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LOC126862441 BRD4-independent group 4 enhancer GRCh37_chr16:87823556-87824755 [ Homo sapiens (human) ]

Gene ID: 126862441, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126862441
Gene description
BRD4-independent group 4 enhancer GRCh37_chr16:87823556-87824755
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 naive human embryonic stem cells, where it is marked by the H3K4me1 histone modification. [provided by RefSeq, Jan 2023]
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Genomic context

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Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (87789631..87791149)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (93862279..93863797)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene kelch domain containing 4 Neighboring gene uncharacterized LOC124903751 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87782061-87782712 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11329 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87798880-87799504 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11330 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11331 Neighboring gene uncharacterized LOC105371399 Neighboring gene uncharacterized LOC102724467 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:87806571-87806776 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87811607-87812472 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87812473-87813338 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87813339-87814204 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11334 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11335 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87837714-87838214 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87839527-87840470 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87840471-87841412 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11339 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11340 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87856683-87857676 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87858671-87859662 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87861620-87862209 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7841 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87863388-87863975 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:87865154-87865742 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:87867637-87868191 Neighboring gene Sharpr-MPRA regulatory region 5705 Neighboring gene uncharacterized LOC124903753 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr16:87870283-87871482 Neighboring gene solute carrier family 7 member 5 Neighboring gene microRNA 6775

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

  • H3K4me1 hESC enhancer GRCh37_chr16:87823237-87823738

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_086939.2 

    Range
    101..1619
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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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    87789631..87791149
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    93862279..93863797
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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