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LOC126805593 CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:5408560-5409759 [ Homo sapiens (human) ]

Gene ID: 126805593, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126805593
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:5408560-5409759
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 2 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on CDK7. [provided by RefSeq, Sep 2022]
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Genomic context

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See LOC126805593 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (5348500..5349699)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (4865638..4866837)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2782 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:5178470-5179138 Neighboring gene uncharacterized LOC105376682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:5203113-5203613 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:5217254-5217754 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:5285469-5286066 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:5286067-5286664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:5371655-5372156 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:5448514-5449713 Neighboring gene Sharpr-MPRA regulatory region 1516 Neighboring gene uncharacterized LOC124904590 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:5487427-5487926 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:5489955-5491154 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:5510651-5511489 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:5511490-5512327 Neighboring gene uncharacterized LOC107984911

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_081917.1 

    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    5348500..5349699
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    4865638..4866837
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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