U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC126807241 CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:185304232-185305431 [ Homo sapiens (human) ]

Gene ID: 126807241, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC126807241
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:185304232-185305431
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. In HCT116 colorectal carcinoma cells, a subregion was defined as a group 2 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on CDK7. Another 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, Jan 2023]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (184383078..184384854)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (187726912..187728688)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15835 Neighboring gene long intergenic non-protein coding RNA 2363 Neighboring gene Sharpr-MPRA regulatory region 724 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22213 Neighboring gene long intergenic non-protein coding RNA 2362 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22214 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:185307527-185308285 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:185310291-185311024 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:185311025-185311758 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:185314606-185314781 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22215 Neighboring gene interferon regulatory factor 2 Neighboring gene Sharpr-MPRA regulatory region 12125 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22216 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr4:185339175-185340374 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:185351299-185351950 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:185351951-185352602 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22218 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22219 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22220 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15836 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15837 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15838 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15839 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22221 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22222 Neighboring gene IRF2 divergent transcript

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

  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:185305249-185306008

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_083562.2 

    Range
    101..1877
    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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    184383078..184384854
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    187726912..187728688
    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