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LOC127405340 NANOG-H3K4me1 hESC enhancer GRCh37_chr6:11609547-11610088 [ Homo sapiens (human) ]

Gene ID: 127405340, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127405340
Gene description
NANOG-H3K4me1 hESC enhancer GRCh37_chr6:11609547-11610088
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 H3K4me1 histone modification. [provided by RefSeq, Oct 2022]
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Genomic context

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See LOC127405340 in Genome Data Viewer
Location:
chromosome: 6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (11609314..11609855)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (11477672..11478213)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (11609547..11610088)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374928 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23989 Neighboring gene THAP domain containing 12 pseudogene 5 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16913 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:11538275-11538776 Neighboring gene transmembrane protein 170B Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr6:11650363-11650968 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr6:11650969-11651574 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16917 Neighboring gene uncharacterized LOC340184 Neighboring gene small nucleolar RNA SNORA67 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23990 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23991 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:11722447-11723646 Neighboring gene uncharacterized LOC124901258 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_88259 Neighboring gene androgen dependent TFPI regulating protein

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

Variation

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See Variation Viewer (GRCh37.p13)

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_107311.1 

    Range
    101..642
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    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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    11609314..11609855
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    11477672..11478213
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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