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LOC128925180 CapStarr-seq enhancer MGSCv37_chr5:34194226-34194436 [ Mus musculus (house mouse) ]

Gene ID: 128925180, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925180
Gene description
CapStarr-seq enhancer MGSCv37_chr5:34194226-34194436
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
Rr367813
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 strong activity in P5424 T cells and weak activity in NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC128925180 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 (34008921..34009131)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_12830 Neighboring gene leucine zipper-EF-hand containing transmembrane protein 1 Neighboring gene ribosomal protein S29 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E6319 Neighboring gene ATP synthase subunit g, mitochondrial pseudogene Neighboring gene nuclear receptor binding SET domain protein 2 Neighboring gene STARR-seq mESC enhancer starr_12832 Neighboring gene microRNA 7024 Neighboring gene negative elongation factor complex member A, Whsc2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:34279052-34279239 Neighboring gene STARR-seq mESC enhancer starr_12833 Neighboring gene STARR-seq mESC enhancer starr_12834 Neighboring gene predicted gene, 30802

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 367813

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_150896.1 

    Range
    101..311
    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_000071.7 Reference GRCm39 C57BL/6J

    Range
    34008921..34009131
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version