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LOC128924761 CapStarr-seq enhancer MGSCv37_chr3:9662928-9663081 [ Mus musculus (house mouse) ]

Gene ID: 128924761, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924761
Gene description
CapStarr-seq enhancer MGSCv37_chr3:9662928-9663081
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
Rr367410
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 LOC128924761 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 (9727988..9728141)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene zinc finger protein 704 Neighboring gene predicted gene, 54189 Neighboring gene STARR-seq mESC enhancer starr_06908 Neighboring gene STARR-seq mESC enhancer starr_06911 Neighboring gene STARR-seq mESC enhancer starr_06917 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:9633164-9633347 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:9633637-9633868 Neighboring gene STARR-seq mESC enhancer starr_06923 Neighboring gene STARR-seq mESC enhancer starr_06924 Neighboring gene STARR-seq mESC enhancer starr_06927 Neighboring gene STARR-positive B cell enhancer mm9_chr3:9677144-9677445 Neighboring gene predicted gene, 33169 Neighboring gene stromal cell derived factor 2 pseudogene Neighboring gene phosphoprotein associated with glycosphingolipid microdomains 1 Neighboring gene STARR-seq mESC enhancer starr_06929 Neighboring gene STARR-seq mESC enhancer starr_06930 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:9865803-9866092 Neighboring gene predicted gene, 33273

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 367410

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_150513.1 

    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
    9727988..9728141
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version