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LOC127885007 H3K27ac hESC enhancer GRCh37_chr16:87424900-87425858 [ Homo sapiens (human) ]

Gene ID: 127885007, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127885007
Gene description
H3K27ac hESC enhancer GRCh37_chr16:87424900-87425858
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 includes an enhancer that was validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in primed 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 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 LOC127885007 in Genome Data Viewer
Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (87391294..87392418)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (93462186..93463310)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene C16orf95 divergent transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87364853-87365354 Neighboring gene F-box protein 31 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87379751-87380306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87380307-87380861 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87386425-87386966 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87399801-87400302 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87403399-87404245 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7833 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87417185-87417838 Neighboring gene uncharacterized LOC124903747 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:87417839-87418490 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11321 Neighboring gene tRNA-Met (anticodon CAT) 6-1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7837 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7836 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11322 Neighboring gene microtubule associated protein 1 light chain 3 beta Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:87440788-87441987 Neighboring gene zinc finger CCHC-type containing 14 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87456781-87457290 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87457291-87457798 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87458817-87459326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87460343-87460850 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87468667-87469584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87486642-87487142 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr16:87490779-87491978 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87502852-87503437 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87503438-87504022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87504708-87505665 Neighboring gene nuclear receptor subfamily 3 group C member 1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7838 Neighboring gene ZCCHC14 divergent transcript

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 7835

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_134765.2 

    Range
    101..1225
    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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    87391294..87392418
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    93462186..93463310
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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