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LOC126860229 BRD4-independent group 4 enhancer GRCh37_chr7:152547394-152548593 [ Homo sapiens (human) ]

Gene ID: 126860229, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126860229
Gene description
BRD4-independent group 4 enhancer GRCh37_chr7:152547394-152548593
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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See LOC126860229 in Genome Data Viewer
Location:
chromosome: 7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (152850309..152851859)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (154023551..154025101)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26884 Neighboring gene Sharpr-MPRA regulatory region 2063 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26885 Neighboring gene ATP synthase peripheral stalk-membrane subunit b pseudogene 3 Neighboring gene RNA, 7SL, cytoplasmic 845, pseudogene Neighboring gene actin related protein 3B Neighboring gene ReSE screen-validated silencer GRCh37_chr7:152542780-152542923 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152543205-152543792 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152543793-152544380 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:152580535-152581290 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152591520-152592087 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152592088-152592654 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:152665473-152666348 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:152666349-152667224 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:152667225-152668099 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr7:152683335-152684085 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:152685957-152686952 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:152686953-152687946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152740735-152741234 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:152744087-152745286 Neighboring gene MPRA-validated peak6860 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:152780188-152781036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:152781037-152781883 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152796011-152796512 Neighboring gene small ubiquitin-related modifier 2-like Neighboring gene uncharacterized LOC102723686 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:152887976-152889175 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:152890387-152890887 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:152900290-152901489 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr7:152955709-152956222 Neighboring gene Sharpr-MPRA regulatory region 3392

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_chr7:152548079-152548944

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_084730.2 

    Range
    101..1651
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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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    152850309..152851859
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    154023551..154025101
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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