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LOC126862648 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:75084131-75085330 [ Homo sapiens (human) ]

Gene ID: 126862648, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126862648
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:75084131-75085330
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 (MPRA). In HCT116 colorectal carcinoma cells, a subregion 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. 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. 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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See LOC126862648 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (77088049..77089679)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (77980901..77982530)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9029 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74881066-74881940 Neighboring gene alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74901567-74902178 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74902179-74902790 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74912167-74912666 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74933764-74934306 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74936614-74937172 Neighboring gene uncharacterized LOC105371899 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:74953917-74954830 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9030 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74965460-74966084 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74978799-74979337 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74979338-74979875 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74991281-74991822 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:74993993-74994533 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12819 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75048917-75049660 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:75052409-75052622 Neighboring gene Sharpr-MPRA regulatory region 11385 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12822 Neighboring gene NANOG hESC enhancer GRCh37_chr17:75102846-75103510 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12823 Neighboring gene small Cajal body-specific RNA 16 Neighboring gene SEC14 like lipid binding 1 Neighboring gene microRNA 6516 Neighboring gene small nucleolar RNA host gene 20 Neighboring gene uncharacterized LOC105371901 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75120061-75120834 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12824 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:75129013-75129514 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9031 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9032 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9033 Neighboring gene Sharpr-MPRA regulatory region 40 Neighboring gene RNA, U4 small nuclear 47, pseudogene

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
  3. 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

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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 12820
  • ATAC-STARR-seq lymphoblastoid active region 12821
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:75084827-75085761

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_087145.2 

    Range
    101..1731
    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
    77088049..77089679
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    77980901..77982530
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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