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LOC127889340 H3K27ac hESC enhancer GRCh37_chr18:48722055-48722676 [ Homo sapiens (human) ]

Gene ID: 127889340, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127889340
Gene description
H3K27ac hESC enhancer GRCh37_chr18:48722055-48722676
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 LOC127889340 in Genome Data Viewer
Location:
chromosome: 18
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (51195685..51196306)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (51397449..51398070)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (48722055..48722676)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:48556194-48556812 Neighboring gene SMAD family member 4 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:48636043-48636544 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:48636545-48637044 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:48663303-48664282 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:48664283-48665261 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13326 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13327 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13328 Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:48690189-48690688 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr18:48694526-48695106 Neighboring gene serine and arginine rich splicing factor 10 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 125 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9463 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9464 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9465 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9466 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13330 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9468 Neighboring gene mex-3 RNA binding family member C Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9469 Neighboring gene RNA, U1 small nuclear 46, pseudogene Neighboring gene long intergenic non-protein coding RNA 1630 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr18:48943905-48944452 Neighboring gene SS18 like 2 pseudogene 2

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 13329

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_138873.1 

    Range
    101..722
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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_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    51195685..51196306
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    51397449..51398070
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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