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LOC127402301 H3K27ac hESC enhancer GRCh37_chr5:1801330-1802317 [ Homo sapiens (human) ]

Gene ID: 127402301, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127402301
Gene description
H3K27ac hESC enhancer GRCh37_chr5:1801330-1802317
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 was validated as an active enhancer by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive human embryonic stem cells, where it is marked by the H3K27ac histone modification. This locus also includes an accessible chromatin subregion that was validated as an enhancer based on its 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 LOC127402301 in Genome Data Viewer
Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (1801216..1802203)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (1716103..1717091)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (1801330..1802317)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374614 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:1708852-1709007 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1708971-1709534 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1709535-1710099 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1710100-1710663 Neighboring gene microRNA 4277 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1745447-1745946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1751136-1751775 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1768734-1769442 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:1769443-1770149 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1771839-1772338 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22308 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22309 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22310 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22311 Neighboring gene uncharacterized LOC101929003 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22312 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15888 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22313 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22314 Neighboring gene mitochondrial ribosomal protein L36 Neighboring gene NADH:ubiquinone oxidoreductase subunit S6 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1815894-1816405 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1817127-1817628 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1817629-1818128 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1827503-1828018 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1828019-1828534 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1831287-1831980 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1831981-1832674 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:1833787-1834780 Neighboring gene VISTA enhancer hs2567 Neighboring gene eukaryotic translation initiation factor 3 subunit A Neighboring gene long intergenic non-protein coding RNA 2116

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 active region 22315

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_104260.1 

    Range
    101..1088
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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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    1801216..1802203
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    1716103..1717091
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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