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LOC126863239 MED14-independent group 3 enhancer GRCh37_chrX:39932994-39934193 [ Homo sapiens (human) ]

Gene ID: 126863239, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126863239
Gene description
MED14-independent group 3 enhancer GRCh37_chrX:39932994-39934193
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. This sequence 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. [provided by RefSeq, Sep 2022]
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Genomic context

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Location:
chromosome: X
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (40073741..40074940)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (39474986..39476185)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373180 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39787967-39788468 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39788469-39788968 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29533 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39808059-39808558 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:39813184-39813412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39828711-39829255 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39832750-39833500 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chrX:39863451-39863973 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:39865487-39866423 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39867643-39868270 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39871294-39872017 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20740 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:39873755-39874254 Neighboring gene long intergenic non-protein coding RNA 3053 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39918103-39918602 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20741 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chrX:39950161-39950788 Neighboring gene BCL6 corepressor Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:39952045-39952671 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29534 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20742 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20743 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20744 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20745 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20746 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20747 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39959601-39960121 Neighboring gene translation initiation factor IF-2-like Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39961792-39962382 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20749 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20748 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29535 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20750 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20751 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20752 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39966379-39967135 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20753 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:39971030-39971309 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:39999891-40000415 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40007775-40008318 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20754 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chrX:40015867-40016606 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chrX:40016607-40017346 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20755 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20756 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chrX:40028374-40029064 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:40029065-40029755 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20757 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20758 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29537 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20759 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20760 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20761 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:40041386-40041565 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20762 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:40070301-40070852 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chrX:40097124-40097650 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29538 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29539 Neighboring gene long intergenic non-protein coding RNA 3099 Neighboring gene Sharpr-MPRA regulatory region 4836 Neighboring gene small nucleolar RNA U13

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

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

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_087735.1 

    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_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    40073741..40074940
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    39474986..39476185
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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