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LOC126862161 BRD4-independent group 4 enhancer GRCh37_chr15:68238558-68239757 [ Homo sapiens (human) ]

Gene ID: 126862161, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126862161
Gene description
BRD4-independent group 4 enhancer GRCh37_chr15:68238558-68239757
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 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. [provided by RefSeq, Sep 2022]
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Genomic context

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Location:
chromosome: 15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (67946220..67947419)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (65767823..65769023)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68125833-68126669 Neighboring gene NANOG hESC enhancer GRCh37_chr15:68129167-68129697 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:68132321-68133273 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:68133274-68134225 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68138024-68138524 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68138525-68139025 Neighboring gene SKOR1 antisense RNA 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:68145177-68145734 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr15:68145735-68146290 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9636 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68152060-68152560 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9637 Neighboring gene SKI family transcriptional corepressor 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9638 Neighboring gene RNA, U6 small nuclear 1 Neighboring gene CRISPRi-validated cis-regulatory element chr15.1880 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:68210766-68211352 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_40776 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9639 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9640 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_40781 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68260831-68261747 Neighboring gene ribosomal protein S15a pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:68299513-68300103 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:68301209-68302094 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr15:68302095-68302980 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:68308948-68309655 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:68312077-68312615 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:68312616-68313153 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:68314382-68315165 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68337310-68337830 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68337831-68338350 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6583 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:68361989-68362489 Neighboring gene protein inhibitor of activated STAT 1 Neighboring gene uncharacterized LOC105370871

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_086659.1 

    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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    67946220..67947419
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    65767823..65769023
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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