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LOC127889565 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:72916583-72917576 [ Homo sapiens (human) ]

Gene ID: 127889565, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127889565
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:72916583-72917576
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 and H3K4me1 histone modifications. 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 LOC127889565 in Genome Data Viewer
Location:
chromosome: 18
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (75204628..75205621)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (75434021..75435014)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904325 Neighboring gene uncharacterized LOC124904326 Neighboring gene uncharacterized LOC105376874 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72882003-72882504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72882505-72883004 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:72920599-72921529 Neighboring gene Sharpr-MPRA regulatory region 3936 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9549 Neighboring gene prostaglandin reductase 3 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr18:72947291-72948490 Neighboring gene teashirt zinc finger homeobox 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13506 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72985503-72986004 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72986005-72986504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:72990985-72991486 Neighboring gene Sharpr-MPRA regulatory region 9768 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr18:73061340-73062286 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr18:73062287-73063231 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:73072069-73072610 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:73072611-73073151 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:73090414-73090914 Neighboring gene uncharacterized LOC105372200 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:73120415-73121614 Neighboring gene small integral membrane protein 21

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 silent region 9546
  • ATAC-STARR-seq lymphoblastoid silent region 9547

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_139085.1 

    Range
    101..1094
    Download
    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_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    75204628..75205621
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    75434021..75435014
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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