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LOC126860593 CDK7 strongly-dependent group 2 enhancer GRCh37_chr9:21684484-21685683 [ Homo sapiens (human) ]

Gene ID: 126860593, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126860593
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr9:21684484-21685683
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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Location:
chromosome: 9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (21684485..21685684)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (21698685..21699885)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene MIR31 host gene Neighboring gene small nucleolar RNA SNORD55/SNORD39 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr9:21558572-21559358 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19808 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_107244 Neighboring gene H3 histone pseudogene 30 Neighboring gene uncharacterized LOC107987026 Neighboring gene RNA, 7SL, cytoplasmic 151, pseudogene Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 9:21720826 Neighboring gene KH-type splicing regulatory protein pseudogene 1 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 9:21760452 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:21801514-21802144 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:21802145-21802773 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19809 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28241 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 9:21805208 Neighboring gene tubulin beta 8 class VIII pseudogene 1 Neighboring gene methylthioadenosine phosphorylase

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_085093.1 

    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
    21684485..21685684
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    21698685..21699885
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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