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LOC112081394 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:44729901-44731100 [ Homo sapiens (human) ]

Gene ID: 112081394, updated on 10-Oct-2023

Summary

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Gene symbol
LOC112081394
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:44729901-44731100
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. It 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. This sequence 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. A subregion was also validated as a functional enhancer 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 Activating DNase matched - State 8:EnhW, candidate weak enhancer and open chromatin). The same subregion also displayed repressive activity by Sharpr-MPRA in K562 erythroleukemia cells (group: K562 Repressive non-DNase unmatched - State 22:ReprW, weaker Polycomb repression). [provided by RefSeq, Aug 2022]
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Genomic context

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Location:
11p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (44708351..44709550)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (44865267..44866466)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (44730749..44731043)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44656670-44657458 Neighboring gene ribosomal protein L34 pseudogene 22 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44675065-44675680 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44676298-44676913 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:44685723-44686240 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44692285-44693064 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44693065-44693844 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44693845-44694623 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:44710524-44711057 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44713680-44714180 Neighboring gene long intergenic non-protein coding RNA 2704 Neighboring gene Sharpr-MPRA regulatory region 8672 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44747040-44747900 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44747901-44748762 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3279 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:44750014-44750516 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:44750517-44751017 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44763637-44764332 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44764333-44765028 Neighboring gene tetraspanin 18 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44770929-44771430 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44774444-44775252 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44775253-44776059 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44787811-44788311 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44795688-44796462 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44798427-44798928 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44798929-44799428 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21411 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44806959-44807560 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44807561-44808160 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44816852-44817768 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:44819455-44820133 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21423 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44844210-44845075 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44845076-44845940 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44845941-44846806 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21436 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21440 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21441 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21442 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44869391-44869986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44870581-44871176 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44871177-44871770 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21450 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44878622-44879400 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44883049-44883676 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4663 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44883677-44884304 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44907116-44907616 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44907617-44908117 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44914725-44915296 Neighboring gene uncharacterized LOC124902664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44932558-44933414 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44944349-44944850 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:44952242-44952850 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44957874-44958474 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44960045-44960758 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44964865-44965513 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:44966723-44967326 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3281 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3282 Neighboring gene tumor protein p53 inducible protein 11

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. 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

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • Sharpr-MPRA regulatory region 3015

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_056455.2 

    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    44708351..44709550
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    44865267..44866466
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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