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LOC126806612 CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:14293769-14294968 [ Homo sapiens (human) ]

Gene ID: 126806612, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126806612
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:14293769-14294968
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: 3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (14252269..14253468)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (14254164..14255363)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19501 Neighboring gene LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14251094-14251594 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14251595-14252095 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14091 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14092 Neighboring gene uncharacterized LOC105376958 Neighboring gene CRISPRi-validated cis-regulatory element chr3.770 Neighboring gene CRISPRi-validated cis-regulatory element chr3.771 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14308196-14308835 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14313268-14314040 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:14314041-14314814 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14314815-14315586 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14317906-14318677 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14323255-14323756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14324521-14325022 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:14332587-14333288 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14333289-14333989 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14334913-14335413 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14339415-14339967 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14348760-14349494 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19503 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14364440-14365033 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_64938 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:14370566-14370759 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14373654-14374183 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_64943 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14394065-14394622 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14395183-14395740 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14395741-14396298 Neighboring gene long intergenic non-protein coding RNA 1267 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14408879-14409397 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19504 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14417978-14418496 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14418497-14419013 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14424454-14424979 Neighboring gene uncharacterized LOC105376959 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14435811-14436550 Neighboring gene RNA, 5S ribosomal pseudogene 124

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_082932.1 

    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    14252269..14253468
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    14254164..14255363
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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