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LOC126863007 MED14-independent group 3 enhancer GRCh37_chr20:24615089-24616288 [ Homo sapiens (human) ]

Gene ID: 126863007, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126863007
Gene description
MED14-independent group 3 enhancer GRCh37_chr20:24615089-24616288
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 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: 20
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (24634453..24635652)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (24697277..24698476)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372577 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24299151-24299652 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24423531-24424202 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24424203-24424874 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24424875-24425545 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24425863-24426594 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24432920-24433420 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24441797-24442704 Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 53 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24460095-24460596 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24470679-24471340 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24471341-24472000 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24472001-24472660 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24484347-24484848 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24484849-24485348 Neighboring gene synapse differentiation inducing 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24492633-24493134 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24493135-24493634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24565613-24566113 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24570298-24570888 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24570889-24571480 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24590903-24591802 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24596611-24597428 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24614353-24615005 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24619223-24619724 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24619725-24620224 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24715421-24716327 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24717937-24718763 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17644 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17645 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24723033-24723933 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24727663-24728164 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24728165-24728664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24743840-24744340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17646 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24770113-24770614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24789476-24789976 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24796263-24796764 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24796765-24797264 Neighboring gene uncharacterized LOC107985402 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:24806238-24806412 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17647 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:24849215-24849714 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17648 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17649 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17650 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:24855486-24855986 Neighboring gene uncharacterized LOC124904881

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

  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:24615170-24616008

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_087504.1 

    Range
    101..1300
    Download
    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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    24634453..24635652
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    24697277..24698476
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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