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LOC128927904 CapStarr-seq enhancer MGSCv37_chr19:12871167-12871368 [ Mus musculus (house mouse) ]

Gene ID: 128927904, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128927904
Gene description
CapStarr-seq enhancer MGSCv37_chr19:12871167-12871368
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
Rr370468
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 strong activity in NIH3T3 fibroblasts. [provided by RefSeq, Mar 2023]
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Genomic context

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See LOC128927904 in Genome Data Viewer
Location:
chromosome: 19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (12774041..12774242)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene predicted readthrough transcript (NMD candidate), 44505 Neighboring gene ciliary neurotrophic factor Neighboring gene zinc finger protein 91 Neighboring gene STARR-positive B cell enhancer ABC_E11024 Neighboring gene STARR-positive B cell enhancer ABC_E4268 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:12870708-12870906 Neighboring gene STARR-positive B cell enhancer ABC_E8742 Neighboring gene STARR-positive B cell enhancer ABC_E7636 Neighboring gene leupaxin Neighboring gene ribosomal protein lateral stalk subunit P1, retrotransposed Neighboring gene olfactory receptor family 5 subfamily B member 21

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 370468

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_153509.1 

    Range
    101..302
    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_000085.7 Reference GRCm39 C57BL/6J

    Range
    12774041..12774242
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version