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LOC127403349 NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:88998238-88999188 [ Homo sapiens (human) ]

Gene ID: 127403349, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127403349
Gene description
NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:88998238-88999188
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 LOC127403349 in Genome Data Viewer
Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (89702421..89703371)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (90182819..90183769)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene MEF2C antisense RNA 1 Neighboring gene uncharacterized LOC105379073 Neighboring gene uncharacterized LOC107986387 Neighboring gene MPRA-validated peak5340 silencer Neighboring gene long intergenic non-protein coding RNA 2161 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16166 Neighboring gene MPRA-validated peak5343 silencer Neighboring gene MPRA-validated peak5344 silencer Neighboring gene uncharacterized LOC124901184 Neighboring gene uncharacterized LOC102724637

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_105298.1 

    Range
    101..1051
    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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    89702421..89703371
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    90182819..90183769
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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