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LOC126806955 BRD4-independent group 4 enhancer GRCh37_chr4:3756063-3757262 [ Homo sapiens (human) ]

Gene ID: 126806955, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126806955
Gene description
BRD4-independent group 4 enhancer GRCh37_chr4:3756063-3757262
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 includes enhancers that were validated by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay. In HCT116 colorectal carcinoma cells, a subregion was defined as a group 4 enhancer that depends on the BRD2, P300/CBP, MED14 and CDK7 cofactors, but it has limited or no dependence on the BRD4 bromodomain protein. Another subregion was also validated as an enhancer by ChIP-STARR-seq in primed human embryonic stem cells, where it associates with the OCT4 and NANOG transcription factors and is marked by the H3K27ac and H3K4me1 histone modifications. [provided by RefSeq, Jan 2023]
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Genomic context

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See LOC126806955 in Genome Data Viewer
Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (3754122..3755535)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (3753034..3754447)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374357 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3662253-3662897 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3672069-3672570 Neighboring gene Sharpr-MPRA regulatory region 9480 Neighboring gene long intergenic non-protein coding RNA 2171 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3685363-3685922 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3685923-3686480 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3704600-3705507 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3705508-3706414 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3715277-3715778 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3715779-3716278 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3722956-3723456 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3723457-3723957 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3725286-3726088 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3726892-3727693 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3730463-3731202 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:3747634-3748833 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:3748853-3749023 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3750933-3751433 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3761649-3762182 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3762717-3763250 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3763251-3763784 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3769817-3770334 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3770527-3771212 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3771899-3772584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3772585-3773270 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3774643-3775328 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3775329-3776013 Neighboring gene adrenoceptor alpha 2C Neighboring gene uncharacterized LOC124900651 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3782589-3783221

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. Differential cofactor dependencies define distinct types of human enhancers. Neumayr C, et al. Nature, 2022 Jun. PMID 35650434, Free PMC Article
  2. 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 variants in ClinVar

General gene information

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Other Names

  • OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3755849-3756554

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_083276.2 

    Range
    101..1514
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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
    3754122..3755535
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    3753034..3754447
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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