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LOC127829545 H3K27ac hESC enhancer GRCh37_chr15:52860827-52861573 [ Homo sapiens (human) ]

Gene ID: 127829545, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127829545
Gene description
H3K27ac hESC enhancer GRCh37_chr15:52860827-52861573
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic region was validated as an active enhancer by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in primed human embryonic stem cells, where it is marked by the H3K27ac histone modification. This locus also includes two accessible chromatin subregions that were validated as silencers based on their ability to repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

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See LOC127829545 in Genome Data Viewer
Location:
chromosome: 15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (52568630..52569376)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (50376930..50377676)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (52860827..52861573)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene myosin VC Neighboring gene uncharacterized LOC105370819 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6446 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9426 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:52630438-52631014 Neighboring gene myosin VA Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9427 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9428 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9429 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr15:52684277-52684953 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr15:52751737-52752632 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:52757960-52758715 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr15:52769819-52770320 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr15:52770321-52770820 Neighboring gene negCOR silencer S8 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6447 Neighboring gene eukaryotic translation elongation factor 1 beta 2 pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:52838153-52838654 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:52860078-52860826 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9432 Neighboring gene cAMP regulated phosphoprotein 19 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:52904295-52904794 Neighboring gene atos homolog A Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9433 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9434 Neighboring gene NANOG hESC enhancer GRCh37_chr15:52963789-52964290 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9435 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9436 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6450 Neighboring gene uncharacterized LOC105370821 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:52979459-52979959 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9437 Neighboring gene Sharpr-MPRA regulatory region 217 Neighboring gene one cut homeobox 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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome. Hansen TJ, et al. Genome Res, 2022 Aug 25. PMID 35858748, Free PMC Article
  2. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid silent region 6448
  • ATAC-STARR-seq lymphoblastoid silent region 6449

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_131027.1 

    Range
    101..847
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    52568630..52569376
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    50376930..50377676
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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