U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC128927842 CapStarr-seq enhancer MGSCv37_chr18:80935003-80935320 [ Mus musculus (house mouse) ]

Gene ID: 128927842, updated on 8-Feb-2024

Summary

Go to the top of the page Help
Gene symbol
LOC128927842
Gene description
CapStarr-seq enhancer MGSCv37_chr18:80935003-80935320
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
Rr370408
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]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC128927842 in Genome Data Viewer
Location:
chromosome: 18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (80781479..80781796)

Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41790 Neighboring gene nuclear factor of activated T cells, cytoplasmic, calcineurin dependent 1 Neighboring gene predicted gene, 52342 Neighboring gene STARR-positive B cell enhancer mm9_chr18:80888627-80888928 Neighboring gene ATPase, class II, type 9B Neighboring gene STARR-seq mESC enhancer starr_45180 Neighboring gene STARR-positive B cell enhancer ABC_E7617 Neighboring gene STARR-seq mESC enhancer starr_45183 Neighboring gene spalt like transcription factor 3 Neighboring gene predicted gene 27239

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

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

Go to the top of the page Help

Other Names

  • regulatory region 370408

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_153448.1 

    Range
    101..418
    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_000084.7 Reference GRCm39 C57BL/6J

    Range
    80781479..80781796
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version