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LOC127398450 NANOG hESC enhancer GRCh37_chr3:123985286-123985809 [ Homo sapiens (human) ]

Gene ID: 127398450, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127398450
Gene description
NANOG hESC enhancer GRCh37_chr3:123985286-123985809
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 primed 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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Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (124266439..124266962)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (126992617..126993140)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene kalirin RhoGEF kinase Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:123876899-123877544 Neighboring gene uncharacterized LOC105374077 Neighboring gene ribosomal protein L7 pseudogene 15 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20395 Neighboring gene MPRA-validated peak4803 silencer Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:123966684-123967883 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14652 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr3:123988121-123988891 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:124091505-124092033 Neighboring gene microRNA 6083 Neighboring gene RNA, U6 small nuclear 143, 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_100419.1 

    Range
    101..624
    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    124266439..124266962
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    126992617..126993140
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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