U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC106799849 OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35025307-35025864 [ Homo sapiens (human) ]

Gene ID: 106799849, updated on 17-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC106799849
Gene description
OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35025307-35025864
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, 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-distal copy that overlaps RNU1-28P (RNA, U1 small nuclear 28, 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]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC106799849 in Genome Data Viewer
Location:
14q13.1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (34556101..34556658)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (28752141..28752698)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (35025307..35025864)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370447 Neighboring gene uncharacterized LOC112268123 Neighboring gene uncharacterized LOC105370449 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35015659-35016230 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35016231-35016802 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:35022516-35022692 Neighboring gene RNA, U1 small nuclear 27, pseudogene Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35024749-35025306 Neighboring gene RNA, U1 small nuclear 28, pseudogene Neighboring gene sorting nexin 6 Neighboring gene ribosomal protein S19 pseudogene 3 Neighboring gene Sharpr-MPRA regulatory region 6350 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5666 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8255 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:35117872-35118710 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:35121050-35121268 Neighboring gene RNA, U6 small nuclear 1261, pseudogene

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

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

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

Go to the top of the page Help

Other Names

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

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_046149.2 

    Range
    101..658
    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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    34556101..34556658
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    28752141..28752698
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases