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LOC127400416 NANOG hESC enhancer GRCh37_chr4:20284545-20285162 [ Homo sapiens (human) ]

Gene ID: 127400416, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127400416
Gene description
NANOG hESC enhancer GRCh37_chr4:20284545-20285162
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 and 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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See LOC127400416 in Genome Data Viewer
Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (20282922..20283539)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (20265622..20266247)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (20284545..20285162)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374513 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:20029655-20030854 Neighboring gene uncharacterized LOC105374514 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:20254644-20255442 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:20255443-20256241 Neighboring gene slit guidance ligand 2 Neighboring gene NANOG hESC enhancer GRCh37_chr4:20353162-20353707 Neighboring gene SLIT2 intronic transcript 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21362 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21363 Neighboring gene Sharpr-MPRA regulatory region 13128 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:20525613-20525800 Neighboring gene microRNA 218-1

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_102379.1 

    Range
    101..718
    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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    20282922..20283539
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    20265622..20266247
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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