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LOC126806959 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:5367115-5368314 [ Homo sapiens (human) ]

Gene ID: 126806959, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126806959
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:5367115-5368314
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 (MPRA) 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. This locus also includes two accessible chromatin subregions that were validated as enhancers based on their ability to activate an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

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Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (5365388..5366587)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (5334839..5336038)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21236 Neighboring gene uncharacterized LOC107986256 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:5044739-5045239 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:5053909-5054447 Neighboring gene serine/threonine kinase 32B Neighboring gene cytokine like 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21237 Neighboring gene Sharpr-MPRA regulatory region 6927 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:5135748-5136346 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:5155881-5156382 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:5167073-5168272 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr4:5200564-5201064 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:5206884-5207384 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:5207385-5207885 Neighboring gene Sharpr-MPRA regulatory region 9083 Neighboring gene RN7SK pseudogene 275 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:5526681-5527880 Neighboring gene long intergenic non-protein coding RNA 1587

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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers across the chromatin accessible human genome. Hansen TJ, et al. Genome Res, 2022 Jul 20. PMID 35858748, 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

  • ATAC-STARR-seq lymphoblastoid active region 21238
  • ATAC-STARR-seq lymphoblastoid active region 21239

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_083280.1 

    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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    5365388..5366587
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    5334839..5336038
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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