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LOC126860669 BRD4-independent group 4 enhancer GRCh37_chr9:89891312-89892511 [ Homo sapiens (human) ]

Gene ID: 126860669, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126860669
Gene description
BRD4-independent group 4 enhancer GRCh37_chr9:89891312-89892511
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 in HCT116 colorectal carcinoma cells. This sequence was defined as a group 4 enhancer that depends on the BRD2, P300/CBP, MED14 and CDK7 cofactors, but it has limited or no dependence on the BRD4 bromodomain protein. [provided by RefSeq, Sep 2022]
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Genomic context

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Location:
chromosome: 9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (87276397..87277596)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (99429789..99430988)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:89763162-89763670 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:89763671-89764178 Neighboring gene long intergenic non-protein coding RNA 2872 Neighboring gene Sharpr-MPRA regulatory region 9207 Neighboring gene uncharacterized LOC105376126 Neighboring gene NANOG hESC enhancer GRCh37_chr9:89814775-89815276 Neighboring gene uncharacterized LOC124900285 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:89951383-89951552 Neighboring gene uncharacterized LOC105376127 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:90001899-90002782 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:90017019-90017636 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:90017637-90018252 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr9:90020422-90020972 Neighboring gene cytochrome c oxidase subunit NDUFA4-like Neighboring gene hESC enhancers GRCh37_chr9:90024569-90025224 and GRCh37_chr9:90025225-90025878 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:90025879-90026532 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:90031115-90031768

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

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

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_085169.1 

    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    87276397..87277596
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    99429789..99430988
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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