U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC126859669 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:39170808-39172007 [ Homo sapiens (human) ]

Gene ID: 126859669, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC126859669
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr6:39170808-39172007
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 1 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on P300/CBP. Two subregions marked by the H3K27ac and H3K4me1 histone modificationswere also shown to be active enhancers by ChIP-STARR-seq in naive human embryonic stem cells. [provided by RefSeq, Oct 2022]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 6
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (39203032..39205092)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (39027453..39029513)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375046 Neighboring gene glucagon like peptide 1 receptor Neighboring gene VISTA enhancer hs2612 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24488 Neighboring gene ankyrin repeat domain 18E, pseudogene Neighboring gene SAYSVFN motif domain containing 1 Neighboring gene NANOG hESC enhancer GRCh37_chr6:39099268-39099866 Neighboring gene MPRA-validated peak5798 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:39176709-39177666 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:39177695-39178235 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_91581 Neighboring gene potassium two pore domain channel subfamily K member 5 Neighboring gene Sharpr-MPRA regulatory region 4644 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17163 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17164 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17165 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:39197829-39198556 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:39231061-39231786 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:39231787-39232512 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:39240749-39241250 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:39241251-39241750 Neighboring gene NANOG hESC enhancer GRCh37_chr6:39259242-39259743 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:39264681-39265194 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17166 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24489 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:39271654-39271813 Neighboring gene uncharacterized LOC105375047 Neighboring gene potassium two pore domain channel subfamily K member 17 Neighboring gene potassium two pore domain channel subfamily K member 16

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_chr6:39170949-39171908
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:39171909-39172868

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_084170.2 

    Range
    101..2161
    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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    39203032..39205092
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    39027453..39029513
    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