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LOC127398860 OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:140789770-140790312 [ Homo sapiens (human) ]

Gene ID: 127398860, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127398860
Gene description
OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:140789770-140790312
Gene type
biological region
Feature type(s)
regulatory: enhancer
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 and primed human embryonic stem cells. This enhancer associates with the OCT4 and NANOG transcription factors and is marked by the H3K27ac and H3K4me1 histone modifications. [provided by RefSeq, Oct 2022]
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Genomic context

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See LOC127398860 in Genome Data Viewer
Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (141070928..141071470)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (143818442..143818984)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ribosomal protein L23a pseudogene 41 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20620 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:140661115-140661962 Neighboring gene solute carrier family 25 member 36 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14772 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:140789226-140789769 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:140792837-140793422 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:140802197-140802706 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:140805486-140806259 Neighboring gene splA/ryanodine receptor domain and SOCS box containing 4 Neighboring gene NANOG hESC enhancer GRCh37_chr3:140821789-140822305 Neighboring gene NANOG hESC enhancer GRCh37_chr3:140923620-140924130 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:140925635-140926136 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14773 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:140978638-140979382 Neighboring gene 2-phosphoxylose phosphatase 1 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_64847 Neighboring gene ribosomal protein L31 pseudogene 21 Neighboring gene uncharacterized LOC124909441 Neighboring gene PHF5A pseudogene 7

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. 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

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_100826.1 

    Range
    101..643
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    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    141070928..141071470
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    143818442..143818984
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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