starr_42811 Neighboring gene STARR-seq mESC enhancer starr_42812 Neighboring gene predicted gene 6934 Neighboring gene predicted gene, 54011 Neighboring gene STARR-positive B cell enhancer mm9_chr17:52043120-52043421 Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:52043404-52043557 Neighboring gene predicted gene, 20098 Neighboring gene STARR-positive B cell enhancer mm9_chr17:52138472-52138772 Neighboring gene FCF1 small subunit processome component homolog pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E5619 Neighboring gene STARR-positive B cell enhancer ABC_E9959 Neighboring gene predicted gene, 19585

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 370290

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_153333.1 

    Range
    101..302
    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_000083.7 Reference GRCm39 C57BL/6J

    Range
    52263416..52263617
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version