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LOC128924815 CapStarr-seq enhancer MGSCv37_chr3:88426160-88426313 [ Mus musculus (house mouse) ]

Gene ID: 128924815, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924815
Gene description
CapStarr-seq enhancer MGSCv37_chr3:88426160-88426313
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
Rr367463
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 LOC128924815 in Genome Data Viewer
Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (88529545..88529698)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene Rho/Rac guanine nucleotide exchange factor 2 Neighboring gene STARR-positive B cell enhancer ABC_E1622 Neighboring gene predicted gene, 40090 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:88425928-88426111 Neighboring gene predicted gene 20652 Neighboring gene STARR-seq mESC enhancer starr_08213 Neighboring gene relaxin family peptide receptor 4 Neighboring gene STARR-seq mESC enhancer starr_08214 Neighboring gene STARR-positive B cell enhancer ABC_E2077 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:88490214-88490323 Neighboring gene KH domain containing 4, pre-mRNA splicing factor Neighboring gene predicted gene, 25820

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 367463

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_150563.1 

    Range
    101..254
    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_000069.7 Reference GRCm39 C57BL/6J

    Range
    88529545..88529698
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version