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LOC128924906 CapStarr-seq enhancer MGSCv37_chr3:129256142-129256329 [ Mus musculus (house mouse) ]

Gene ID: 128924906, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924906
Gene description
CapStarr-seq enhancer MGSCv37_chr3:129256142-129256329
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
Rr367552
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 LOC128924906 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 (129346873..129347060)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L7A, pseudogene 7 Neighboring gene STARR-seq mESC enhancer starr_08968 Neighboring gene STARR-seq mESC enhancer starr_08969 Neighboring gene STARR-positive B cell enhancer ABC_E827 Neighboring gene STARR-seq mESC enhancer starr_08971 Neighboring gene STARR-seq mESC enhancer starr_08975 Neighboring gene STARR-seq mESC enhancer starr_08976 Neighboring gene predicted gene, 35986 Neighboring gene ELOVL fatty acid elongase 6 Neighboring gene STARR-seq mESC enhancer starr_08981 Neighboring gene epidermal growth factor Neighboring gene STARR-positive B cell enhancer ABC_E6124 Neighboring gene RIKEN cDNA 6330410L21 gene Neighboring gene leucine-rich repeat, immunoglobulin-like and transmembrane domains 3 Neighboring gene predicted gene, 36130 Neighboring gene retinal pigment epithelium derived rhodopsin homolog

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 367552

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_153622.1 

    Range
    101..288
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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_000069.7 Reference GRCm39 C57BL/6J

    Range
    129346873..129347060
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version