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LOC126807559 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:152191225-152192424 [ Homo sapiens (human) ]

Gene ID: 126807559, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126807559
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:152191225-152192424
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 an accessible chromatin subregion that was validated as an enhancer based on its 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: 5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (152811665..152812864)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (153344783..153345982)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene NANOG hESC enhancer GRCh37_chr5:152022318-152022903 Neighboring gene tRNA-Cys (anticodon ACA) 1-1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:152038685-152039224 Neighboring gene long intergenic non-protein coding RNA 1470 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83100 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83142 Neighboring gene uncharacterized LOC124901117 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83185 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:152147932-152148511 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83374 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83428 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83450 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:152415832-152416029 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:152455744-152456284 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83469 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83487 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:152685418-152686617 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr5:152729354-152730121 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr5:152730122-152730888 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:152731661-152732860 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:152829283-152830143 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:152835859-152836432 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16531 Neighboring gene glutamate ionotropic receptor AMPA type subunit 1 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr5:153162167-153162715 Neighboring gene NANOG hESC enhancer GRCh37_chr5:153170808-153171397 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16532 Neighboring gene RNA, 7SL, cytoplasmic 177, pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:153204359-153204899 Neighboring gene long intergenic non-protein coding RNA 1861

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 23470

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_083873.1 

    Range
    101..1300
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    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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    152811665..152812864
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    153344783..153345982
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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