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LOC128924402 CapStarr-seq enhancer MGSCv37_chr1:173849407-173849647 [ Mus musculus (house mouse) ]

Gene ID: 128924402, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128924402
Gene description
CapStarr-seq enhancer MGSCv37_chr1:173849407-173849647
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
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 LOC128924402 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (171746843..171747083)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene CD84 antigen Neighboring gene predicted gene, 51686 Neighboring gene STARR-seq mESC enhancer starr_03042 Neighboring gene STARR-seq mESC enhancer starr_03043 Neighboring gene STARR-seq mESC enhancer starr_03044 Neighboring gene predicted gene 52845 Neighboring gene STARR-positive B cell enhancer ABC_E3330 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:173851483-173851687 Neighboring gene predicted gene, 37065 Neighboring gene SLAM family member 6 Neighboring gene STARR-seq mESC enhancer starr_03046 Neighboring gene STARR-positive B cell enhancer ABC_E5850 Neighboring gene VISTA enhancer mm1677 Neighboring gene VANGL planar cell polarity 2 Neighboring gene STARR-positive B cell enhancer ABC_E9498 Neighboring gene nescient helix loop helix 1

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

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_150177.1 

    Range
    101..341
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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_000067.7 Reference GRCm39 C57BL/6J

    Range
    171746843..171747083
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version