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LOC127829088 NANOG-H3K4me1 hESC enhancer GRCh37_chr15:28989516-28990108 [ Homo sapiens (human) ]

Gene ID: 127829088, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127829088
Gene description
NANOG-H3K4me1 hESC enhancer GRCh37_chr15:28989516-28990108
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, Nov 2022]
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Genomic context

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See LOC127829088 in Genome Data Viewer
Location:
chromosome: 15
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (28744370..28744962)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (26521089..26521681)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (28989516..28990108)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene HERC2 pseudogene 9 Neighboring gene HECT and RLD domain containing E3 ubiquitin protein ligase 2 pseudogene Neighboring gene uncharacterized LOC107984746 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:28947514-28948014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:28948015-28948515 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:28950433-28951142 Neighboring gene golgin A8 family member M Neighboring gene RNA, 7SL, cytoplasmic 719, pseudogene Neighboring gene WHAMM pseudogene 2 Neighboring gene zinc finger FYVE-type containing 9 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:29029486-29029986 Neighboring gene Dexi homolog (mouse) 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

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_132442.1 

    Range
    101..693
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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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    28744370..28744962
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_011332701.1 Reference GRCh38.p14 PATCHES

    Range
    906373..906965
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_2

Genomic

  1. NT_187660.1 Reference GRCh38.p14 ALT_REF_LOCI_2

    Range
    1020159..1020751
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    26521089..26521681
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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