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LOC127397671 H3K4me1 hESC enhancer GRCh37_chr3:53752886-53753466 [ Homo sapiens (human) ]

Gene ID: 127397671, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127397671
Gene description
H3K4me1 hESC enhancer GRCh37_chr3:53752886-53753466
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 is marked by the H3K4me1 histone modification. [provided by RefSeq, Oct 2022]
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Genomic context

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See LOC127397671 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 (53718859..53719439)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (53752080..53752660)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (53752886..53753466)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 2578 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53528087-53528586 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53528917-53529702 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53529703-53530487 Neighboring gene ribosomal protein S25 pseudogene 4 Neighboring gene NANOG hESC enhancer GRCh37_chr3:53545870-53546371 Neighboring gene calcium voltage-gated channel subunit alpha1 D Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:53559857-53561056 Neighboring gene NANOG hESC enhancer GRCh37_chr3:53565752-53566253 Neighboring gene NANOG hESC enhancer GRCh37_chr3:53579614-53580115 Neighboring gene uncharacterized LOC124906242 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:53750142-53751341 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53752305-53752885 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53765682-53766222 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53766223-53766761 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19969 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53787515-53788014 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19972 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53798133-53798649 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53802933-53803434 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19973 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:53838519-53839320 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14466 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53840931-53841432 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53841433-53841932 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53857324-53857923 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:53878721-53879561 Neighboring gene Sharpr-MPRA regulatory region 239 Neighboring gene choline dehydrogenase Neighboring gene interleukin 17 receptor B Neighboring gene actin related protein 8

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_099640.1 

    Range
    101..681
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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
    53718859..53719439
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    53752080..53752660
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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