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LOC106799848 OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35015659-35016230 [ Homo sapiens (human) ]

Gene ID: 106799848, updated on 10-Oct-2023

Summary

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Gene symbol
LOC106799848
Gene description
OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35015659-35016230
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, where it associates with the OCT4 and NANOG transcription factors and is marked by the H3K27ac and H3K4me1 histone modifications. A subregion, which is poorly conserved between human and mouse at the sequence level, can also function as an enhancer in human Jurkat T cells. Two identical copies of that sequence are present in opposite orientations on chromosome 14 of the GRCh38 reference genome assembly. This record represents the centromere-proximal copy that overlaps RNU1-27P (RNA, U1 small nuclear 27, pseudogene). The chromatin structure of that subregion represents a histone acetylation island in human T cells based on the diacetylation of histone H3 at lysines 9 and 14. [provided by RefSeq, Jan 2023]
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Genomic context

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See LOC106799848 in Genome Data Viewer
Location:
14q13.1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (34546453..34547024)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (28745209..28745780)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (35015734..35015964)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene E2F associated phosphoprotein Neighboring gene Sharpr-MPRA regulatory region 9667 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35008110-35009034 Neighboring gene uncharacterized LOC105370447 Neighboring gene uncharacterized LOC112268123 Neighboring gene uncharacterized LOC105370449 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35016231-35016802 Neighboring gene RNA, U1 small nuclear 27, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr14:35022516-35022692 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35024749-35025306 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35025307-35025864 Neighboring gene RNA, U1 small nuclear 28, pseudogene Neighboring gene sorting nexin 6 Neighboring gene ribosomal protein S19 pseudogene 3

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. Genome-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns. Roh TY, et al. Genome Res, 2007 Jan. PMID 17135569, Free PMC Article
  2. Active chromatin domains are defined by acetylation islands revealed by genome-wide mapping. Roh TY, et al. Genes Dev, 2005 Mar 1. PMID 15706033, Free PMC Article
  3. 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 variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • non-conserved AI 117a
  • nonconserved acetylation island sequence 117a enhancer

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_046148.2 

    Range
    101..672
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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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    34546453..34547024
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    28745209..28745780
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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