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LOC127396892 H3K27ac hESC enhancer GRCh37_chr3:19188257-19188850 [ Homo sapiens (human) ]

Gene ID: 127396892, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127396892
Gene description
H3K27ac hESC enhancer GRCh37_chr3:19188257-19188850
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 in naive human embryonic stem cells, where it is marked by the H3K27ac histone modification. An accessible chromatin subregion was used in a lentiviral ReSE (repressive ability of silencer elements) screen that assays for cell survival based on transcriptional repression of an apoptosis-inducing fusion protein. That subregion was identified as a functional silencer in K562 erythroleukemia cells. [provided by RefSeq, Jun 2023]
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Genomic context

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See LOC127396892 in Genome Data Viewer
Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (19146765..19147358)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (19150891..19151484)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (19188257..19188850)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107986066 Neighboring gene uncharacterized LOC105376978 Neighboring gene uncharacterized LOC105376981 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:19114887-19115448 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:19115449-19116010 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:19116011-19116572 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:19167677-19168876 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:19188851-19189444 Neighboring gene potassium voltage-gated channel subfamily H member 8 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:19275326-19275842 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:19275843-19276358 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:19308542-19309065 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:19375136-19375636 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14130 Neighboring gene microRNA 4791 Neighboring gene uncharacterized LOC105376982 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:19491994-19493193

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. Systematic identification of silencers in human cells. Pang B, et al. Nat Genet, 2020 Mar. PMID 32094911, 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

  • ReSE screen-validated silencer GRCh37_chr3:19188392-19188563

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_098862.1 

    Range
    101..694
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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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    19146765..19147358
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    19150891..19151484
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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