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LOC127399660 OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197306909-197307455 [ Homo sapiens (human) ]

Gene ID: 127399660, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127399660
Gene description
OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197306909-197307455
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 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 LOC127399660 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 (197580038..197580584)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (200312677..200313225)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (197306909..197307455)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 5776 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197238623-197239160 Neighboring gene long intergenic non-protein coding RNA 2012 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:197247683-197248388 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:197248389-197249094 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:197250741-197251240 Neighboring gene 3-hydroxybutyrate dehydrogenase 1 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr3:197268447-197269042 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:197269043-197269636 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21111 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:197303211-197303712 Neighboring gene ribosomal protein L36 pseudogene 7 Neighboring gene SDHA pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15088 Neighboring gene uncharacterized LOC124909481 Neighboring gene keratinocyte proline-rich protein Neighboring gene PPP4R2 pseudogene 4

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

Variation

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See Variation Viewer (GRCh37.p13)

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_101624.1 

    Range
    101..647
    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    197580038..197580584
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    200312677..200313225
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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