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LOC127892905 OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30194246-30194824 [ Homo sapiens (human) ]

Gene ID: 127892905, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127892905
Gene description
OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30194246-30194824
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 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, Dec 2022]
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Genomic context

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See LOC127892905 in Genome Data Viewer
Location:
chromosome: 20
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (31606443..31607021)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (33330682..33331260)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 384, pseudogene Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:30172998-30173500 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:30173501-30174004 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30175011-30175512 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr20:30178306-30178806 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr20:30178807-30179307 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30180469-30181234 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30182001-30182766 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancers GRCh37_chr20:30182767-30183531 and GRCh37_chr20:30183532-30184297 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30185063-30185828 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:30185829-30186593 Neighboring gene Sharpr-MPRA regulatory region 14532 Neighboring gene VISTA enhancer hs480 Neighboring gene uncharacterized LOC105372588 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:30192859-30193529 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:30193530-30194199 Neighboring gene Sharpr-MPRA regulatory region 11771 Neighboring gene CRISPRi-validated cis-regulatory element chr20.845 Neighboring gene CRISPRi-validated cis-regulatory element chr20.846 Neighboring gene microRNA 3193 Neighboring gene inhibitor of DNA binding 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17686 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:30206543-30207044 Neighboring gene MPRA-validated peak4184 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:30221506-30222006 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:30222007-30222507 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12759 Neighboring gene cytochrome c oxidase subunit 4I2

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_142680.1 

    Range
    101..679
    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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    31606443..31607021
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    33330682..33331260
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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