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LOC126860372 MED14-independent group 3 enhancer GRCh37_chr8:41675890-41677089 [ Homo sapiens (human) ]

Gene ID: 126860372, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126860372
Gene description
MED14-independent group 3 enhancer GRCh37_chr8:41675890-41677089
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 STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay in HCT116 colorectal carcinoma cells, where it was defined as a group 3 enhancer that depends on the BRD2, BRD4, P300/CBP and CDK7 cofactors, but it has limited or no dependence on the MED14 core Mediator complex subunit. A subregion was also validated as an enhancer by ChIP-STARR-seq in naive human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K27ac and H3K4me1 histone modifications. [provided by RefSeq, Dec 2022]
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Genomic context

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Location:
chromosome: 8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (41818372..41819571)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (42091970..42093169)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene microRNA 486-1 Neighboring gene microRNA 486-2 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:41541049-41542248 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:41543347-41543848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:41543849-41544348 Neighboring gene ankyrin 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27292 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27293 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:41570734-41571933 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27294 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:41574438-41575290 Neighboring gene Sharpr-MPRA regulatory region 1462 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:41591757-41592299 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:41592277-41593476 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:41593686-41594662 Neighboring gene Sharpr-MPRA regulatory region 338 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:41649575-41650774 Neighboring gene uncharacterized LOC105379392 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:41656213-41657412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:41666802-41667754 Neighboring gene Sharpr-MPRA regulatory region 6451 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:41685500-41686057 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:41691339-41692069 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:41692070-41692799 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:41699113-41699614 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:41699615-41700114 Neighboring gene RNA, 7SL, cytoplasmic 149, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr8:41734031-41734243 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:41759247-41759433 Neighboring gene Sharpr-MPRA regulatory region 1046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27296 Neighboring gene lysine acetyltransferase 6A Neighboring gene small nucleolar RNA SNORD112

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

  • NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:41676196-41676962

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_084872.1 

    Range
    101..1300
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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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    41818372..41819571
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    42091970..42093169
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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