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LOC126861143 CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:12087483-12088682 [ Homo sapiens (human) ]

Gene ID: 126861143, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126861143
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:12087483-12088682
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 and H3K4me1 histone modifications. [provided by RefSeq, Dec 2022]
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Genomic context

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Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (12065936..12067135)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (12157793..12158992)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3160 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11989412-11990036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11990037-11990660 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11990661-11991284 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:11991285-11991908 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11997959-11998520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:11998521-11999082 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12028425-12029360 Neighboring gene dickkopf WNT signaling pathway inhibitor 3 Neighboring gene long intergenic non-protein coding RNA 2547 Neighboring gene Sharpr-MPRA regulatory region 886 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12114457-12114957 Neighboring gene long intergenic non-protein coding RNA 2989 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:12125283-12125783 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:12132043-12132746 Neighboring gene GATA motif-containing MPRA enhancer 176/177 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12158230-12158730 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12160461-12161004 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12161005-12161546 Neighboring gene microtubule associated monooxygenase, calponin and LIM domain containing 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:12184971-12185470 Neighboring gene microRNA 6124

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_chr11:12087698-12088220

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_085642.1 

    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    12065936..12067135
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    12157793..12158992
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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