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LOC127829327 H3K27ac hESC enhancer GRCh37_chr15:40986424-40987021 [ Homo sapiens (human) ]

Gene ID: 127829327, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127829327
Gene description
H3K27ac hESC enhancer GRCh37_chr15:40986424-40987021
Gene type
biological region
Feature type(s)
regulatory: enhancer
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 includes an enhancer that was validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive and 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 enhancers based on their ability to activate 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 LOC127829327 in Genome Data Viewer
Location:
chromosome: 15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (40694164..40694853)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (38499846..38500535)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA U13 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:40903378-40903589 Neighboring gene kinetochore scaffold 1 Neighboring gene RNA, 7SL, cytoplasmic 376, pseudogene Neighboring gene MPRA-validated peak2302 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:40987619-40988216 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9258 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:40988217-40988813 Neighboring gene RAD51 antisense RNA 1 Neighboring gene RAD51 recombinase Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41032727-41033599 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6340 Neighboring gene regulator of microtubule dynamics 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:41046843-41047057 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9259 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9260 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9261 Neighboring gene uncharacterized LOC124903474 Neighboring gene SUMO2 pseudogene 15

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 across the chromatin accessible human genome. Hansen TJ, et al. Genome Res, 2022 Jul 20. 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

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 9256
  • ATAC-STARR-seq lymphoblastoid active region 9257

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_130809.2 

    Range
    101..790
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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
    40694164..40694853
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    38499846..38500535
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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