U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC126860883 CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:24721337-24722536 [ Homo sapiens (human) ]

Gene ID: 126860883, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC126860883
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:24721337-24722536
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 includes enhancers that were validated by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay. The major subregion had activity 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. Two subregions were also shown to be active enhancers by ChIP-STARR-seq in human embryonic stem cells, where both are associated with the NANOG transcription factor, with one subregion being additionally associated with OCT4 and the other being additionally marked by the H3K4me1 histone modification. [provided by RefSeq, Nov 2022]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (24432408..24434121)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (24450933..24452646)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene KIAA1217 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:24491171-24491936 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:24498253-24499452 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:24503338-24503926 Neighboring gene nucleoporin 35 pseudogene 1 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:24511600-24512328 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:24526677-24527202 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:24581301-24582500 Neighboring gene microRNA 603 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3154 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3155 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3156 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:24669872-24670068 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr10:24671977-24673176 Neighboring gene uncharacterized LOC124902395 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3159 Neighboring gene uncharacterized LOC105376455 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:24751397-24751898 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_11630 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:24782535-24783036 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:24783037-24783536 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr10:24783692-24784472 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:24790381-24790881 Neighboring gene uncharacterized LOC124902394

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

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

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

General gene information

Go to the top of the page Help

Other Names

  • NANOG-H3K4me1 hESC enhancer GRCh37_chr10:24721392-24722028
  • OCT4-NANOG hESC enhancer GRCh37_chr10:24722374-24723050

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_085382.2 

    Range
    101..1814
    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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    24432408..24434121
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    24450933..24452646
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases