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LOC128925380 CapStarr-seq enhancer MGSCv37_chr5:143682513-143682666 [ Mus musculus (house mouse) ]

Gene ID: 128925380, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925380
Gene description
CapStarr-seq enhancer MGSCv37_chr5:143682513-143682666
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
Rr368006
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 and NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC128925380 in Genome Data Viewer
Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (142906589..142906742)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene F-box and leucine-rich repeat protein 18 Neighboring gene STARR-positive B cell enhancer ABC_E6395 Neighboring gene STARR-positive B cell enhancer ABC_E674 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:143670916-143671255 Neighboring gene predicted gene, 38733 Neighboring gene actin, beta Neighboring gene STARR-seq mESC enhancer starr_14775 Neighboring gene STARR-seq mESC enhancer starr_14777 Neighboring gene fascin actin-bundling protein 1 Neighboring gene STARR-seq mESC enhancer starr_14779 Neighboring gene VISTA enhancer mm1619 Neighboring gene ring finger protein 216 Neighboring gene predicted gene 43380 Neighboring gene STARR-seq mESC enhancer starr_14782

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 368006

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_151075.1 

    Range
    101..254
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    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_000071.7 Reference GRCm39 C57BL/6J

    Range
    142906589..142906742
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version