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LOC127885705 NANOG-H3K27ac hESC enhancer GRCh37_chr17:8124016-8124902 [ Homo sapiens (human) ]

Gene ID: 127885705, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127885705
Gene description
NANOG-H3K27ac hESC enhancer GRCh37_chr17:8124016-8124902
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 primed human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K27ac histone modification. This locus also includes an accessible chromatin subregion that was validated as an enhancer based on its 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]
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Genomic context

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See LOC127885705 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (8220698..8221584)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (8126923..8127812)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903913 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11682 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11683 Neighboring gene nonconserved acetylation island sequence 72 enhancer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:8107017-8107517 Neighboring gene aurora kinase B Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:8113125-8113784 Neighboring gene tRNA-Trp (anticodon CCA) 1-1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11686 Neighboring gene long intergenic non-protein coding RNA 324 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8176 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11687 Neighboring gene tRNA-Gly (anticodon TCC) 3-1 Neighboring gene tRNA-Asp (anticodon GTC) 2-11 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8177 Neighboring gene tRNA-Pro (anticodon CGG) 1-3

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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers across the chromatin accessible human genome. Hansen TJ, et al. Genome Res, 2022 Jul 20. 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

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Review eQTL and phenotype association data in this region using PheGenI

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 11685

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_135440.1 

    Range
    101..987
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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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    8220698..8221584
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    8126923..8127812
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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