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LOC127401811 H3K27ac hESC enhancers GRCh37_chr4:159592655-159593291 and GRCh37_chr4:159593295-159593796 [ Homo sapiens (human) ]

Gene ID: 127401811, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127401811
Gene description
H3K27ac hESC enhancers GRCh37_chr4:159592655-159593291 and GRCh37_chr4:159593295-159593796
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 two enhancers that were validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive human embryonic stem cells, where they are marked by the H3K27ac histone modification. This locus also includes two accessible chromatin subregions, one of which was validated as an enhancer and the other as a silencer based on their ability to activate or 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, Jun 2023]
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Genomic context

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See LOC127401811 in Genome Data Viewer
Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (158671492..158672644)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (162022240..162023392)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (159592644..159593796)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene GC-rich promoter binding protein 1 pseudogene Neighboring gene uncharacterized LOC124900802 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22084 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:159461287-159462486 Neighboring gene relaxin family peptide receptor 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:159501162-159501738 Neighboring gene Sharpr-MPRA regulatory region 15067 Neighboring gene NANOG hESC enhancer GRCh37_chr4:159577538-159578061 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:159580614-159581120 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:159592018-159592654 Neighboring gene chromosome 4 open reading frame 46 Neighboring gene electron transfer flavoprotein dehydrogenase Neighboring gene small nucleolar RNA U3 Neighboring gene hESC enhancers GRCh37_chr4:159643958-159644541 and GRCh37_chr4:159644542-159645126 Neighboring gene peptidylprolyl isomerase D

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 22085
  • ATAC-STARR-seq lymphoblastoid silent region 15772
  • H3K27ac hESC enhancer GRCh37_chr4:159592655-159593291
  • H3K27ac hESC enhancer GRCh37_chr4:159593295-159593796

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_103771.2 

    Range
    101..1253
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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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    158671492..158672644
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    162022240..162023392
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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