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LOC127882740 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:1755527-1756391 [ Homo sapiens (human) ]

Gene ID: 127882740, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127882740
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:1755527-1756391
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 naive human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes an accessible chromatin subregion that was validated as a silencer based on its 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 LOC127882740 in Genome Data Viewer
Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (1705526..1706390)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (1721374..1722238)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (1755527..1756391)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:1662256-1662756 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:1662757-1663257 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10228 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10229 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10230 Neighboring gene cramped chromatin regulator homolog 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:1696049-1696268 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:1701290-1701464 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:1728137-1728772 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:1739823-1740519 Neighboring gene Sharpr-MPRA regulatory region 11614 Neighboring gene Jupiter microtubule associated homolog 2 Neighboring gene Sharpr-MPRA regulatory region 3989 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6998 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6999 Neighboring gene MAPK8IP3 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10231 Neighboring gene mitogen-activated protein kinase 8 interacting protein 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10232 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10233 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10234 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:1784965-1785466 Neighboring gene microRNA 3177

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 6997

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_132707.1 

    Range
    101..965
    Download
    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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    1705526..1706390
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    1721374..1722238
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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