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LOC127405488 NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:20630214-20630986 [ Homo sapiens (human) ]

Gene ID: 127405488, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127405488
Gene description
NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:20630214-20630986
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 human embryonic stem cells. This enhancer associates with the NANOG transcription factor and is marked by the H3K27ac and H3K4me1 histone modifications. [provided by RefSeq, Oct 2022]
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Genomic context

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See LOC127405488 in Genome Data Viewer
Location:
chromosome: 6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (20629983..20630755)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (20501952..20502723)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124901273 Neighboring gene MPRA-validated peak5719 silencer Neighboring gene CDK5 regulatory subunit associated protein 1 like 1 Neighboring gene uncharacterized LOC105374968 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:20629440-20630213 Neighboring gene NANOG hESC enhancer GRCh37_chr6:20686272-20686773 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24132 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16981 Neighboring gene MPRA-validated peak5720 silencer Neighboring gene ribosomal protein L36a pseudogene 25 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:20798064-20798254 Neighboring gene H3K27ac hESC enhancer GRCh37_chr6:20810592-20811186 Neighboring gene MPRA-validated peak5721 silencer Neighboring gene NANOG hESC enhancer GRCh37_chr6:20834311-20834850 Neighboring gene VISTA enhancer hs1340 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:20877312-20878511 Neighboring gene Sharpr-MPRA regulatory region 659 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24134 Neighboring gene MPRA-validated peak5723 silencer Neighboring gene RNA, U6 small nuclear 150, pseudogene

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_107459.1 

    Range
    101..873
    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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    20629983..20630755
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    20501952..20502723
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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