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LOC126862205 CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:85880057-85881256 [ Homo sapiens (human) ]

Gene ID: 126862205, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126862205
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:85880057-85881256
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 2 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on CDK7. A subregion was also validated as an enhancer by ChIP-STARR-seq in primed human embryonic stem cells, where it is marked by the H3K27ac histone modification. [provided by RefSeq, Dec 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 (85336826..85338025)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (83088872..83090066)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10002 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:85802852-85803352 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:85803353-85803853 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:85805463-85806020 Neighboring gene ADAMTS7 pseudogene 4 Neighboring gene dynamin 1 pseudogene 45 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10003 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10005 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10006 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10007 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10008 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_42066 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10009 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10010 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6779 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:85924371-85924538 Neighboring gene uncharacterized LOC124903546 Neighboring gene microRNA 7706 Neighboring gene A-kinase anchoring protein 13

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 hESC enhancer GRCh37_chr15:85880347-85880848

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_086703.1 

    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
    85336826..85338025
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    83088872..83090066
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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