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LOC128925209 CapStarr-seq enhancer MGSCv37_chr5:63249548-63249756 [ Mus musculus (house mouse) ]

Gene ID: 128925209, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128925209
Gene description
CapStarr-seq enhancer MGSCv37_chr5:63249548-63249756
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
Rr367842
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 NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC128925209 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 (63015652..63015860)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 24079 Neighboring gene ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 2 Neighboring gene STARR-seq mESC enhancer starr_13171 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:63169898-63170155 Neighboring gene STARR-seq mESC enhancer starr_13172 Neighboring gene STARR-seq mESC enhancer starr_13173 Neighboring gene STARR-positive B cell enhancer ABC_E11287 Neighboring gene STARR-seq mESC enhancer starr_13174 Neighboring gene death domain containing 1 Neighboring gene STARR-seq mESC enhancer starr_13175 Neighboring gene STARR-seq mESC enhancer starr_13176 Neighboring gene STARR-seq mESC enhancer starr_13177 Neighboring gene predicted gene, 30837 Neighboring gene NACHT and WD repeat domain containing 2, opposite strand Neighboring gene NACHT and WD repeat domain containing 2

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 367842

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_150923.1 

    Range
    101..309
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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_000071.7 Reference GRCm39 C57BL/6J

    Range
    63015652..63015860
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version