U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC113939958 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:16946458-16947657 [ Homo sapiens (human) ]

Gene ID: 113939958, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC113939958
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:16946458-16947657
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic sequence was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. A subregion 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 1 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on P300/CBP. An overlapping subregion was also validated as a functional repressive element by Sharpr-MPRA (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in HepG2 liver carcinoma cells (group: HepG2 Repressive non-DNase unmatched - State 2:TssF, active promoter, flanking TSS/CpG islands). [provided by RefSeq, Aug 2022]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
17p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (17043144..17044449)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (16989228..16990533)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (16947469..16947763)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11784 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:16899244-16899806 Neighboring gene long intergenic non-protein coding RNA 2090 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11785 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:16908048-16908576 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:16914402-16915394 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:16923086-16924033 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:16932678-16933252 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11786 Neighboring gene uncharacterized LOC124903938 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8233 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:16959278-16959917 Neighboring gene myosin phosphatase Rho interacting protein Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:16975468-16975993 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:16975994-16976520 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:16991083-16991584 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:16999002-16999588 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11787 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:17011600-17012124 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:17022544-17023069 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17029831-17030330 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17030795-17031296 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17031297-17031796 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:17034927-17035431 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11788 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:17043984-17044574 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17045275-17045817 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17045818-17046359 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11789 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17070554-17071156 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17074887-17075546 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:17075547-17076206 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11790 Neighboring gene RNA, U6 small nuclear 767, pseudogene Neighboring gene RNA, 7SL, cytoplasmic 775, pseudogene

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. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst J, et al. Nat Biotechnol, 2016 Nov. PMID 27701403, 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

See Variation Viewer (GRCh37.p13)

General gene information

Go to the top of the page Help

Other Names

  • Sharpr-MPRA regulatory region 13867

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_063741.2 

    Range
    101..1406
    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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    17043144..17044449
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    16989228..16990533
    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