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LOC127399353 NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:185363553-185364440 [ Homo sapiens (human) ]

Gene ID: 127399353, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127399353
Gene description
NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:185363553-185364440
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 LOC127399353 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 (185645765..185646652)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (188461600..188462487)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (185363553..185364440)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20925 Neighboring gene lipase H Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20926 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:185272617-185273292 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:185280735-185281348 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:185281349-185281962 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:185300277-185301176 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:185302322-185302941 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:185302942-185303560 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:185303561-185304179 Neighboring gene SUMO specific peptidase 2 Neighboring gene ribosomal protein L34 pseudogene 10 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:185359885-185360103 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:185369908-185370106 Neighboring gene insulin like growth factor 2 mRNA binding protein 2 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr3:185406257-185407456 Neighboring gene IGF2BP2 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:185442702-185443202 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:185445539-185446390 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:185446391-185447242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:185449611-185450110 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14976 Neighboring gene uncharacterized LOC124906313 Neighboring gene Sharpr-MPRA regulatory region 9603 Neighboring gene Sharpr-MPRA regulatory region 5696

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_101319.1 

    Range
    101..988
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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
    185645765..185646652
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    188461600..188462487
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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