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LOC128924801 CapStarr-seq enhancer MGSCv37_chr3:86790904-86791087 [ Mus musculus (house mouse) ]

Gene ID: 128924801, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924801
Gene description
CapStarr-seq enhancer MGSCv37_chr3:86790904-86791087
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
Rr367449
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 LOC128924801 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 (86894289..86894472)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene doublecortin-like kinase 2 Neighboring gene STARR-seq mESC enhancer starr_08132 Neighboring gene predicted gene, 46810 Neighboring gene STARR-positive B cell enhancer ABC_E6065 Neighboring gene STARR-seq mESC enhancer starr_08133 Neighboring gene STARR-seq mESC enhancer starr_08138 Neighboring gene predicted gene, 23376 Neighboring gene STARR-seq mESC enhancer starr_08141 Neighboring gene STARR-positive B cell enhancer ABC_E4550 Neighboring gene CD1d2 antigen Neighboring gene STARR-positive B cell enhancer mm9_chr3:86821685-86821986 Neighboring gene CD1d1 antigen Neighboring gene aminoacyl tRNA synthetase complex-interacting multifunctional protein 1 pseudogene

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 367449

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_150550.1 

    Range
    101..284
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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
    86894289..86894472
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version