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LOC127405131 NANOG hESC enhancer GRCh37_chr6:2665381-2665947 [ Homo sapiens (human) ]

Gene ID: 127405131, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127405131
Gene description
NANOG hESC enhancer GRCh37_chr6:2665381-2665947
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. [provided by RefSeq, Oct 2022]
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Genomic context

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See LOC127405131 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 (2665147..2665713)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (2530727..2531293)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (2665381..2665947)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene GMDS divergent transcript Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 28 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:2423149-2423723 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:2434059-2435258 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16827 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr6:2639651-2640166 Neighboring gene long intergenic non-protein coding RNA 1600 Neighboring gene long intergenic non-protein coding RNA 2521 Neighboring gene myosin light chain kinase family member 4 Neighboring gene uncharacterized LOC124901240 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23872 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:2734004-2734694 Neighboring gene Sharpr-MPRA regulatory region 12436 Neighboring gene Sharpr-MPRA regulatory region 3200 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:2764192-2765071 Neighboring gene Sharpr-MPRA regulatory region 3960 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16830 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16831 Neighboring gene WRN helicase interacting protein 1

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_107102.1 

    Range
    101..667
    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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    2665147..2665713
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    2530727..2531293
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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