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LOC127399669 NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197676763-197677545 [ Homo sapiens (human) ]

Gene ID: 127399669, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127399669
Gene description
NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197676763-197677545
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 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 LOC127399669 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 (197949892..197950674)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (200682345..200683127)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (197676763..197677545)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene NUP98-IQCG recombination region Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197626412-197627184 Neighboring gene RNA, U6 small nuclear 858, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:197628168-197628668 Neighboring gene uncharacterized LOC124906330 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15094 Neighboring gene IQ motif containing G Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:197639502-197640701 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21122 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:197678329-197679110 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:197685865-197686365 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15095 Neighboring gene ribosomal protein L35a Neighboring gene MPRA-validated peak4998 silencer Neighboring gene leishmanolysin like peptidase Neighboring gene MPRA-validated peak4999 silencer Neighboring gene RNA, U6 small nuclear 621, pseudogene Neighboring gene LMLN antisense RNA 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_101633.1 

    Range
    101..883
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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
    197949892..197950674
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    200682345..200683127
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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