U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC127815682 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117149889-117150624 [ Homo sapiens (human) ]

Gene ID: 127815682, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC127815682
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117149889-117150624
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 (MPRA) in naive human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes two accessible chromatin subregions that were validated as enhancers based on their ability to activate an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC127815682 in Genome Data Viewer
Location:
chromosome: 9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (114387609..114388344)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (126580033..126580768)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (117149889..117150624)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:117096322-117096822 Neighboring gene orosomucoid 1 Neighboring gene orosomucoid 2 Neighboring gene AT-hook transcription factor Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28855 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28856 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117129412-117130360 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117131354-117132058 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_106363 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:117143871-117144852 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117144987-117145802 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28858 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28859 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28860 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28861 Neighboring gene uncharacterized LOC124902253 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20210 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20211 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:117167737-117168238 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20212 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:117183585-117184085 Neighboring gene whirlin Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117197109-117197608 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28867 Neighboring gene uncharacterized LOC124902254 Neighboring gene small EDRK-rich factor 2 pseudogene Neighboring gene Sharpr-MPRA regulatory region 12257 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117266242-117267132 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:117267133-117268023 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:117276161-117276362 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28868 Neighboring gene uncharacterized LOC105376229 Neighboring gene small nucleolar RNA U13

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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome. Hansen TJ, et al. Genome Res, 2022 Aug 25. PMID 35858748, Free PMC Article
  2. 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 Variation Viewer (GRCh37.p13)

General gene information

Go to the top of the page Help

Other Names

  • ATAC-STARR-seq lymphoblastoid active region 28862
  • ATAC-STARR-seq lymphoblastoid active region 28863

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_117188.1 

    Range
    101..836
    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    114387609..114388344
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    126580033..126580768
    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