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LOC127398177 NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:100428798-100429688 [ Homo sapiens (human) ]

Gene ID: 127398177, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127398177
Gene description
NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:100428798-100429688
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 LOC127398177 in Genome Data Viewer
Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (100709954..100710844)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (103415709..103416599)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (100428798..100429688)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14573 Neighboring gene transmembrane protein 45A Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:100280470-100281334 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14574 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20161 Neighboring gene adhesion G protein-coupled receptor G7 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20162 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20163 Neighboring gene glia maturation factor beta pseudogene 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:100427906-100428797 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:100456051-100456928 Neighboring gene trafficking from ER to golgi regulator Neighboring gene uncharacterized LOC124906260 Neighboring gene ABI family member 3 binding protein Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_63759 Neighboring gene Sharpr-MPRA regulatory region 7106 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_63902 Neighboring gene ABRAXAS1 pseudogene 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_100146.1 

    Range
    101..991
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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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    100709954..100710844
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    103415709..103416599
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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