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LOC128927934 CapStarr-seq enhancer MGSCv37_chr19:41105621-41105774 [ Mus musculus (house mouse) ]

Gene ID: 128927934, updated on 8-Feb-2024

Summary

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Gene symbol
LOC128927934
Gene description
CapStarr-seq enhancer MGSCv37_chr19:41105621-41105774
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
Rr370497
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 LOC128927934 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 (41019570..41019723)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA C330026H20 gene Neighboring gene STARR-positive B cell enhancer mm9_chr19:41090421-41090722 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:41103805-41103914 Neighboring gene CapStarr-seq enhancer MGSCv37_chr19:41113653-41113854 Neighboring gene ribosomal protein S10 pseudogene Neighboring gene STARR-seq mESC enhancer starr_46143 Neighboring gene deoxynucleotidyltransferase, terminal Neighboring gene STARR-positive B cell enhancer mm9_chr19:41146037-41146338 Neighboring gene STARR-seq mESC enhancer starr_46144 Neighboring gene oligodendrocytic myelin paranodal and inner loop protein Neighboring gene tolloid-like 2 Neighboring gene STARR-seq mESC enhancer starr_46145 Neighboring gene transmembrane 9 superfamily member 3

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 370497

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_153538.1 

    Range
    101..254
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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_000085.7 Reference GRCm39 C57BL/6J

    Range
    41019570..41019723
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version